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Sample records for complexes crystal structure

  1. Crystal structure of putrescine aspartic acid complex

    OpenAIRE

    Ramaswamy, S.; Murthy, MRN

    1990-01-01

    Polyamines, putrescine, spermidine and spermine are ubiquitous biogenic cations believed to be important for a variety of cellular processes. In order to obtain structural information on the interaction of these amines with other biomolecules, the structure of a complex of putrescine with aspartic acid was determined using single crystal X-ray diffraction methods. The crystals belong monoclinic space group $C_2$ with $a = 21.504 \\AA$, $b = 4.779 \\AA$, $c = 8.350 \\AA$ and $\\beta = {97.63}^{\\ci...

  2. Crystallization and Structure Determination of Superantigens and Immune Receptor Complexes.

    Science.gov (United States)

    Rödström, Karin E J; Lindkvist-Petersson, Karin

    2016-01-01

    Structure determination of superantigens and the complexes they form with immune receptors have over the years provided insight in their modes of action. This technique requires growing large and highly ordered crystals of the superantigen or receptor-superantigen complex, followed by exposure to X-ray radiation and data collection. Here, we describe methods for crystallizing superantigens and superantigen-receptor complexes using the vapor diffusion technique, how the crystals may be optimized, and lastly data collection and structure determination.

  3. Synthesis and Crystal Structure of a New Manganese Complex

    Institute of Scientific and Technical Information of China (English)

    WANG Jian; LIU Ping; CHEN Yun

    2003-01-01

    @@ In order to study the relationship between the manganese ion and the biological coordination agent, the role ofmanganese ion in the active sites and the structure of the active sites in the manganese enzymes, small molecule complexes are often applied to modeling the structure and the properties of reaction in the active centers. In this pa per, we will report the synthesis and crystal structure of a new manganese(Ⅱ) complex, catena[ aqua-(p-methoxybenzoato- O, O′ ) - (p-methoxybenzoato- O )- (2,2′-bipyridine)-manganese (Ⅱ) ] (p-methoxybenzoic acid). The crystal structure was confirmeded by X-ray crystallography analysis.

  4. Photonic crystals, light manipulation, and imaging in complex nematic structures

    Science.gov (United States)

    Ravnik, Miha; Å timulak, Mitja; Mur, Urban; Čančula, Miha; Čopar, Simon; Žumer, Slobodan

    2016-03-01

    Three selected approaches for manipulation of light by complex nematic colloidal and non-colloidal structures are presented using different own custom developed theoretical and modelling approaches. Photonic crystals bands of distorted cholesteric liquid crystal helix and of nematic colloidal opals are presented, also revealing distinct photonic modes and density of states. Light propagation along half-integer nematic disclinations is shown with changes in the light polarization of various winding numbers. As third, simulated light transmission polarization micrographs of nematic torons are shown, offering a new insight into the complex structure characterization. Finally, this work is a contribution towards using complex soft matter in optics and photonics for advanced light manipulation.

  5. Crystal structure of eukaryotic ribosome and its complexes with inhibitors.

    Science.gov (United States)

    Yusupova, Gulnara; Yusupov, Marat

    2017-03-19

    A high-resolution structure of the eukaryotic ribosome has been determined and has led to increased interest in studying protein biosynthesis and regulation of biosynthesis in cells. The functional complexes of the ribosome crystals obtained from bacteria and yeast have permitted researchers to identify the precise residue positions in different states of ribosome function. This knowledge, together with electron microscopy studies, enhances our understanding of how basic ribosome processes, including mRNA decoding, peptide bond formation, mRNA, and tRNA translocation and cotranslational transport of the nascent peptide, are regulated. In this review, we discuss the crystal structure of the entire 80S ribosome from yeast, which reveals its eukaryotic-specific features, and application of X-ray crystallography of the 80S ribosome for investigation of the binding mode for distinct compounds known to inhibit or modulate the protein-translation function of the ribosome. We also refer to a challenging aspect of the structural study of ribosomes, from higher eukaryotes, where the structures of major distinctive features of higher eukaryote ribosome-the high-eukaryote-specific long ribosomal RNA segments (about 1MDa)-remain unresolved. Presently, the structures of the major part of these high-eukaryotic expansion ribosomal RNA segments still remain unresolved.This article is part of the themed issue 'Perspectives on the ribosome'.

  6. Synthesis and Crystal Structure of a New Mononuclear Copper Complex

    Institute of Scientific and Technical Information of China (English)

    2002-01-01

    A new kind of Cu (Ⅱ) complex [Cu(tpmb)2Cl2]@CH3OH@H2O (tpmb = 1,3,5-tri(2- pyrimidinyl)sulfanylmethyl-2,4,6-trimethylbenzene) was synthesized, and its structure has been determined by X-ray single-crystal diffraction. It crystallizes in the triclinic, space group P ī with a = 8.8397(2), b = 13.327(3), c = 13.926(3) (A), ( = 63.27(3), ( = 86.96(3), ( = 80.68(3)°, V = 1445.6(5) (A)3, C49H51Cl2CuN12O2S6, Mr = 1166.82, Z = 1, F(000) = 604, Dc = 1.340 g/cm3, μ = 0.735 mm-1, R = 0.0545 and wR = 0.1575 for 4521 observed reflections (I > 2σ(I)). X-ray analysis reveals that the Cu (Ⅱ) ion is coordinated by two Cl- anions and two nitrogen atoms from different pyrimidine groups, forming a square structure.

  7. Crystal structure of KLHL3 in complex with Cullin3.

    Directory of Open Access Journals (Sweden)

    Alan X Ji

    Full Text Available KLHL3 is a BTB-BACK-Kelch family protein that serves as a substrate adapter in Cullin3 (Cul3 E3 ubiquitin ligase complexes. KLHL3 is highly expressed in distal nephron tubules where it is involved in the regulation of electrolyte homeostasis and blood pressure. Mutations in KLHL3 have been identified in patients with inherited hypertension disorders, and several of the disease-associated mutations are located in the presumed Cul3 binding region. Here, we report the crystal structure of a complex between the KLHL3 BTB-BACK domain dimer and two copies of an N terminal fragment of Cul3. We use isothermal titration calorimetry to directly demonstrate that several of the disease mutations in the KLHL3 BTB-BACK domains disrupt the association with Cul3. Both the BTB and BACK domains contribute to the Cul3 interaction surface, and an extended model of the dimeric CRL3 complex places the two E2 binding sites in a suprafacial arrangement with respect to the presumed substrate-binding sites.

  8. Determination of channeling perspectives for complex crystal structures

    Energy Technology Data Exchange (ETDEWEB)

    Allen, W.R.

    1993-03-01

    Specification of the atomic arrangement for axes and planes of high symmetry is essential for crystal alignment using Rutherford backscattering and for studies of the lattice location of impurities in single crystals. By rotation of an inscribed orthogonal coordinate system, a visual image for a given perspective of a crystal structure can be specified. Knowledge of the atomic arrangement permits qualitative channeling perspectives to be visualized and calculation of continuum potentials for channeling. Channeling angular-yield profiles can then be analytically modeled and, subsequently, shadowing by host atoms of positions within the unit cell predicted. Software to calculate transformed atom positions for a channeling perspective in a single crystal are described and illustrated for the spinel crystal structure.

  9. Synthesis and Crystal Structure of a New Salen Complex

    Institute of Scientific and Technical Information of China (English)

    LI Li-Jun; LI Ying; SUN Wen-Hua

    2003-01-01

    @@ Salen Schiff base complexes are some of the most important stereochemical models in transition metal coordina tion chemistry, with their ease of preparation and structural variation. [1] Salen complexes are extensively used as organic reaction catalysts, it was reported to be used in asymmetric cyclopropanation, epoxidation, aziridination, hydrolysis, alkylation, Diels-Alder reaction, reduction, oxidation etc. Here we report the synthesis and structure of a new salen nickel complex 4.

  10. Protein-complex structure completion using IPCAS (Iterative Protein Crystal structure Automatic Solution).

    Science.gov (United States)

    Zhang, Weizhe; Zhang, Hongmin; Zhang, Tao; Fan, Haifu; Hao, Quan

    2015-07-01

    Protein complexes are essential components in many cellular processes. In this study, a procedure to determine the protein-complex structure from a partial molecular-replacement (MR) solution is demonstrated using a direct-method-aided dual-space iterative phasing and model-building program suite, IPCAS (Iterative Protein Crystal structure Automatic Solution). The IPCAS iteration procedure involves (i) real-space model building and refinement, (ii) direct-method-aided reciprocal-space phase refinement and (iii) phase improvement through density modification. The procedure has been tested with four protein complexes, including two previously unknown structures. It was possible to use IPCAS to build the whole complex structure from one or less than one subunit once the molecular-replacement method was able to give a partial solution. In the most challenging case, IPCAS was able to extend to the full length starting from less than 30% of the complex structure, while conventional model-building procedures were unsuccessful.

  11. Crystal structure and physical properties of a dithiolene complex crystal with adamantane supramolecular rotator

    OpenAIRE

    Yan, Yin-Nan; Kubo, Kazuya; Noro, Shin-ichiro; Akutagawa, Tomoyuki; Nakamura, Takayoshi

    2014-01-01

    Supramolecular cation salt of adamantane rotator with a dithiolene complex, (fluoroadamantylammonium(+))([18]-crown-6)[Ni(dmit)(2)](-) (1) was synthesized. The fluorine atom of the adamantane unit showed a large thermal factor elongated latitudinally, suggesting molecular rotation in the solid state. Crystal 1 exhibited a large dielectric response by applying an AC field along the a axis.

  12. The Crystal Structure and Behavior of Fenamic Acid-Acridine Complex Under High Pressure.

    Science.gov (United States)

    Jerzykiewicz, Lucjan; Sroka, Adam; Majerz, Irena

    2016-12-01

    The crystal structure of fenamic acid-acridine complex is determined by X-ray diffraction. The strong OHN hydrogen bond linking the complex components and other interactions responsible for packing of the molecules into a crystal are investigated within the Quantum Theory of Atom in Molecule theory. The crystal structure is compared with the structure optimized at B3LYP/6-311++G** level and with the theoretical structures optimized under systematically changed pressure. Analysis of the lattice constants, hydrogen bond lengths, and angles of the inter- and intramolecular hydrogen bond under compression is performed. The structural transformation observed at 5 GPa is connected with a change in the intermolecular OHN hydrogen bond. The proton shifts to acceptor and a new interaction in the crystal appears.

  13. Structural insights into the mycobacteria transcription initiation complex from analysis of X-ray crystal structures

    Energy Technology Data Exchange (ETDEWEB)

    Hubin, Elizabeth A.; Lilic, Mirjana; Darst, Seth A.; Campbell, Elizabeth A.

    2017-07-13

    The mycobacteria RNA polymerase (RNAP) is a target for antimicrobials against tuberculosis, motivating structure/function studies. Here we report a 3.2 Å-resolution crystal structure of a Mycobacterium smegmatis (Msm) open promoter complex (RPo), along with structural analysis of the Msm RPo and a previously reported 2.76 Å-resolution crystal structure of an Msm transcription initiation complex with a promoter DNA fragment. We observe the interaction of the Msm RNAP α-subunit C-terminal domain (αCTD) with DNA, and we provide evidence that the αCTD may play a role in Mtb transcription regulation. Our results reveal the structure of an Actinobacteria-unique insert of the RNAP β' subunit. Finally, our analysis reveals the disposition of the N-terminal segment of Msm σA, which may comprise an intrinsically disordered protein domain unique to mycobacteria. The clade-specific features of the mycobacteria RNAP provide clues to the profound instability of mycobacteria RPo compared with E. coli.

  14. Diamino-ligated platinum(II) and platinum(IV) phenoxide complexes; syntheses and crystal structures

    NARCIS (Netherlands)

    Koten, G. van; Kapteijn, G.M.; Meijer, M.D.; Grove, D.M.; Veldman, N.; Spek, A.L.

    1997-01-01

    The reaction of the diamino-ligated dimethylplatinum(II) complex [Pt(Me){2}(bpy)] (bpy=2, 2'-bipyridyl) with phenol affords the new complex [Pt(Me)(OPh)(bpy)] (1). The X-ray crystal structure of square-planar 1 is reported: orthorhombic, space group P2{1}2{1}2{1} (No. 19), a = 9.1625(12), b =

  15. Three-Dimentional Structures of Autophosphorylation Complexes in Crystals of Protein Kinases

    KAUST Repository

    Dumbrack, Roland

    2016-01-26

    Protein kinase autophosphorylation is a common regulatory mechanism in cell signaling pathways. Several autophosphorylation complexes have been identified in crystals of protein kinases, with a known serine, threonine, or tyrosine autophosphorylation site of one kinase monomer sitting in the active site of another monomer of the same protein in the crystal. We utilized a structural bioinformatics method to identify all such autophosphorylation complexes in X-ray crystallographic structures in the Protein Data Bank (PDB) by generating all unique kinase/kinase interfaces within and between asymmetric units of each crystal and measuring the distance between the hydroxyl oxygen of potential autophosphorylation sites and the oxygen atoms of the active site aspartic acid residue side chain. We have identified 15 unique autophosphorylation complexes in the PDB, of which 5 complexes have not previously been described in the relevant publications on the crystal structures (N-terminal juxtamembrane regions of CSF1R and EPHA2, activation loop tyrosines of LCK and IGF1R, and a serine in a nuclear localization signal region of CLK2. Mutation of residues in the autophosphorylation complex interface of LCK either severely impaired autophosphorylation or increased it. Taking the autophosphorylation complexes as a whole and comparing them with peptide-substrate/kinase complexes, we observe a number of important features among them. The novel and previously observed autophosphorylation sites are conserved in many kinases, indicating that by homology we can extend the relevance of these complexes to many other clinically relevant drug targets.

  16. Synthesis, Character and Crystal Structure of the Complex {Er(DMSO)7} PW12O40

    Institute of Scientific and Technical Information of China (English)

    HAN Qiu-Xia; ZHANG Da-Li; MA Jian-Ru; WANG Jing-Ping; NIU Jing-Yang

    2007-01-01

    The synthesis, X-ray crystal structure, thermal properties and electrochemistry of the new complex formulated as {Er(DMSO)7}PW12O40 are reported. The single-crystal X-ray analysis reveals that the crystal crystallizes in the monoclinic system, space group P21/c with a=11.767(2), b=14.909(3), c=34.905(7)(A), β=98.97(3)°, Mr=3591.33, V=6049(2) (A)3, Dc=3.944g/em3, Z=4, GOOF=1.098, F(000)=6340, R=0.0490 and wR=0.1202. Crystal structure analysis indicates that the Er(Ⅲ) is seven-coordinate with a distorted pentagonal bipyramid and combines to the anion [PW12O40]3- via static electric force.

  17. Two organoantimony (V) coordination complexes modulated by isomers of trifluoromethylbenzoate ligands: Syntheses, crystal structure, photodegradation properties

    Science.gov (United States)

    Zhang, Xiao-Yin; Cui, Lian-sheng; Zhang, Xia; Jin, Fan; Fan, Yu-Hua

    2017-04-01

    Two organoantimony (V) coordination complexes, namely Ph3Sb(2-tmbc) (1) and Ph3Sb(3-tmbc) (2) (2-tmbc = 2-(trifluoromethyl)benzoic carboxyl, 3-tmbc = 3-(trifluoromethyl)benzoic carboxyl) have been synthesized and characterized by IR spectra, elemental analysis, powder X-ray diffraction (PXRD) and single-crystal X-ray diffraction. Single-crystal X-ray diffraction analysis reveals that complexes 1 and 2 show different architectures by the intermolecular hydrogen bonds (Csbnd H⋯F), complex 1 displays an 1D straight chain structure, while complex 2 shows an 1D zigzag chain structure. The photodegradation properties of complexes 1 and 2 has been investigated in organic dyes (RhB, MV, MB) the results indicated that the two complexes are good candidates for the photocatalytic degradation of three dyes. The tentative photocatalytic degradations mechanism is discussed.

  18. Synthesis, Crystal Structure, and Antimicrobial Properties of [Diaquabis(hexamethylenetetraminediisothiocyanato-κN]nickel(II  Complex

    Directory of Open Access Journals (Sweden)

    Che Dieudonne Tabong

    2016-01-01

    Full Text Available A nickel(II complex with hexamethylenetetramine and thiocyanate ion as coligands has been synthesized and characterised by infrared spectroscopy and ultraviolet-visible spectroscopic techniques. The crystal structure of the complex was determined by single crystal X-ray diffraction and the ligands were found to coordinate terminally through N-atoms. The ligand and the complex were screened for their activity against resistant strains of bacteria (Salmonella enteric, Shigella flexneri, Escherichia coli, and Staphylococcus aureus and fungi (Candida albicans, Candida krusei, Candida parapsilosis, and Candida neoformans.

  19. Crystal Structure of Mitochondrial Respiratory Membrane Protein Complex Ⅱ Determined

    Institute of Scientific and Technical Information of China (English)

    2005-01-01

    @@ Scientists at the CAS Institute of Biophysics (IBP) and Tsinghua University have gained new insights into the mechanism of mitochondria, the subcellular structures which generate energy for living cells.

  20. CRYSTAL-STRUCTURE OF AN ELECTRON-TRANSFER COMPLEX BETWEEN METHYLAMINE DEHYDROGENASE AND AMICYANIN

    NARCIS (Netherlands)

    CHEN, LY; DURLEY, R; POLIKS, BJ; HAMADA, K; CHEN, ZW; MATHEWS, FS; DAVIDSON, VL; SATOW, Y; HUIZINGA, E; VELLIEUX, FMD; HOL, WGJ

    1992-01-01

    The crystal structure of the complex between the quinoprotein methylamine dehydrogenase (MADH) and the type I blue copper protein amicyanin, both from Paracoccus denitrificans, has been determined at 2.5-angstrom resolution using molecular replacement. The search model was MADH from Thiobacillus ver

  1. CRYSTAL-STRUCTURE OF AN ELECTRON-TRANSFER COMPLEX BETWEEN METHYLAMINE DEHYDROGENASE AND AMICYANIN

    NARCIS (Netherlands)

    CHEN, LY; DURLEY, R; POLIKS, BJ; HAMADA, K; CHEN, ZW; MATHEWS, FS; DAVIDSON, VL; SATOW, Y; HUIZINGA, E; VELLIEUX, FMD; HOL, WGJ

    1992-01-01

    The crystal structure of the complex between the quinoprotein methylamine dehydrogenase (MADH) and the type I blue copper protein amicyanin, both from Paracoccus denitrificans, has been determined at 2.5-angstrom resolution using molecular replacement. The search model was MADH from Thiobacillus

  2. Quantum Mechanics Calculations, Basicity and Crystal Structure: The Route to Transition Metal Complexes of Azahelicenes

    Directory of Open Access Journals (Sweden)

    Isabella Natali Sora

    2012-01-01

    Full Text Available Quantum mechanics density functional calculations provided gas-phase electron distributions and proton affinities for several mono- and diaza[5]helicenes; computational results, together with experimental data concerning crystal structures and propensity to methylation of the nitrogen atom(s, provide a basis for designing azahelicene complexes with transition metal ions.

  3. CRYSTAL-STRUCTURE OF AN ELECTRON-TRANSFER COMPLEX BETWEEN METHYLAMINE DEHYDROGENASE AND AMICYANIN

    NARCIS (Netherlands)

    CHEN, LY; DURLEY, R; POLIKS, BJ; HAMADA, K; CHEN, ZW; MATHEWS, FS; DAVIDSON, VL; SATOW, Y; HUIZINGA, E; VELLIEUX, FMD; HOL, WGJ

    1992-01-01

    The crystal structure of the complex between the quinoprotein methylamine dehydrogenase (MADH) and the type I blue copper protein amicyanin, both from Paracoccus denitrificans, has been determined at 2.5-angstrom resolution using molecular replacement. The search model was MADH from Thiobacillus ver

  4. Calculation and analysis of complex band structure in dispersive and dissipative two-dimensional photonic crystals

    CERN Document Server

    Brûlé, Yoann; Gralak, Boris

    2015-01-01

    Numerical calculation of modes in dispersive and absorptive systems is performed using the finite element method. The dispersion is tackled in the frame of an extension of Maxwell's equations where auxiliary fields are added to the electromagnetic field. This method is applied to multi-domain cavities and photonic crystals including Drude and Drude-Lorentz metals. Numerical results are compared to analytical solutions for simple cavities and to previous results of the literature for photonic crystals, showing excellent agreement. The advantages of the developed method lie on the versatility of the finite element method regarding geometries, and in sparing the use of tedious complex poles research algorithm. Hence the complex spectrum of resonances of non-hermitian operators and dissipative systems, like two-dimensional photonic crystal made of absorbing Drude metal, can be investigated in detail. The method is used to reveal unexpected features of their complex band structures.

  5. Diamino-ligated platinum(II) and platinum(IV) phenoxide complexes; syntheses and crystal structures

    NARCIS (Netherlands)

    Koten, G. van; Kapteijn, G.M.; Meijer, M.D.; Grove, D.M.; Veldman, N.; Spek, A.L.

    1997-01-01

    The reaction of the diamino-ligated dimethylplatinum(II) complex [Pt(Me){2}(bpy)] (bpy=2, 2'-bipyridyl) with phenol affords the new complex [Pt(Me)(OPh)(bpy)] (1). The X-ray crystal structure of square-planar 1 is reported: orthorhombic, space group P2{1}2{1}2{1} (No. 19), a = 9.1625(12), b = 12.392

  6. Synthesis and Crystal Structure of Binuclear Ytterbium Complex with Isonicotinoyl Hydrazone

    Institute of Scientific and Technical Information of China (English)

    卜显和; 鹿守亮; 陈巍; 张若桦

    2001-01-01

    The ytterbium complex of isonicotinoyl hydrazone was synthesized and the structure was determined by X-ray diffraction analysis. The crystal and molecular structure of the title complex [Yb2(L)3](OH)3 shows that the complex has two identical nine-coordinated ytterbium ions with each surrounded by N3O6 donor set. Two ytterbium ions are bridged by three phenolate oxygen atoms. The geometry around each ytterbium ions can be considered as a three-capped trigonal prism.

  7. Studies decode crystal structure of a neurotrophic factor and the p75 neurotrophin receptor complex

    Institute of Scientific and Technical Information of China (English)

    2008-01-01

    @@ CAS biophysicists have made new discoveries about the p75 neurotrophin receptor (p75NTR).Under the guidance of Prof.JIANG Tao of the CAS Institute of Biophysics (IBP),Dr.GONG Yong and Dr.CAO Peng revealed crystal structure of a symmetrical complex of the neurotrophin-3 and p75NTR,bringing to light the mode of their interaction and their structural basis.The work was published by the ioumal Nature on 7 August.

  8. Structures of coxsackievirus, rhinovirus, and poliovirus polymerase elongation complexes solved by engineering RNA mediated crystal contacts.

    Science.gov (United States)

    Gong, Peng; Kortus, Matthew G; Nix, Jay C; Davis, Ralph E; Peersen, Olve B

    2013-01-01

    RNA-dependent RNA polymerases play a vital role in the growth of RNA viruses where they are responsible for genome replication, but do so with rather low fidelity that allows for the rapid adaptation to different host cell environments. These polymerases are also a target for antiviral drug development. However, both drug discovery efforts and our understanding of fidelity determinants have been hampered by a lack of detailed structural information about functional polymerase-RNA complexes and the structural changes that take place during the elongation cycle. Many of the molecular details associated with nucleotide selection and catalysis were revealed in our recent structure of the poliovirus polymerase-RNA complex solved by first purifying and then crystallizing stalled elongation complexes. In the work presented here we extend that basic methodology to determine nine new structures of poliovirus, coxsackievirus, and rhinovirus elongation complexes at 2.2-2.9 Å resolution. The structures highlight conserved features of picornaviral polymerases and the interactions they make with the template and product RNA strands, including a tight grip on eight basepairs of the nascent duplex, a fully pre-positioned templating nucleotide, and a conserved binding pocket for the +2 position template strand base. At the active site we see a pre-bound magnesium ion and there is conservation of a non-standard backbone conformation of the template strand in an interaction that may aid in triggering RNA translocation via contact with the conserved polymerase motif B. Moreover, by engineering plasticity into RNA-RNA contacts, we obtain crystal forms that are capable of multiple rounds of in-crystal catalysis and RNA translocation. Together, the data demonstrate that engineering flexible RNA contacts to promote crystal lattice formation is a versatile platform that can be used to solve the structures of viral RdRP elongation complexes and their catalytic cycle intermediates.

  9. Structures of coxsackievirus, rhinovirus, and poliovirus polymerase elongation complexes solved by engineering RNA mediated crystal contacts.

    Directory of Open Access Journals (Sweden)

    Peng Gong

    Full Text Available RNA-dependent RNA polymerases play a vital role in the growth of RNA viruses where they are responsible for genome replication, but do so with rather low fidelity that allows for the rapid adaptation to different host cell environments. These polymerases are also a target for antiviral drug development. However, both drug discovery efforts and our understanding of fidelity determinants have been hampered by a lack of detailed structural information about functional polymerase-RNA complexes and the structural changes that take place during the elongation cycle. Many of the molecular details associated with nucleotide selection and catalysis were revealed in our recent structure of the poliovirus polymerase-RNA complex solved by first purifying and then crystallizing stalled elongation complexes. In the work presented here we extend that basic methodology to determine nine new structures of poliovirus, coxsackievirus, and rhinovirus elongation complexes at 2.2-2.9 Å resolution. The structures highlight conserved features of picornaviral polymerases and the interactions they make with the template and product RNA strands, including a tight grip on eight basepairs of the nascent duplex, a fully pre-positioned templating nucleotide, and a conserved binding pocket for the +2 position template strand base. At the active site we see a pre-bound magnesium ion and there is conservation of a non-standard backbone conformation of the template strand in an interaction that may aid in triggering RNA translocation via contact with the conserved polymerase motif B. Moreover, by engineering plasticity into RNA-RNA contacts, we obtain crystal forms that are capable of multiple rounds of in-crystal catalysis and RNA translocation. Together, the data demonstrate that engineering flexible RNA contacts to promote crystal lattice formation is a versatile platform that can be used to solve the structures of viral RdRP elongation complexes and their catalytic cycle

  10. Crystal Structure and Magnetic Property of Heteronuclear Copper—Lanthanum Carboxylate Complex

    Institute of Scientific and Technical Information of China (English)

    吴斌; 陆维敏; 等

    2002-01-01

    The title complex,[CuLal5(phen)(C2H5OH)]2 (where L=α-methylacrylato;phen=1,10-phenanthroline),has been prepared and its structure has been determined by X-ray diffraction analysis ,the complex crystallizes in trclinic system with space group P-↑1.Crystal dataL:a=1.2725(3)nm,b=1.4421(4)nm,c=1.2109(2) nm,α=109.48(2)°,β=115.26(2)°,γ=66.42(2)°,The complex is a discrete tetranu-clear CuLaLaCu molecule bridged by α-methylacrylato groups.Magnetic property of the complex was also measured and discussed.

  11. Synthesis, characterization, crystal structure and electrochemical studies of ionic iron(III) dipicolinato complex

    Science.gov (United States)

    Ghasemi, Fatemeh; Ghasemi, Khaled; Rezvani, Ali Reza; Rosli, Mohd Mustaqim; Razak, Ibrahim Abdul

    2017-09-01

    The new complex (NH4)[Fe(dipic)2] (1) (dipicH2 = 2,6-pyridinedicarboxylic acid), was synthesized and characterized by elemental analysis, FTIR and UV-Vis spectroscopy and single crystal X-ray method. The crystal system is tetragonal with space group I41/a. The FeIII ion and the N atom of the ammonium cation are located on a crystallographic fourfold rotoinversion axis (4 bar). The Nsbnd H⋯O and Csbnd H⋯O intermolecular hydrogen bonding and π⋯π stacking interactions play an important role in the formation of a 3-dimensional anion-cation network and stabilization of the crystal structure. The redox behavior of the complex was also investigated by cyclic voltammetry.

  12. A new stepped tetranuclear copper(II) complex: synthesis, crystal structure and photoluminescence properties.

    Science.gov (United States)

    Gungor, Elif

    2017-05-01

    Binuclear and tetranuclear copper(II) complexes are of interest because of their structural, magnetic and photoluminescence properties. Of the several important configurations of tetranuclear copper(II) complexes, there are limited reports on the crystal structures and solid-state photoluminescence properties of `stepped' tetranuclear copper(II) complexes. A new Cu(II) complex, namely bis{μ3-3-[(4-methoxy-2-oxidobenzylidene)amino]propanolato}bis{μ2-3-[(4-methoxy-2-oxidobenzylidene)amino]propanolato}tetracopper(II), [Cu4(C11H13NO3)4], has been synthesized and characterized using elemental analysis, FT-IR, solid-state UV-Vis spectroscopy and single-crystal X-ray diffraction. The crystal structure determination shows that the complex is a stepped tetranuclear structure consisting of two dinuclear [Cu2(L)2] units {L is 3-[(4-methoxy-2-oxidobenzylidene)amino]propanolate}. The two terminal Cu(II) atoms are four-coordinated in square-planar environments, while the two central Cu(II) atoms are five-coordinated in square-pyramidal environments. The solid-state photoluminescence properties of both the complex and 3-[(2-hydroxy-4-methoxybenzylidene)amino]propanol (H2L) have been investigated at room temperature in the visible region. When the complex and H2L are excited under UV light at 349 nm, the complex displays a strong blue emission at 469 nm and H2L displays a green emission at 515 nm.

  13. Crystal structures and nitrosation reactions of triazido complexes of chromium(III)

    DEFF Research Database (Denmark)

    Døssing, Anders Rørbæk; Kadziola, Anders

    2008-01-01

      The two triazido chromium(III) complexes [Cr(tame)(N3)3]×H2O (1) and [Cr(tacn)(N3)3] (2) (tame  = 1,1,1-tris(aminomethyl)ethane and tacn = 1,4,7-triazacyclononane) have been prepared and characterized by single-crystal X-ray crystallography at 122 K. The crystal structure of 1 is monoclinic......, space group P21/c, with a = 9.2460(9), b = 11.0500(11), c = 13.1980(9) Å, b = 97.244(7)° with four formula units in the cell. The crystal structure of 2 is triclinic, space group P , with a = 7.698(4), b = 8.5800(6), c = 10.236(3) Å, a = 89.497(15), b = 83.70(2), g = 72.83(2)° with two formula units...

  14. Crystal Structures of Fluoride and Chloride Complexes of Tris[(2-benzimidazolyl)methyl]amine

    Institute of Scientific and Technical Information of China (English)

    2008-01-01

    The crystal structures of fluoride and chloride complexes of tris[(2-benzimida-zolyl)methyl]amine 1 were characterized by X-ray crystallography.1 adopts C3 symmetrical geometry and cone-like conformation so as to allow its three NHs to associate with the anions through hydrogen bonds.Despite the different sizes of the anions, the two crystals are unexpectedly isostructural.The binding ability of the anions of 1 in solution was also studied by using of UV-vis spectroscopy.

  15. Crystal Structure of Oxidative Stress Sensor Keap1 in Complex with Selective Autophagy Substrate p62

    Science.gov (United States)

    Kurokawa, Hirofumi

    Keap1, an adaptor protein of cullin-RING ubiquitin ligase complex, represses cytoprotective transcription factor Nrf2 in an oxidative stress-dependent manner. The accumulation of selective autophagy substrate p62 also activates Nrf2 target genes, but the detailed mechanism has not been elucidated. Crystal structure of Keap1-p62 complex revealed the structural basis for the Nrf2 activation in which Keap1 is inactivated by p62. The accumulation of p62 is observed in hepatocellular carcinoma. The activation of Nrf2 target genes, including detoxifying enzymes and efflux transporters, by p62 may protect the cancer cells from anti-cancer drugs.

  16. Crystal Structure of a Nickel(Ⅱ) Complex with Asymmetric L-Histidine Ligand

    Institute of Scientific and Technical Information of China (English)

    JIN Yi; CHE Yun-Xia; ZHENG Ji-Min

    2006-01-01

    A novel nickel(Ⅱ) complex with L-histidine has been synthesized and solved by single-crystal X-ray diffraction analysis at physiological pH. The title complex (C7H16NiN4O6S, Mr= 343.01) crystallizes in monoclinic, space group P21 with a = 7.2194(7), b = 7.5968(7), c =12.2797(11) (A), β = 93.3110(10)°, V = 672.35(11) (A)3, Z = 2, Dc= 1.694 g/cm3, F(000) = 356,μ(MoKα) = 1.626 mm-1, T = 293(2) K, the final R = 0.0184 and wR = 0.0426 for 2207 observed reflections with I > 2σ(Ⅰ). The complex provides insights into a possible structural arrangement between nickel (Ⅱ) and L-histidine which may be physiologically important and abundantly present in biological systems.

  17. Crystal structure of zwitterionic 4-(ammoniomethylbenzoate: a simple molecule giving rise to a complex supramolecular structure

    Directory of Open Access Journals (Sweden)

    Ana María Atria

    2014-11-01

    Full Text Available The asymmetric unit of the title compound, C8H9NO2·H2O consists of an isolated 4-(ammoniomethylbenzoate zwitterion derived from 4-aminomethylbenzoic acid through the migration of the acidic proton, together with a water molecule of crystallization that is disordered over three sites with occupancy ratios (0.50:0.35:0.15. In the crystal structure, N—H...O hydrogen bonds together with π–π stacking of the benzene rings [centroid–centroid distance = 3.8602 (18 Å] result in a strongly linked, compact three-dimensional structure.

  18. Crystal structures and magnetic properties of cyano-bridged 4f-3d complexes

    Institute of Scientific and Technical Information of China (English)

    闫冰; 陈志达

    2001-01-01

    The most recent research progress in the fields of the crystal structure and magnetochemistry for rare earth-transition metal cyano-bridged complexes is reviewed in detail. The emphasis is put on the introduction to the research achievements of our group in this field, including all the types of complexes with different crystal structures in these systems such as dinuclear, trinuclear, one-dimensional chain and hydrogen-bonded network ion-pairs. At the same time a few examples of rare earth-transition metal molecular-based magnets have been found to exhibit excellent magnetochemical properties, such as the long-range magnetic ordering, the higher critical temperature Tc and the stronger coercive force. These results will be expected to promote the research development in this field.

  19. Crystal Structures of Human Dipeptidyl Peptidase Ⅳ in its Apo and Diprotin B-complexed Forms

    Institute of Scientific and Technical Information of China (English)

    Hajime HIRAMATSU; Kiyoshi KYONO; Atsushi YAMAMOTO; Kazuhiko SAEKI; Hideaki SHIMA; Shigeru SUGIYAMA; Koji INAKA; Ryo SHIMIZU

    2007-01-01

    Dipeptidyl peptidase Ⅳ (DPPIV), which belongs to the prolyl oligopeptidase family of serine proteases, is known to have a variety of regulatory biological functions and has been shown to be implicated in type 2 diabetes. It is therefore important to develop selective human DPPIV (hDPPIV) inhibitors. In this study, we determined the crystal structure of apo hDPPIV at 1.9 (A) resolution. Our high-resolution crystal structure of apo hDPPIV revealed the presence of sodium ion and glycerol molecules at the active site. In order to elucidate the hDPPIV binding mode and substrate specificity, we determined the crystal structure of hDPPIV-diprotin B (Val-Pro-Leu) complex at 2.1 (A) resolution, and clarified the difference in binding mode between diprotin B and diprotin A (Ile-Pro-Ile) into the active site of hDPPIV. Comparison between our crystal structures and the reported apo hDPPIV structures revealed that positively charged functional groups and conserved water molecules contributed to the interaction of ligands with hDPPIV. These results are useful for the design of potent hDPPIV inhibitors.

  20. The crystal and molecular structure of copper(I) trifluoromethanesulphonate cyclohexene complex

    NARCIS (Netherlands)

    Timmermans, P.J.J.A.; Mackor, A.; Spek, A.L.; Kojic-Prodic, B.

    1984-01-01

    The first crystal structure of a copper(I) trifluoromethanesulphonate (cyclo)olefin complex, viz. copper(I) triflate-cyclohexene, CuOSO2CF3 · C6H10, is presented. The compound crystallises in the space group P with a 10.288(1), b 10.412(1), c 11.059(1) Å, α 65.81(1), β 81.25(1), γ 70.45(1)° and Z =

  1. Complex rare-earth aluminum hydrides: mechanochemical preparation, crystal structure and potential for hydrogen storage.

    Science.gov (United States)

    Weidenthaler, Claudia; Pommerin, André; Felderhoff, Michael; Sun, Wenhao; Wolverton, Christopher; Bogdanović, Borislav; Schüth, Ferdi

    2009-11-25

    A novel type of complex rare-earth aluminum hydride was prepared by mechanochemical preparation. The crystal structure of the REAlH(6) (with RE = La, Ce, Pr, Nd) compounds was calculated by DFT methods and confirmed by preliminary structure refinements. The trigonal crystal structure consists of isolated [AlH(6)](3-) octahedra bridged via [12] coordinated RE cations. The investigation of the rare-earth aluminum hydrides during thermolysis shows a decrease of thermal stability with increasing atomic number of the RE element. Rare-earth hydrides (REH(x)) are formed as primary dehydrogenation products; the final products are RE-aluminum alloys. The calculated decomposition enthalpies of the rare-earth aluminum hydrides are at the lower end for reversible hydrogenation under moderate conditions. Even though these materials may require somewhat higher pressures and/or lower temperatures for rehydrogenation, they are interesting examples of low-temperature metal hydrides for which reversibility might be reached.

  2. Synthesis and Crystal Structure of a Binuclear Gadolinium(Ⅲ) Complex Bridged by Cucurbit[6]uril

    Institute of Scientific and Technical Information of China (English)

    Gui Ling ZHANG; Zhi Yong WU; Yan Tuan LI; Da Qi WANG; Jian Min DOU

    2006-01-01

    A new cucurbit[6]uril bridged binuclear complex {[Gd(H2O)6]2[Q6(H2O)]}Cl6·4H2O,where Q6 represents cucurbit[6]uril, has been synthesized and characterized by X-ray diffraction.The crystal structure shows that the complex has an extended cucurbit[6]uril-bridged structure consisting of two gadolinium(Ⅲ) ions, in which each gadolinium(Ⅲ) ion is coordinated with two neighboring carbonylic oxygen atoms of Q6 and six oxygen atoms of water molecules that leans toward one side of the portal. One disordered guest water molecule resides in the Q6 molecule cavity and occupies two different positions. Hydrogen bonds assemble the complex to three-dimensional supramolecular structure.

  3. Crystal structure of HIV-1 primary receptor CD4 in complex with a potent antiviral antibody

    OpenAIRE

    Freeman, Michael M.; Seaman, Michael S; Rits-Volloch, Sophia; Hong, Xinguo; Kao, Chia-Ying; Ho, David D.; Chen, Bing

    2010-01-01

    Ibalizumab is a humanized, anti-CD4 monoclonal antibody. It potently blocks HIV-1 infection and targets an epitope in the second domain of CD4 without interfering with immune functions mediated by interaction of CD4 with major histocompatibility complex (MHC) class II molecules. We report here the crystal structure of ibalizumab Fab fragment in complex with the first two domains (D1-D2) of CD4 at 2.2 Å resolution. Ibalizumab grips CD4 primarily by the BC-loop (residues 121-125) of D2, sitting...

  4. Flexible and Asymmetric Ligand in Constructing Coordinated Complexes: Synthesis, Crystal Structures and Fluorescent Characterization

    Directory of Open Access Journals (Sweden)

    Jianhua Lin

    2010-12-01

    Full Text Available Flexible and asymmetric ligand L [L = 1-((pyridin-3-ylmethyl-1H-benzotriazole], is used as a basic backbone to construct complicated metal-organic frameworks. Two new polymers, namely, [Ag2(L2(NO32]n (1 and [Ag(L(ClO4]n (2, were synthesized and characterized by X-ray structure analysis and fluorescent spectroscopy. The complex 1 gives an “S” type double helical conformation, whereas complex 2 exhibits a 1D zigzag configuration. Different anions affect the silver coordination geometry and crystal packing topology.

  5. Synthesis, Crystal Structure of a Novel Mn Complex with Nicotinoyl-Glycine

    OpenAIRE

    Xin Wang; Biqing Chen; Min He

    2016-01-01

    A novel manganese complex, C16H26MnN4O12, was synthesized by the reaction of nicotinoyl-glycine and NaOH in an ethanol/water solution and structurally characterized by elemental analysis, UV-vis spectrum, IR spectrum and single-crystal X-ray diffraction analysis. The crystal of the complex belongs to the triclinic space group P1 with a = 7.8192(16) Å, b = 8.8800(18) Å, c = 9.0142(18) Å, α = 83.14(3)°, β = 65.27(3)°, γ = 81.67(3)°, V = 516.3(2) Å3, Z = 1, Dx = 1.542 mg·m−3, μ = 0.66 mm−1, F(00...

  6. Synthesis, Crystal Structure, and Thermal Decomposition of the Cobalt(II Complex with 2-Picolinic Acid

    Directory of Open Access Journals (Sweden)

    Di Li

    2014-01-01

    Full Text Available The cobalt(II complex of 2-picolinic acid (Hpic, namely, [Co(pic2(H2O2]·2H2O, was synthesized with the reaction of cobalt acetate and 2-picolinic acid as the reactants by solid-solid reaction at room temperature. The composition and structure of the complex were characterized by elemental analysis, infrared spectroscopy, single crystal X-ray diffraction, and thermogravimetry-differential scanning calorimetry (TG-DSC. The crystal structure of the complex belongs to monoclinic system and space group P2(1/n, with cell parameters of a=9.8468(7 Å, b=5.2013(4 Å, c=14.6041(15 Å, β=111.745(6°, V=747.96(11 Å3, Z=2, Dc=1.666 g cm−3, R1=0.0297, and wR2=0.0831. In the title complex, the Co(II ion is six-coordinated by two pyridine N atoms and two carboxyl O atoms from two 2-picolinic acid anions, and two O atoms from two H2O molecules, and forming a slightly distorted octahedral geometry. The thermal decomposition processes of the complex under nitrogen include dehydration and pyrolysis of the ligand, and the final residue is cobalt oxalate at about 450°C.

  7. Crystal structure of phosphoethanolamine methyltransferase from Plasmodium falciparum in complex with amodiaquine

    Energy Technology Data Exchange (ETDEWEB)

    Lee, Soon Goo; Alpert, Tara D.; Jez, Joseph M. (WU)

    2012-07-17

    Phosphoethanolamine N-methyltransferase (PMT) is essential for phospholipid biogenesis in the malarial parasite Plasmodium falciparum. PfPMT catalyzes the triple methylation of phosphoethanolamine to produce phosphocholine, which is then used for phosphatidylcholine synthesis. Here we describe the 2.0 {angstrom} resolution X-ray crystal structure of PfPMT in complex with amodiaquine. To better characterize inhibition of PfPMT by amodiaquine, we determined the IC{sub 50} values of a series of aminoquinolines using a direct radiochemical assay. Both structural and functional analyses provide a possible approach for the development of new small molecule inhibitors of PfPMT.

  8. Three-dimensional modeling of nematic liquid crystal micro-optics structures with complex patterned electrodes

    Science.gov (United States)

    Rong, Xing; Kang, Shengwu; Zhang, Xinyu; Ji, An; Xie, Changsheng; Zhang, Tianxu

    2012-11-01

    In this paper, a three-dimensional (3-D) relaxation method is used to model the dynamic response behavior of liquid crystal (LC) directors in LC micro-optics structures with complex patterned electrodes. The method is based on Frank- Oseen continuum elastic theory by using a vectorial representation. This method can deal with liquid crystal structures with arbitrary patterned electrodes, and it is quite computational stability. Different numerical results obtained according the method are as follows: (1) the nematic LC structures with complex patterned electrodes applied by a constant voltage signal, and (2) the nematic LC structures with different thickness of LC layer, and (3) the nematic LC structures with different signal voltage. The typical results include the distribution of LC directors in LC layers, the distribution of electric potential in LC layers, and the distribution of phase retardation. The results show that the method can be used to effectively predict the formation of disclination lines, which has a strong impact on the performance of LC micro-optics structures.

  9. Theoretical Studies on the Electronic Structures and Properties of Complex Ceramic Crystals and Novel Materials

    Energy Technology Data Exchange (ETDEWEB)

    Ching, Wai-Yim

    2012-01-14

    This project is a continuation of a long program supported by the Office of Basic Energy Science in the Office of Science of DOE for many years. The final three-year continuation started on November 1, 2005 with additional 1 year extension to October 30, 2009. The project was then granted a two-year No Cost Extension which officially ended on October 30, 2011. This report covers the activities within this six year period with emphasis on the work completed within the last 3 years. A total of 44 papers with acknowledgement to this grant were published or submitted. The overall objectives of this project are as follows. These objectives have been evolved over the six year period: (1) To use the state-of-the-art computational methods to investigate the electronic structures of complex ceramics and other novel crystals. (2) To further investigate the defects, surfaces/interfaces and microstructures in complex materials using large scale modeling. (3) To extend the study on ceramic materials to more complex bioceramic crystals. (4) To initiate the study on soft condensed matters including water and biomolecules. (5) To focus on the spectroscopic studies of different materials especially on the ELNES and XANES spectral calculations and their applications related to experimental techniques. (6) To develop and refine computational methods to be effectively executed on DOE supercomputers. (7) To evaluate mechanical properties of different crystals and those containing defects and relate them to the fundamental electronic structures. (8) To promote and publicize the first-principles OLCAO method developed by the PI (under DOE support for many years) for applications to large complex material systems. (9) To train a new generation of graduate students and postdoctoral fellows in modern computational materials science and condensed matter physics. (10) To establish effective international and domestic collaborations with both experimentalists and theorists in materials

  10. Synthesis and Crystal Structure of the Bioinorganic Complex [Sb(Hedta]·2H2O

    Directory of Open Access Journals (Sweden)

    Di Li

    2014-01-01

    Full Text Available The antimony(III complex [Sb(Hedta]·2H2O was synthesized with ethylenediaminetetraacetic acid (H4edta and antimonous oxide as main raw materials in aqueous solution. The composition and structure of the complex were characterized by elemental analysis, infrared spectra, single crystal X-ray diffraction, X-ray powder diffraction, thermogravimetry, and differential scanning calorimetry. The crystal structure of the antimony(III complex belongs to orthorhombic system, space group Pna2(1, with cell parameters of a=18.4823(18 Å, b=10.9408(12 Å, c=7.3671(5 Å, V=1489.7(2 Å3, Z=4, and Dc=1.993 g cm−3. The Sb(III ion is five-coordinated by two amido N atoms and three carboxyl O atoms from a single Hedta3− ligand, forming a distorted trigonal bipyramid geometry. The thermal decomposition processes of the complex include dehydration, oxidation, and pyrolysis of the ligand, and the last residue is Sb2O3 at the temperature of 570°C.

  11. Pyrazolato metal complexes: synthesis, characterization and X-ray crystal structures of rhenium(I) derivaties

    Energy Technology Data Exchange (ETDEWEB)

    Ardizzoia, G.A; LaMonica, G.; Maspero, A. [Milan Univ. (Italy). Dipt. di Chimica Inorganica, Metallorganica e Analitica; Moret, M.; Masciocchi, N. [Milan Univ. (Italy). Dipt. di Chimica Strutturale e Stereochimica Inorganica

    1998-10-01

    The mononuclear complexes [Re(CO){sub 3}(Hpz){sub 2}Br] (1) and [Re(CO){sub 3}(Hdmpz){sub 2}Br] (2) were obtained by treating [Re(CO){sub 5}Br] with pyrazole (Hpz) or 3,5-dimethylpyrazole (Hdmpz). Complex 1 reacted with triethylamine affording a mixture of the ionic dinuclear derivative (Et{sub 3}NH)[Re{sub 2}(CO){sub 6}(pz){sub 2}Br] (3) and of the mononuclear species [Re(CO){sub 3}(Hpz){sub 2}(pz)] (4). Complex 4 was obtained in a pure form by carrying out the reaction in the presence of excess free pyrazole. Treatment of 4 with pyridine afforded the [Re(CO){sub 3}(py)(Hpz)(pz)] species (6). The analogues of 4 and 6 with Hdmpz, i.e. [Re(CO){sub 3}(Hdmpz){sub 2}(dmpz)] (7) and [Re(CO){sub 3}(py)(Hdmpz)(dmpz)] (8) were also synthesized. All species were characterized in solution by {sup 1}H-NMR spectroscopy, while the crystal structures of complexes 1, 3, 4 and 6 were determined by single-crystal X-ray diffraction analysis. The [(CO){sub 3}Re({mu}-pz){sub 2}({mu}-Br)Re(CO){sub 3}]{sup -} anion represents the first structurally characterized species containing rhenium(I) atoms bridged by mu-pyrazolate ligands. (orig.)

  12. 1D cyanide complexes with 2-pyridinemethanol: Synthesis, crystal structures and spectroscopic properties

    Science.gov (United States)

    Sayın, Elvan; Kürkçüoğlu, Güneş Süheyla; Yeşilel, Okan Zafer; Hökelek, Tuncer

    2015-12-01

    Two new one-dimensional coordination polymers, [Cu(hmpH)2Pd(μ-CN)2(CN)2]n (1) and [Cu(hmpH)2Pt(μ-CN)2(CN)2]n (2), (hmpH = 2-pyridinemethanol), have been synthesized and characterized by vibrational (FT-IR and Raman) spectroscopy, single crystal X-ray diffraction, thermal and elemental analyses techniques. Single crystal X-ray diffraction analysis indicates that complexes 1 and 2 are isomorphous and isostructural, and crystallize in the triclinic system and P-1 space group. The Pd(II) or Pt(II) ions are four coordinated with four cyanide-carbon atoms in a square planar geometry. Cu(II) ion displays a distorted octahedral coordination by two N-atoms and two O-atoms of hmpH ligands, two bridging cyanide groups. In one dimensional structure of the complexes, [M(CN)4]2- (M = Pd(II) or Pt(II)) anions and [Cu(hmpH)2]2+ cations are linked via bridging cyanide ligands. In the complexes, the presence of intramolecular C-H⋯M (M = Pd(II) or Pt(II)) interactions with distance values of 3.00-2.95 Å are established, respectively.

  13. Synthesis and Crystal Structure of a New μ-Oxamide Trimeric Hetero-tetranuclear Complex

    Institute of Scientific and Technical Information of China (English)

    CHEN Jing; GAO Dong-Zhao; WANG Shu-Ping; JIANG Zong-Hui; LIAO Dai-Zheng; YAN Shi-Ping

    2005-01-01

    A novel oxamide-bridged trimeric tetranuclear complex 1 incorporating a macro- cyclic oxamide of formula {[(CuL)3Mn](ClO4)2}3 (macrocyclic oxamide L = 2,3-dioxo-5,6,14,15- dibenzo-1,4,8,12-tetraazacyclopentadeca-7,12-diene) was prepared and structurally characterized. The compound [(CuL)3Mn](ClO4)2 crystallizes in the trigonal system, space group with a = 22.434(17), b = 22.434(17), c = 18.82(2) (A), α = β = 90, γ = 120o, V = 8203(13) (A)3, Z = 6, Dc = 1.751g/cm3, μ(MoKα) = 1.557, F(000) = 4392, the final R = 0.083 and wR = 0.1727 for 9604 obser- ved reflections with I > 2σ(I). The single-crystal X-ray analysis shows that 1 is a trimeric complex. There are three similar constitutes, dissimilar conformations and asymmetrically independent 'building-block' [(CuL)3Mn] in one crystal cell of the title complex 1.

  14. Crystal Structure of Hyp-1, a Hypericum perforatum PR-10 Protein, in Complex with Melatonin.

    Science.gov (United States)

    Sliwiak, Joanna; Dauter, Zbigniew; Jaskolski, Mariusz

    2016-01-01

    Hyp-1, a PR-10-fold protein from Hypericum perforatum, was crystallized in complex with melatonin (MEL). The structure confirms the conserved protein fold and the presence of three unusual ligand binding sites, two of which are internal chambers (1,2), while the third one (3) is formed as an invagination of the protein surface. The MEL ligand in site 1 is well defined while that in site 3 seems to be rotating between the side chains of Lys33 and Tyr150 that act as a molecular vise. The patch of electron density in site 2 does not allow unambiguous modeling of a melatonin molecule but suggests a possible presence of its degradation product. This pattern of ligand occupation is reproducible in repeated crystallization/structure determination experiments. Although the binding of melatonin by Hyp-1 does not appear to be very strong (for example, MEL cannot displace the artificial fluorescence probe ANS), it is strong enough to suggest a physiological role of this interaction. For example, trans-zeatin, which is a common ligand of PR-10 proteins, does not overcompete melatonin for binding to Hyp-1 as it does not affect the crystallization process of the Hyp-1/MEL complex, and among a number of potential natural mediators tested, melatonin was the only one to form a crystalline complex with Hyp-1 with the use of standard crystallization screens. Hyp-1 is the second protein in the Protein Data Bank for which melatonin binding has been demonstrated crystallographically, the first one being human quinone reductase.

  15. Crystal structure of Hyp-1, a Hypericum perforatum PR-10 protein, in complex with melatonin

    Directory of Open Access Journals (Sweden)

    Joanna eSliwiak

    2016-05-01

    Full Text Available Hyp-1, a PR-10-fold protein from H. perforatum, was crystallized in complex with melatonin (MEL. The structure confirms the conserved protein fold and the presence of three unusual ligand binding sites, two of which are internal chambers (1, 2, while the third one (3 is formed as an invagination of the protein surface. The MEL ligand in site 1 is well defined while that in site 3 seems to be rotating between the side chains of Lys33 and Tyr150 that act as a molecular vise. The patch of electron density in site 2 does not allow unambiguous modeling of a melatonin molecule but suggests a possible presence of its degradation product. This pattern of ligand occupation is reproducible in repeated crystallization/structure determination experiments. Although the binding of melatonin by Hyp-1 does not appear to be very strong (for example, MEL cannot displace the artificial fluorescence probe ANS, it is strong enough to suggest a physiological role of this interaction. For example, trans-zeatin, which is a common ligand of PR-10 proteins, does not overcompete melatonin for binding to Hyp-1 as it does not affect the crystallization process of the Hyp-1/MEL complex, and among a number of potential natural mediators tested, melatonin was the only one to form a crystalline complex with Hyp-1 with the use of standard crystallization screens. Hyp-1 is the second protein in the Protein Data Bank (PDB for which melatonin binding has been demonstrated crystallographically, the first one being human quinone reductase.

  16. Crystal Structure of the Herpesvirus Nuclear Egress Complex Provides Insights into Inner Nuclear Membrane Remodeling

    Directory of Open Access Journals (Sweden)

    Tzviya Zeev-Ben-Mordehai

    2015-12-01

    Full Text Available Although nucleo-cytoplasmic transport is typically mediated through nuclear pore complexes, herpesvirus capsids exit the nucleus via a unique vesicular pathway. Together, the conserved herpesvirus proteins pUL31 and pUL34 form the heterodimeric nuclear egress complex (NEC, which, in turn, mediates the formation of tight-fitting membrane vesicles around capsids at the inner nuclear membrane. Here, we present the crystal structure of the pseudorabies virus NEC. The structure revealed that a zinc finger motif in pUL31 and an extensive interaction network between the two proteins stabilize the complex. Comprehensive mutational analyses, characterized both in situ and in vitro, indicated that the interaction network is not redundant but rather complementary. Fitting of the NEC crystal structure into the recently determined cryoEM-derived hexagonal lattice, formed in situ by pUL31 and pUL34, provided details on the molecular basis of NEC coat formation and inner nuclear membrane remodeling.

  17. Synthesis, X-ray crystal structures, thermal and electrochemical properties of thiosemicarbazidatodioxouranium(VI) complexes.

    Science.gov (United States)

    Sahin, Musa; Koca, Atıf; Ozdemir, Namık; Dinçer, Muharrem; Büyükgüngör, Orhan; Bal-Demirci, Tülay; Ulküseven, Bahri

    2010-11-14

    The stable uranyl complexes, [UO(2)(L)C(9)H(19)OH], were obtained from 3,5-dichlorosalicyl-(L(I)) and salicyl-aldehyde-S-propyl-thiosemicarbazones (L(II)) with substituted-salicylaldehyde in nonyl alcohol. The structures of the complexes have been characterized by elemental analysis, IR, (1)H NMR, conductivity, magnetic moment measurements, cyclic voltammetry, thermal gravimetric analysis and single crystal X-ray diffraction technique. The U(VI) centre is seven-coordinated in a distorted pentagonal bipyramidal geometry. The relative orientations of the nonyl alcohol and S-propyl group in the title complexes are completely different due to different crystal packing. Electrochemical behaviors of the thiosemicarbazone ligands and the uranyl complexes were studied using cyclic voltammetry and square wave voltammetry. Redox processes of the compounds are significantly influenced by the central metal ions and the nature of substituents on the thiosemicarbazones, which are important factors in controlling the redox properties. In situ spectroelectrochemical studies were employed to determine the colors and spectra of electro-generated species of the complexes.

  18. Hydrogen bonding in thiobenzamide synthon and its Cadmium complex: Crystal structure and Hirshfeld analysis

    Indian Academy of Sciences (India)

    INES RIGANE; SIWAR WALHA; ABDELHAMID BEN SALAH

    2016-09-01

    The thiobenzamid TBA and its Cd(II) complex, dichlorothiobenzamidecadmium(II) [Cd(TBA)Cl₂] complex has been synthesized and characterized by FT-IR, FT-Raman and UV–Vis spectroscopy. The crystal and molecular structure of TBA and [Cd(TBA)Cl₂] were determined by single crystal X-ray diffraction analysis. The molecular arrangement in the crystal structure of TBA can be described on the basis of supramolecular dimeric synthons built up by four independent TBA molecules stacked via N-H. . .S hydrogen bonds. The 3D Hirshfeld surfaces and the associated 2D fingerprint plots were investigated for intermolecular interactions. The N-H. . .S hydrogen bond percentages were estimated to be 23.1%, 22.9%, 30.6% and 27.3% of Hirshfeld surfaces area respectively for each TBA molecule. Synthons are associated through C–H. . . π interactions at percentage of 33.8%, 38.2%, 24.3% and 19.4% to result in 3D network. The dichlorothiobenzamide cadmium(II) complex bonded by sulfur atom of thiobenzamide shows a double chain of distorted octahedra around the cadmium atoms running along the a axis and the packing is stabilized by intra- and inter-chain hydrogen bonding interactions of the type N–H. . .Cl and aromatic π. . .π stacking interactions between ring centroids at 21.8% and 7.6% of the Hirshfeld surface area, respectively. The decomposition of the complex to cadmium sulfide has been investigated by thermogravimetric analysis (TGA).

  19. Crystal structure of the human NKX2.5 homeodomain in complex with DNA target.

    Science.gov (United States)

    Pradhan, Lagnajeet; Genis, Caroli; Scone, Peyton; Weinberg, Ellen O; Kasahara, Hideko; Nam, Hyun-Joo

    2012-08-14

    NKX2.5 is a homeodomain containing transcription factor regulating cardiac formation and function, and its mutations are linked to congenital heart disease. Here we provide the first report of the crystal structure of the NKX2.5 homeodomain in complex with double-stranded DNA of its endogenous target, locating within the proximal promoter -242 site of the atrial natriuretic factor gene. The crystal structure, determined at 1.8 Å resolution, demonstrates that NKX2.5 homeodomains occupy both DNA binding sites separated by five nucleotides without physical interaction between themselves. The two homeodomains show identical conformation despite the differences in the DNA sequences they bind, and no significant bending of the DNA was observed. Tyr54, absolutely conserved in NK2 family proteins, mediates sequence-specific interaction with the TAAG motif. This high resolution crystal structure of NKX2.5 protein provides a detailed picture of protein and DNA interactions, which allows us to predict DNA binding of mutants identified in human patients.

  20. Crystal Structure of the Human NKX2.5 Homeodomain in Complex with DNA Target

    Energy Technology Data Exchange (ETDEWEB)

    Pradhan, Lagnajeet; Genis, Caroli; Scone, Peyton; Weinberg, Ellen O.; Kasahara, Hideko; Nam, Hyun-Joo (BU-M); (Florida); (Texas)

    2012-10-16

    NKX2.5 is a homeodomain containing transcription factor regulating cardiac formation and function, and its mutations are linked to congenital heart disease. Here we provide the first report of the crystal structure of the NKX2.5 homeodomain in complex with double-stranded DNA of its endogenous target, locating within the proximal promoter -242 site of the atrial natriuretic factor gene. The crystal structure, determined at 1.8 {angstrom} resolution, demonstrates that NKX2.5 homeodomains occupy both DNA binding sites separated by five nucleotides without physical interaction between themselves. The two homeodomains show identical conformation despite the differences in the DNA sequences they bind, and no significant bending of the DNA was observed. Tyr54, absolutely conserved in NK2 family proteins, mediates sequence-specific interaction with the TAAG motif. This high resolution crystal structure of NKX2.5 protein provides a detailed picture of protein and DNA interactions, which allows us to predict DNA binding of mutants identified in human patients.

  1. Crystal structure of truncated human coatomer protein complex subunit ζ1 (Copζ1).

    Science.gov (United States)

    Lunev, Sergey; Semmelink, Marije F W; Xian, Jia Ling; Ma, Kai Yu; Leenders, Anna J A; Dömling, Alexander S S; Shtutman, Michael; Groves, Matthew R

    2017-01-01

    The majority of modern anticancer approaches target DNA/protein targets involved in tumour-cell proliferation. Such approaches have a major drawback, as nonproliferating cancer cells remain unaffected and may cause relapse or remission. Human coatomer protein complex I (COPI) subunit ζ (Copζ), a component of the coat protein involved in cell apoptosis and intracellular trafficking, has recently been proposed as a potential anticancer drug target. Previous studies have shown that two different isoforms of the Copζ subunit exist in mammalian cells. While normal cells express both Copζ1 and Copζ2 isoforms, various types of tumour cells display a loss of Copζ2 expression and rely solely on Copζ1 for growth and survival. Subsequent knockdown of Copζ1 results in specific inhibition of both proliferating and dormant tumour-cell populations, with no adverse growth effects on normal cells. Therefore, a Copζ1-targeting therapy was proposed to bypass the problem of dormant cancer cells that are resistant to conventional antiproliferative drugs, which is the major cause of tumour relapse. In order to aid in structure-based inhibitor design, a crystal structure is required. In this article, the recombinant expression, purification, crystallization and crystal structure of Copζ1, as well as the expression and purification of Copζ2, are reported.

  2. Synthesis and Crystal Structure of a Novel Polymer Copper(Ⅱ) Complex

    Institute of Scientific and Technical Information of China (English)

    王军; 卑凤利; 李人宇; 杨绪杰; 陆路德; 汪信

    2003-01-01

    A novel chain complex was synthesized and its crystal structure has been deter- mined by X-ray diffraction technique. It was found that the local coordination geometry around Cu(Ⅱ) is a distorted tetrahedron and C14H9CuNO3@CH3OH is bridged by the carboxylate oxygen atom to form an infinite one-dimensional linear chain. The hydrogen bond exists between O(1) and solvate molecule O(4). The crystal belongs to monoclinic, space group P21 with a = 9.6650(19), b = 7.1280(14), c = 9.925(2)(A°),β= 98.39(3)°, V = 676.4(2)(A°)3, Z = 2, F(000) = 342 and μ(MoKα) = 1.629 mm-1 .

  3. Crystal Structure and EPR Spectra of cis-Dioxo-molybdenum(Ⅴ) Complex with o-Aminophenol

    Institute of Scientific and Technical Information of China (English)

    LU,Xiao-Ming(鲁晓明); LU,Jing-Fen(卢景芬); MAO,Xi-An(毛希安)

    2002-01-01

    The paramagnetic cis-dioxo-molybdenum(V) complex,[NH2CH2CH2NH3]3[HNC6H4O)2] was obtained by the reaction of tetra-butyl ammonium β-octamolybdate with oaminophenol and ethylenediamine in the mixed solvent of CH3OH and CH3CN, and characterized by IR,NMR,EPR spectroscopy and X-ray diffraction analysis .The determination of single crystal X-ray analysis revealed octahedral coordination withcis-dioxo o-aminophenol.The EPR spectra of both the complex and flavoenzyme show similarly.Thus it suggests that the complex anion[MovO2(HNC6H49)2]3-and flavoenzyme have related structure feature.

  4. Crystal structures of two ytterbium(III complexes comprising alkynylamidinate ligands

    Directory of Open Access Journals (Sweden)

    Sida Wang

    2016-09-01

    Full Text Available Two ytterbium(III complexes comprising alkynylamidinate ligands, namely bis(η5-cyclopentadienyl(3-cyclopropyl-N,N′-diisopropylpropynamidinato-κ2N,N′ytterbium(III, [Yb(C5H52(C12H19N2] or Cp2Yb[(iPr2N2C—C[triple-bond]C—c-C3H5] (1 and tris(3-phenyl-N,N′-dicyclohexylpropynamidinato-κ2N,N′ytterbium(III, [Yb(C21H27N23] or Yb[(CyN2C—C[triple-bond]C—Ph]3 (Cy = cyclohexyl (2 have been synthesized and structurally characterized. Both complexes are monomers; for complex 2, the contribution to the scattering from highly disordered toluene solvent molecules in these voids was removed with the SQUEEZE routine [Spek (2015. Acta Cryst. C71, 9–18] in PLATON. The stated crystal data for Mr, μ etc. do not take these into account.

  5. Crystal structure of Sulfolobus acidocaldarius aspartate carbamoyltransferase in complex with its allosteric activator CTP.

    Science.gov (United States)

    De Vos, Dirk; Xu, Ying; Aerts, Tony; Van Petegem, Filip; Van Beeumen, Jozef J

    2008-07-18

    Aspartate carbamoyltransferase (ATCase) is a paradigm for allosteric regulation of enzyme activity. B-class ATCases display very similar homotropic allosteric behaviour, but differ extensively in their heterotropic patterns. The ATCase from the thermoacidophilic archaeon Sulfolobus acidocaldarius, for example, is strongly activated by its metabolic pathway's end product CTP, in contrast with Escherichia coli ATCase which is inhibited by CTP. To investigate the structural basis of this property, we have solved the crystal structure of the S. acidocaldarius enzyme in complex with CTP. Structure comparison reveals that effector binding does not induce similar large-scale conformational changes as observed for the E. coli ATCase. However, shifts in sedimentation coefficients upon binding of the bi-substrate analogue PALA show the existence of structurally distinct allosteric states. This suggests that the so-called "Nucleotide-Perturbation model" for explaining heterotropic allosteric behaviour, which is based on global conformational strain, is not a general mechanism of B-class ATCases.

  6. Synthesis and Crystal Structure of Copper(Ⅱ)Complex with N-Acetoxyl-picolinamide

    Institute of Scientific and Technical Information of China (English)

    杜巧云; 曹佃省; 刘志红

    2005-01-01

    Using Cu(Ⅱ) as the template, a complex {[Cu2L2(H2O)2] 4H2O}n (L = N-acetoxyl- picolinamide) has been successfully synthesized and characterized by single-crystal X-ray diffrac tion. The crystal is of monoclinic, space group C2/c, with a = 24.144(5), b = 7.1622(14), c = 17.283(4) (A), C16H24Cu2N4O12, Mr = 591.47, β = 131.73(3)°, V = 2230.3(8) (A)3, Z = 4, Dc= 1.761 g/cm3, F(000) = 1208,μ = 1.978 mm-1, R = 0.0400 and wR = 0.1099. The copper (Ⅱ) ion is five coordinated with a distorted square pyramidal geometry. The complex can be viewed as a one dimensional chain structure by carboxylic bridges among copper atoms. In the complex there exist hydrogen bonding interactions to stabilize the structure.

  7. Synthesis, Crystal Structure of a Novel Mn Complex with Nicotinoyl-Glycine

    Directory of Open Access Journals (Sweden)

    Xin Wang

    2016-12-01

    Full Text Available A novel manganese complex, C16H26MnN4O12, was synthesized by the reaction of nicotinoyl-glycine and NaOH in an ethanol/water solution and structurally characterized by elemental analysis, UV-vis spectrum, IR spectrum and single-crystal X-ray diffraction analysis. The crystal of the complex belongs to the triclinic space group P1 with a = 7.8192(16 Å, b = 8.8800(18 Å, c = 9.0142(18 Å, α = 83.14(3°, β = 65.27(3°, γ = 81.67(3°, V = 516.3(2 Å3, Z = 1, Dx = 1.542 mg·m−3, μ = 0.66 mm−1, F(000 = 271, and final R1 = 0.0381, ωR2 = 0.0964. The nicotinoyl-glycine ligand acts as a bridging ligand to connect the manganese ions by the hydrogen interactions; thus, the complex expands into a 3D supramolecular net structure.

  8. Crystal Structures of Murine Carnitine Acetyltransferase in Ternary Complexes with Its Substrates

    Energy Technology Data Exchange (ETDEWEB)

    Hsiao,Y.; Jogl, G.; Tong, L.

    2006-01-01

    Carnitine acyltransferases catalyze the reversible exchange of acyl groups between coenzyme A (CoA) and carnitine. They have important roles in many cellular processes, especially the oxidation of long-chain fatty acids in the mitochondria for energy production, and are attractive targets for drug discovery against diabetes and obesity. To help define in molecular detail the catalytic mechanism of these enzymes, we report here the high resolution crystal structure of wild-type murine carnitine acetyltransferase (CrAT) in a ternary complex with its substrates acetyl-CoA and carnitine, and the structure of the S554A/M564G double mutant in a ternary complex with the substrates CoA and hexanoylcarnitine. Detailed analyses suggest that these structures may be good mimics for the Michaelis complexes for the forward and reverse reactions of the enzyme, representing the first time that such complexes of CrAT have been studied in molecular detail. The structural information provides significant new insights into the catalytic mechanism of CrAT and possibly carnitine acyltransferases in general.

  9. Structural biology. Crystal structure of a CRISPR RNA-guided surveillance complex bound to a ssDNA target.

    Science.gov (United States)

    Mulepati, Sabin; Héroux, Annie; Bailey, Scott

    2014-09-19

    In prokaryotes, RNA derived from type I and type III CRISPR loci direct large ribonucleoprotein complexes to destroy invading bacteriophage and plasmids. In Escherichia coli, this 405-kilodalton complex is called Cascade. We report the crystal structure of Cascade bound to a single-stranded DNA (ssDNA) target at a resolution of 3.03 angstroms. The structure reveals that the CRISPR RNA and target strands do not form a double helix but instead adopt an underwound ribbon-like structure. This noncanonical structure is facilitated by rotation of every sixth nucleotide out of the RNA-DNA hybrid and is stabilized by the highly interlocked organization of protein subunits. These studies provide insight into both the assembly and the activity of this complex and suggest a mechanism to enforce fidelity of target binding.

  10. Crystal structures of human pancreatic alpha-amylase in complex with carbohydrate and proteinaceous inhibitors.

    Science.gov (United States)

    Nahoum, V; Roux, G; Anton, V; Rougé, P; Puigserver, A; Bischoff, H; Henrissat, B; Payan, F

    2000-01-01

    Crystal structures of human pancreatic alpha-amylase (HPA) in complex with naturally occurring inhibitors have been solved. The tetrasaccharide acarbose and a pseudo-pentasaccharide of the trestatin family produced identical continuous electron densities corresponding to a pentasaccharide species, spanning the -3 to +2 subsites of the enzyme, presumably resulting from transglycosylation. Binding of the acarviosine core linked to a glucose residue at subsites -1 to +2 appears to be a critical part of the interaction process between alpha-amylases and trestatin-derived inhibitors. Two crystal forms, obtained at different values of pH, for the complex of HPA with the protein inhibitor from Phaseolus vulgaris (alpha-amylase inhibitor) have been solved. The flexible loop typical of the mammalian alpha-amylases was shown to exist in two different conformations, suggesting that loop closure is pH-sensitive. Structural information is provided for the important inhibitor residue, Arg-74, which has not been observed previously in structural analyses. PMID:10657258

  11. Crystal structure of RuvC resolvase in complex with Holliday junction substrate.

    Science.gov (United States)

    Górecka, Karolina M; Komorowska, Weronika; Nowotny, Marcin

    2013-11-01

    The key intermediate in genetic recombination is the Holliday junction (HJ), a four-way DNA structure. At the end of recombination, HJs are cleaved by specific nucleases called resolvases. In Gram-negative bacteria, this cleavage is performed by RuvC, a dimeric endonuclease that belongs to the retroviral integrase superfamily. Here, we report the first crystal structure of RuvC in complex with a synthetic HJ solved at 3.75 Å resolution. The junction in the complex is in an unfolded 2-fold symmetrical conformation, in which the four arms point toward the vertices of a tetrahedron. The two scissile phosphates are located one nucleotide from the strand exchange point, and RuvC approaches them from the minor groove side. The key protein-DNA contacts observed in the structure were verified using a thiol-based site-specific cross-linking approach. Compared with known complex structures of the phage resolvases endonuclease I and endonuclease VII, the RuvC structure exhibits striking differences in the mode of substrate binding and location of the cleavage site.

  12. Synthesis and Crystal Structure of Bis(barbiturato)triwater Complex of Copper(Ⅱ)

    Institute of Scientific and Technical Information of China (English)

    杨文斌; 卢灿忠; 吴传德; 吴鼎铭; 卢绍芳; 庄鸿辉

    2003-01-01

    The crystal structure of the bis(barbiturato)triwater copper( Ⅱ ) complex formulated as Cu(barb)2(HO2)3 (barb = barbiturato) has been determined by single-crystal X-ray diffraction.The analysis was carried out by direct and Fourier methods and the structure was refined by full-matrix least-square computations. The title compound crystallizes in orthorhombic, space group Fdd2 with a = 11.691(1), b = 30.200(4), c = 7.1901(9) (A), V = 2538.7(5) (A)3, Z = 8,C8H12CuN4O9, Mr= 371.76, Dc = 1.945 g/cm3,μ(MoKα) = 1.781 mm-1, F(000) = 1512, the final R = 0.0347 and wR = 0.0766 for 827 observed reflections (Ⅰ> 2o(Ⅰ)). The copper atom is squarepyramidally bonded to the exocyclic oxygen atoms of the barbital anions (Cu-O, 1.976(3)) and the water molecules (Cu-O, 1.926(4) and 2.164(7)(A)). The molecules are held together to form an extensive three-dimensional network via O-H… O and N-H…O hydrogen-bonded contacts.

  13. Mixed-ligand mononuclear copper(II) complex: crystal structure and anticancer activity.

    Science.gov (United States)

    Qin, Xiu-Ying; Liu, Ya-Nan; Yu, Qian-Qian; Yang, Li-Cong; Liu, Ying; Zhou, Yan-Hui; Liu, Jie

    2014-08-01

    A novel copper(II) complex with mixed ligands including β-[(3-formyl-5-methyl-2-hydroxy-benzylidene)amino]propionic acid anion and 1,10'-phenanthroline was synthesized, and its crystal structure was thoroughly characterized. It exerted excellent inducing apoptosis, anti-angiogenesis and antiproliferative properties in vitro. The complex can bind human serum albumin (HSA) at physiological pH conditions. Remarkably, it can induce formation of the mixed parallel/antiparallel G-quadruplex structures in the G-rich sequence of the proximal vascular endothelial growth factor (VEGF) promoter, and stabilize these G-quadruplex structures, which provide an opportunity for anti-angiogenesis chemotherapeutics. Furthermore, the complex showed a strong uptake, and exhibited multiple anticancer functions by inhibiting the expression of p-Akt and p-Erk1/2 proteins and by upregulating the levels of reactive oxygen species (ROS). Because of the reported results, this new copper(II) complex qualifies itself as a potential anticancer drug candidate.

  14. Post-transcriptional regulator Hfq binds catalase HPII: crystal structure of the complex.

    Directory of Open Access Journals (Sweden)

    Koji Yonekura

    Full Text Available We report a crystal structure of Hfq and catalase HPII from Escherichia coli. The post-transcriptional regulator Hfq plays a key role in the survival of bacteria under stress. A small non-coding RNA (sRNA DsrA is required for translation of the stationary phase sigma factor RpoS, which is the central regulator of the general stress response. Hfq facilitates efficient translation of rpoS mRNA, which encodes RpoS. Hfq helps in the function of other specific proteins involved in RNA processing, indicating its versatility in the cell. However, structural information regarding its interactions with partners is missing. Here we obtained crystals of Hfq and HPII complexes from cell lysates following attempts to overexpress a foreign membrane protein. HPII is one of two catalases in E. coli and its mRNA is transcribed by an RNA polymerase holoenzyme containing RpoS, which in turn is under positive control of small non-coding RNAs and of the RNA chaperone Hfq. This sigma factor is known to have a pronounced effect on the expression of HPII. The crystal structure reveals that a Hfq hexamer binds each subunit of a HPII tetramer. Each subunit of the Hfq hexamer exhibits a unique binding mode with HPII. The hexamer of Hfq interacts via its distal surface. The proximal and distal surfaces are known to specifically bind different sRNAs, and binding of HPII could affect Hfq function. Hfq-HPII complexation has no effect on catalase HPII activity.

  15. Syntheses, crystal structures, and properties of four complexes based on polycarboxylate and imidazole ligands

    Science.gov (United States)

    Qiao, Rui; Chen, Shui-Sheng; Sheng, Liang-Quan; Yang, Song; Li, Wei-Dong

    2015-08-01

    Four metal-organic coordination polymers [Zn(HL)(H2O)]·4H2O (1), [Zn(HL)(L1)]·4H2O (2), [Cu(HL)(H2O)]·3H2O (3) and [Cu(HL)(L1)]·5H2O (4) were synthesized by reactions of the corresponding metal(II) salts with semirigid polycarboxylate ligand (5-((4-carboxypiperidin-1-yl)methyl)isophthalic acid hydrochloride, H3L·HCl) or auxiliary ligand (1,4-di(1H-imidazol-4-yl)benzene, L1). The structures of the compounds were characterized by elemental analysis, FT-IR spectroscopy and single-crystal X-ray diffraction. The use of auxiliary ligand L1 has great influence on the structures of two pairs of complexes 1, 2 and 3, 4. Complex 1 is a uninodal 3-connected rare 2-fold interpenetrating ZnSc net with a Point (Schlafli) symbol of (103) while 2 is a one-dimensional (1D) ladder structure. Compound 3 features a two-dimensional (2D) honeycomb network with typical 63-hcb topology, while 4 is 2D network with (4, 4) sql topology based on binuclear CuII subunits. The non-covalent bonding interactions such as hydrogen bonds, π···π stacking and C-H···π exist in complexes 1-4, which contributes to stabilize crystal structure and extend the low-dimensional entities into high-dimensional frameworks. And the photoluminescent property of 1 and 2 and gas sorption property of 4 have been investigated.

  16. Spectral characterization, crystal structures and biological activities of iminodiacetate ternary complexes

    Science.gov (United States)

    Shahid, M.; Anjuli; Tasneem, Sana; Mantasha, I.; Ahamad, M. Naqi; Sama, Farasha; Fatma, Kehkeshan; Siddiqi, Zafar A.

    2017-10-01

    The ternary complexes with stoichiometry [M(imda)(bipy)]·6H2O (M = Cu) and [M(imda)(bipy)(H2O)]·4H2O (M = Ni, Co and Mn) where H2imda = iminodiacetic acid and bipy = 2,2‧-bipyridine, are prepared and characterized to exploit as novel antimicrobial agents and SOD mimics. The chemical structures were elucidated by IR, FAB-Mass, 1H, 13C NMR, EPR and spectral techniques. Single crystal X-ray and spectral studies of the complexes (1) and (2) have confirmed a square pyramidal geometry around Cu(II) ion while a saturated six coordinate (distorted octahedral) geometry around the Ni(II), Co(II) and Mn(II) ions due to the additional coordination from water. A supramolecular network is formed by extensive H-bonding in complex (1). The supramolecular assembly in complex (1) is additionally consolidated via the existence of unusual cyclic hexameric water clusters. The antimicrobial activities for the present complexes have been examined against Escherichia coli (K-12), Bacillus subtilis (MTC-121), Staphylococcus aureus (IOASA-22), Salmonella typhymurium (MTCC-98), Candida albicans, Aspergillus fumigatus and Penicillium marneffei. The superoxide dismutase (SOD) activity of the Cu(II) complex (1) is also assessed employing nitrobluetetrazolium (NBT) assay.

  17. Zinc(II) complexes of carboxamide derivatives: Crystal structures and interaction with calf thymus DNA

    Indian Academy of Sciences (India)

    Biplab Mondal; Buddhadeb Sen; Ennio Zangrando; Pabitra Chattopadhyay

    2015-10-01

    Two mononuclear zinc(II) complexes of newly designed carboxamide derivatives, formulated as [Zn(L1)3](ClO4)2 (1) and [Zn(L2)3](ClO4)2 (2) [where L1 = -(furan-2-ylmethyl)-2-pyridinecarboxamide and L2 = -(thiophen-2-ylmethyl)-2-pyridine-carboxamide], have been isolated in pure form in the reaction of perchlorate salts of Zn(II) with ligands L1 and L2, respectively. The two complexes were characterized by physicochemical and spectroscopic tools, and by X-ray crystal structures of both ligands and the complex 1. In complex 1, zinc(II) is chelated by three ligands with a distorted octahedral geometry. The DNA-binding properties of zinc complexes 1 and 2 have been investigated by spectroscopic methods and viscosity measurements. The results suggest that both complexes 1 and 2 bind to DNA in an intercalation mode between the uncoordinated furan or thiophene chromophore and the base pairs of DNA.

  18. Crystal structure of a complex of human chymase with its benzimidazole derived inhibitor

    Energy Technology Data Exchange (ETDEWEB)

    Matsumoto, Yoshiyuki; Kakuda, Shinji; Koizumi, Masahiro; Mizuno, Tsuyoshi; Muroga, Yumiko; Kawamura, Takashi; Takimoto-Kamimura, Midori, E-mail: m.kamimura@teijin.co.jp [Teijin Institute for Bio-medical Research, 4-3-2 Asahigaoka, Hino, Tokyo 191-8512 (Japan)

    2013-11-01

    The crystal structure of human chymase complexed with a novel benzimidazole inhibitor, TJK002, was determined at 2.8 Å resolution. The present study shows that the benzimidazole ring of the inhibitor takes the stable stacking interaction with the protonated His57 in the catalytic domain of human chymase. The crystal structure of human chymase complexed with a novel benzimidazole inhibitor, TJK002, was determined at 2.8 Å resolution. The X-ray crystallographic study shows that the benzimidazole inhibitor forms a non-covalent interaction with the catalytic domain of human chymase. The hydrophobic fragment of the inhibitor occupies the S1 pocket. The carboxylic acid group of the inhibitor forms hydrogen bonds with the imidazole N(∊) atom of His57 and/or the O(γ) atom of Ser195 which are members of the catalytic triad. This imidazole ring of His57 induces π–π stacking to the benzene ring of the benzimidazole scaffold as P2 moiety. Fragment molecular orbital calculation of the atomic coordinates by X-ray crystallography shows that this imidazole ring of His57 could be protonated with the carboxyl group of Asp102 or hydroxyl group of Ser195 and the stacking interaction is stabilized. A new drug design strategy is proposed where the stacking to the protonated imidazole of the drug target protein with the benzimidazole scaffold inhibitor causes unpredicted potent inhibitory activity for some enzymes.

  19. Crystal structure of the RC-LH1 core complex from Rhodopseudomonas palustris.

    Science.gov (United States)

    Roszak, Aleksander W; Howard, Tina D; Southall, June; Gardiner, Alastair T; Law, Christopher J; Isaacs, Neil W; Cogdell, Richard J

    2003-12-12

    The crystal structure at 4.8 angstrom resolution of the reaction center-light harvesting 1 (RC-LH1) core complex from Rhodopseudomonas palustris shows the reaction center surrounded by an oval LH1 complex that consists of 15 pairs of transmembrane helical alpha- and beta-apoproteins and their coordinated bacteriochlorophylls. Complete closure of the RC by the LH1 is prevented by a single transmembrane helix, out of register with the array of inner LH1 alpha-apoproteins. This break, located next to the binding site in the reaction center for the secondary electron acceptor ubiquinone (UQB), may provide a portal through which UQB can transfer electrons to cytochrome b/c1.

  20. Crystal Structures of EF-G-Ribosome Complexes Trapped in Intermediate States of Translocation

    Energy Technology Data Exchange (ETDEWEB)

    Zhou, Jie; Lancaster, Laura; Donohue, John Paul; Noller, Harry F. [UCSC

    2013-11-12

    Translocation of messenger and transfer RNA (mRNA and tRNA) through the ribosome is a crucial step in protein synthesis, whose mechanism is not yet understood. The crystal structures of three Thermus ribosome-tRNA-mRNA–EF-G complexes trapped with β,γ-imidoguanosine 5'-triphosphate (GDPNP) or fusidic acid reveal conformational changes occurring during intermediate states of translocation, including large-scale rotation of the 30S subunit head and body. In all complexes, the tRNA acceptor ends occupy the 50S subunit E site, while their anticodon stem loops move with the head of the 30S subunit to positions between the P and E sites, forming chimeric intermediate states. Two universally conserved bases of 16S ribosomal RNA that intercalate between bases of the mRNA may act as “pawls” of a translocational ratchet. These findings provide new insights into the molecular mechanism of ribosomal translocation.

  1. Novel lanthanide complexes constructed from 3, 4-dimethoxybenzoic acid: crystal structures, spectrum and thermochemical properties

    Energy Technology Data Exchange (ETDEWEB)

    Qi, Xiao-Xia; Wu, Jun-Chen [Testing and Analysis Center, Hebei Normal University, Shijiazhuang 050024 (China); College of Chemistry & Material Science, Hebei Normal University, Shijiazhuang 050024 (China); Ren, Ning, E-mail: ningren9@163.com [College of Chemical engineering & Material, Handan College, Handan 056005 (China); Zhao, Chun-Li [Raoyang High School of Hebei, Raoyang 053900 (China); Zhang, Jian-Jun, E-mail: jjzhang6@126.com [Testing and Analysis Center, Hebei Normal University, Shijiazhuang 050024 (China); College of Chemistry & Material Science, Hebei Normal University, Shijiazhuang 050024 (China); Zong, Guang-Cai; Gao, Jie [Testing and Analysis Center, Hebei Normal University, Shijiazhuang 050024 (China); College of Chemistry & Material Science, Hebei Normal University, Shijiazhuang 050024 (China)

    2015-09-10

    Graphical abstract: Four novel lanthanide coordination polymers [Ln(3,4-DMOBA){sub 3}(H{sub 2}O){sub 2}]·H{sub 2}O·C{sub 2}H{sub 5}OH (Ln = Sm(1), Tb(2), Dy(3), Ho(4); 3,4-DMOBA = 3, 4-dimethoxybenzoate) have been hydrothermal synthesized and characterized. Single crystal structures indicates 1 D stucture of the title complexes are linked by hydrogen bonds to form a three-dimensional (3-D) structure. Complex 2 exhibits the characteristic emission of Tb{sup 3+} ion({sup 5}D{sub 4} → {sup 7}F{sub 6-3}). The investigation of TG-FTIR and IR spectra of the evolved gases shows uncoordinated water and ethanol molecules tend to lose firstly, and then 3,4-DMOBA ligands begin to decompose. - Highlights: • Four lanthanide coordination polymers were synthesized and characterized. • 1-D chain structures of the title complexes are are linked by hydrogen bonds to form a 3-D structures. • Thermal decomposition processes of the title complexes were studied using TG-FTIR techniques. • IR spectra of evolved gases in thermal decomposition process were obtained and analyzed. - Abstract: Four novel lanthanide complexes [Ln(3,4-DMOBA){sub 3}(H{sub 2}O){sub 2}]·H{sub 2}O·C{sub 2}H{sub 5}OH (Ln = Sm(1), Tb(2), Dy(3), Ho(4); 3,4-DMOBA = 3, 4-dimethoxybenzoate) have been hydrothermal synthesized and characterized. Structural analyses reveal that adjacent lanthanide ions are connected by 3,4-DMOBA ligands adopting bridging bidentate mode to generate one-dimensional (1-D) structure with the uncoordinated water and ethanol molecules. 1-D structures are linked by hydrogen bonds to form a three-dimensional (3-D) structure, which is rarely observed in lanthanide carboxylic acids complexes. Under the radiation of UV light, complex 2 exhibits the characteristic emission of Tb{sup 3+} ion ({sup 5}D{sub 4} → {sup 7}F{sub 6-3}). The thermal decomposition mechanism is investigated by TG-FTIR technology. IR spectra of the evolved gases show that the uncoordinated water and ethanol

  2. A novel series of rhenium-bipyrimidine complexes: synthesis, crystal structure and electrochemical properties.

    Science.gov (United States)

    Chiozzone, Raúl; González, Ricardo; Kremer, Carlos; Cerdá, María Fernanda; Armentano, Donatella; De Munno, Giovanni; Martínez-Lillo, José; Faus, Juan

    2007-02-14

    Four novel rhenium complexes of formula [ReCl(4)(bpym)] (1), [ReBr(4)(bpym)] (2) PPh(4)[ReCl(4)(bpym)] (3) and NBu(4)[ReBr(4)(bpym)] (4) (bpym = 2,2'-bipyrimidine, PPh(4) = tetraphenylphosphonium cation and NBu(4) = tetrabutylammonium cation), have been synthesized and their crystal structures determined by single-crystal X-ray diffraction. The structures of 1 and 2 consist of [ReX(4)(bpym)] molecules held together by van der Waals forces. In both complexes the Re(iv) central atom is surrounded by four halide anions and two nitrogen atoms of a bpym bidentate ligand in a distorted octahedral environment. The structures of 3 and 4 consist of [ReX(4)(bpym)](-) anions and PPh(4)(+) () or NBu(4)(+) (4) cations. The coordination sphere of the Re(iii) metal ion is the same as in 1 and 2, respectively. However, whereas the Re-X bonds are longer the Re-N bonds are shorter than in 1 and 2. This fact reveals that the bpym ligand forms a stronger bond with Re(iii) than with Re(iv) resulting in a stabilisation of the lower oxidation state. [ReX(4)(bpym)] complexes are easily reduced, chemically and electrochemically, to the corresponding [ReX(4)(bpym)](-) anions. A voltammetric study shows that the electron transference is a reversible process characterized by formal redox potentials of +0.19 V (1) and +0.32 V (2) vs. NHE, in acetonitrile as solvent.

  3. Crystal Structure and Functional Interpretation of the Erythrocyte spectrin Tetramerization Domain Complex

    Energy Technology Data Exchange (ETDEWEB)

    J Ipsaro; S Harper; T Messick; R Marmorstein; A Mondragon; D Speicher

    2011-12-31

    As the principal component of the membrane skeleton, spectrin confers integrity and flexibility to red cell membranes. Although this network involves many interactions, the most common hemolytic anemia mutations that disrupt erythrocyte morphology affect the spectrin tetramerization domains. Although much is known clinically about the resulting conditions (hereditary elliptocytosis and pyropoikilocytosis), the detailed structural basis for spectrin tetramerization and its disruption by hereditary anemia mutations remains elusive. Thus, to provide further insights into spectrin assembly and tetramer site mutations, a crystal structure of the spectrin tetramerization domain complex has been determined. Architecturally, this complex shows striking resemblance to multirepeat spectrin fragments, with the interacting tetramer site region forming a central, composite repeat. This structure identifies conformational changes in {alpha}-spectrin that occur upon binding to {beta}-spectrin, and it reports the first structure of the {beta}-spectrin tetramerization domain. Analysis of the interaction surfaces indicates an extensive interface dominated by hydrophobic contacts and supplemented by electrostatic complementarity. Analysis of evolutionarily conserved residues suggests additional surfaces that may form important interactions. Finally, mapping of hereditary anemia-related mutations onto the structure demonstrate that most, but not all, local hereditary anemia mutations map to the interacting domains. The potential molecular effects of these mutations are described.

  4. Crystal structure and functional interpretation of the erythrocyte spectrin tetramerization domain complex

    Energy Technology Data Exchange (ETDEWEB)

    Ipsaro, Jonathan J.; Harper, Sandra L.; Messick, Troy E.; Marmorstein, Ronen; Mondragón, Alfonso; Speicher, David W. (Wistar); (NWU)

    2010-09-07

    As the principal component of the membrane skeleton, spectrin confers integrity and flexibility to red cell membranes. Although this network involves many interactions, the most common hemolytic anemia mutations that disrupt erythrocyte morphology affect the spectrin tetramerization domains. Although much is known clinically about the resulting conditions (hereditary elliptocytosis and pyropoikilocytosis), the detailed structural basis for spectrin tetramerization and its disruption by hereditary anemia mutations remains elusive. Thus, to provide further insights into spectrin assembly and tetramer site mutations, a crystal structure of the spectrin tetramerization domain complex has been determined. Architecturally, this complex shows striking resemblance to multirepeat spectrin fragments, with the interacting tetramer site region forming a central, composite repeat. This structure identifies conformational changes in {alpha}-spectrin that occur upon binding to {beta}-spectrin, and it reports the first structure of the {beta}-spectrin tetramerization domain. Analysis of the interaction surfaces indicates an extensive interface dominated by hydrophobic contacts and supplemented by electrostatic complementarity. Analysis of evolutionarily conserved residues suggests additional surfaces that may form important interactions. Finally, mapping of hereditary anemia-related mutations onto the structure demonstrate that most, but not all, local hereditary anemia mutations map to the interacting domains. The potential molecular effects of these mutations are described.

  5. Synthesis and crystal structure of [chlorobis(triphenylphospino) (p-chlorobenzaldehyde thiosemicarbazone)] copper(I) complex

    Indian Academy of Sciences (India)

    Ashiq Khan; Poonam Sharma; Rajnikant; Vivek K Gupta; Naresh Padha; Rekha Sharma

    2016-02-01

    Reactions of copper(I) halides with p-chlorobenzaldehyde thiosemicarbazone (H1L) and triphenylphosphine in 1 : 1 : 2 molar ratio yielded complexes of stoichiometry, [CuX(1-S- H1L)(Ph3P)2] (X = I, 1: Br, 2; Cl, 3). All the three complexes were characterized using analytical (CHNS) and spectroscopic (IR, 1H NMR) techniques. The structure of complex 3 was confirmed by X-ray crystallography. It has been found to crystallize in the triclinic system with space group P-1 and unit cell parameters: a = 10.207(5) Å, b = 13.027(5) Å, c = 16.269(5) Å, = 100.054(5)°, = 99.228(5)° and = 97.234(5)°. This complex has distorted tetrahedral geometry with two phosphorus atoms from two triphenylphosphine ligands, thione sulfur of thiosemicarbazone ligand and chloride ion occupying the four corners of the tetrahedron. The structure of complex 3 was in contrast to sulfur-bridged dinuclear complex of copper(I) chloride with benzaldehydethiosemicarbazone, [Cu2Cl2(2-S-Hbtsc)2(Ph3P)2]·2H2O. The intermolecular H-bonding, Cl· · ·HCph, 2.733 Å and interactions, {CHph · · · , 2.796; 2.776 Å} in this complex led to the formation of 1D chain. Two such 1D chains were cross-linked via, Cl· · ·HCph, 2.896 Å H-bonding to form a 2D network.

  6. Synthesis, crystal structure, spectroscopic characterization and nonlinear optical properties of Co(II)- picolinate complex

    Energy Technology Data Exchange (ETDEWEB)

    Tamer, Ömer, E-mail: omertamer@sakarya.edu.tr; Avcı, Davut; Atalay, Yusuf

    2015-11-15

    A cobalt(II) complex of picolinate was synthesized, and its structure was fully characterized by the applying of X-ray diffraction method as well as FT-IR, FT-Raman and UV–vis spectroscopies. In order to both support the experimental results and convert study to more advanced level, density functional theory calculations were performed by using B3LYP level. Single crystal X-ray structural analysis shows that cobalt(II) ion was located to the center of distorted octahedral geometry. The C=O, C=C and C=N stretching vibrations were found as highly active and strong peaks, inducing the molecular charge transfer within Co(II) complex. The small energy gap between frontier molecular orbital energies was another indicator of molecular charge transfer interactions within Co(II) complex. The nonlinear optical properties of Co(II) complex were investigated at DFT/B3LYP level, and the hypepolarizability parameter was found to be decreased due to the presence of inversion symmetry. The natural bond orbital (NBO) analysis was performed to investigate molecular stability, hyperconjugative interactions, intramolecular charge transfer (ICT) and bond strength for Co(II) complex. Finally, molecular electrostatic potential (MEP) and spin density distributions for Co(II) complex were evaluated. - Highlights: • Co(II) complex of picolinate was prepared. • Its FT-IR, FT-Raman and UV–vis spectra were measured. • DFT calculations were performed to support experimental results. • Small HOMO-LUMO energy gap is an indicator of molecular charge transfer. • Spin density localized on Co(II) as well as O and N atoms.

  7. Crystal structure of LpxC from Pseudomonas aeruginosa complexed with the potent BB-78485 inhibitor

    Energy Technology Data Exchange (ETDEWEB)

    Mochalkin, Igor; Knafels, John D.; Lightle, Sandra (Pfizer)

    2008-04-02

    The cell wall in Gram-negative bacteria is surrounded by an outer membrane comprised of charged lipopolysaccharide (LPS) molecules that prevent entry of hydrophobic agents into the cell and protect the bacterium from many antibiotics. The hydrophobic anchor of LPS is lipid A, the biosynthesis of which is essential for bacterial growth and viability. UDP-3-O-(R-3-hydroxymyristoyl)-N-acetylglucosamine deacetylase (LpxC) is an essential zinc-dependant enzyme that catalyzes the conversion of UDP-3-O-(R-3-hydroxymyristoyl)-N-acetylglucosamine to UDP-3-O-(R-3-hydroxymyristoyl)glucosamine and acetate in the biosynthesis of lipid A, and for this reason, LpxC is an attractive target for antibacterial drug discovery. Here we disclose a 1.9 A resolution crystal structure of LpxC from Pseudomonas aeruginosa (paLpxC) in a complex with the potent BB-78485 inhibitor. To our knowledge, this is the first crystal structure of LpxC with a small-molecule inhibitor that shows antibacterial activity against a wide range of Gram-negative pathogens. Accordingly, this structure can provide important information for lead optimization and rational design of the effective small-molecule LpxC inhibitors for successful treatment of Gram-negative infections.

  8. Crystal Structure of a Designed Tetratricopeptide Repeat Module in Complex with its Peptide Ligand

    Energy Technology Data Exchange (ETDEWEB)

    Cortajarena, A.; Wang, J; Regan, L

    2010-01-01

    Tetratricopeptide repeats (TPRs) are protein domains that mediate key protein-protein interactions in cells. Several TPR domains bind the C-termini of the chaperones heat shock protein (Hsp)90 and/or Hsp70, and exchange of such binding partners is key for the heat shock response. We have previously described the design of a TPR protein that binds tightly and specifically to the C-terminus of Hsp90, and in doing so, is able to inhibit chaperone function in vivo. Here we present the X-ray crystal structure of the designed TPR domain (CTPR390) in complex with its peptide ligand - the C-terminal residues of Hsp90 (peptide MEEVD). This structure reveals two interesting aspects of the TPR modules. First, a new packing arrangement of 3-TPR modules is observed. The TPR units stack against each other in an unusual fashion to form infinite superhelices in the crystal. Second, the structure provides insights into the molecular basis of TPR-ligand recognition.

  9. Phase Behavior and Crystal Structure of Perovskite-Type Rare Earth Complex Oxides

    Institute of Scientific and Technical Information of China (English)

    2006-01-01

    Several compounds of rare earth complex oxides containing manganese and titanium were synthesized in Ar, and their crystal structures were analyzed by powder X-ray diffraction data and Rietveld method. Structures of A0.67Ln0.33Mn0.33Ti0.67O3 (A=Ca or Sr and Ln=rare earth) were found to have orthorhombic symmetry with the space group Pnma, and their interatomic distances and bond angles were obtained. This space group was also derived from electron microscopic study. Electrical conductivity of Ca0.67Ln0.33Mn0.33Ti0.67O3 for several rare earth elements showed a semiconducting property with the activation energy of 0.4 eV. Some of these compounds of the strontium system show the antiferromagnetic properties below 10 K.

  10. Magnetic properties of copper(II) complexes containing peptides. Crystal structure of [Cu(phe-leu)

    Science.gov (United States)

    Sanchiz, J.; Kremer, C.; Torre, M. H.; Facchin, G.; Kremer, E.; Castellano, E. E.; Ellena, J.

    2006-09-01

    A novel copper(II) complex containing the peptide phe-leu has been prepared and characterized. The crystal structure of [Cu(phe-leu)] ( 1) was determined by X-ray diffraction. The presence of carboxylate and amido bridges allows the formation of an extended 2D arrangement. This structure is similar to those found in [Cu(gly-val)] · 1/2H 2O ( 2), [Cu(val-gly)] ( 3), [Cu(val-phe)] ( 4), and [Cu(phe-phe)] ( 5). The magnetic properties of compounds 1- 5 were studied and analyzed comparatively. The experimental data show that the magnetic interactions are mainly transmitted through μ 2-COO - bridges, being ferromagnetic for 1 and 3, and antiferromagnetic for 2, 4 and 5.

  11. Synthesis, crystal structure and photoluminescence of phosphorescent copper (I) complexes containing hole-transporting carbazoly moiety.

    Science.gov (United States)

    Yu, Tianzhi; Chai, Haifang; Zhao, Yuling; Zhang, Chengcheng; Liu, Peng; Fan, Duowang

    2013-05-15

    Two new mononuclear Cu(I) complexes based on 2-(2'-pyridyl)benzimidazolyl derivative ligand containing hole-transporting carbazole (L), [Cu(L)(DPEphos)](BF4) and [Cu(L)(PPh3)2](BF4), where L=(4-(9H-carbazol-9-yl)phenyl)methyl-2-(2'-pyridyl)benzimidazole; DPEphos=bis[2-(diphenylphosphino)phenyl]ether and PPh3=triphenylphosphine, have been synthesized and characterized on the basis of elemental analysis, (1)H NMR and FT-IR spectra. The structures of the ligand L and the Cu(I) complexes were characterized by single crystal X-ray diffraction. The results reveal that in the Cu(I) complexes the central Cu(I) ions assume the irregular distorted tetrahedral geometry and are tetra-coordinated by the two nitrogen atoms from L ligand and two phosphorus atoms from ancillary ligands. The photophysical properties of the complexes were examined by using UV-vis, photoluminescence spectroscopic analysis. The complexes exhibit weak MLCT absorption bands ranging from 360 to 480 nm, and display strong orange phosphorescence in the solid states at room temperature, which is completely quenched in solutions.

  12. Study on the Crystal Structure of a Macrocycle and Tyrosinase Activity of Its Dinuclear Copper Complexes

    Institute of Scientific and Technical Information of China (English)

    周红; 潘志权; 罗勤慧; 梅光泉; 龙德良; 陈久桐

    2005-01-01

    A ring-contracted form macrocycle, 29,30-dioxo-3,6,9,17,20,23,29,30-octaazapentacyclo[23,3,1,111,15,02,6,016,20]-triacontaneocta- 1 (28),9,11 (12), 13,15(30),23,25(29),26-ene (L) was synthesized by condensation of diethyltriamine with pyridine-1-oxide-2,6-dicarboxaldehyde. A porous three-dimensional layer structure in its crystal was formed by self-assembly through hydrogen bonds and π-π interaction. Its dinuclear copper(I) complex [Cu2L(MeOH)2]-(BF4)2*2H2O and dinuclear-copper(II) complex [Cu2L(MeOH)2](ClO4)4*2H2O were obtained and could oxidize catalytically four phenolic substrates hydroquinone, 2-methyl-hydroquinone, 2,6-di-tert-butylphenol and 2,6-dimethylphenol, in a mixture of methanol and acetonitrile (V : V, 4 : 1). The copper(I) complex reacted with dioxygen to form an oxygenated species as an initial active intermediate for oxidation of the phenols. Oxidation of the substrates by the copper(II) complex produced a copper(I) complex and the oxidation products of the substrates.

  13. Synthesis, crystal structure and photoluminescence of phosphorescent copper (I) complexes containing hole-transporting carbazoly moiety

    Science.gov (United States)

    Yu, Tianzhi; Chai, Haifang; Zhao, Yuling; Zhang, Chengcheng; Liu, Peng; Fan, Duowang

    2013-05-01

    Two new mononuclear Cu(I) complexes based on 2-(2'-pyridyl)benzimidazolyl derivative ligand containing hole-transporting carbazole (L), [Cu(L)(DPEphos)](BF4) and [Cu(L)(PPh3)2](BF4), where L = (4-(9H-carbazol-9-yl)phenyl)methyl-2-(2'-pyridyl)benzimidazole; DPEphos = bis[2-(diphenylphosphino)phenyl]ether and PPh3 = triphenylphosphine, have been synthesized and characterized on the basis of elemental analysis, 1H NMR and FT-IR spectra. The structures of the ligand L and the Cu(I) complexes were characterized by single crystal X-ray diffraction. The results reveal that in the Cu(I) complexes the central Cu(I) ions assume the irregular distorted tetrahedral geometry and are tetra-coordinated by the two nitrogen atoms from L ligand and two phosphorus atoms from ancillary ligands. The photophysical properties of the complexes were examined by using UV-vis, photoluminescence spectroscopic analysis. The complexes exhibit weak MLCT absorption bands ranging from 360 to 480 nm, and display strong orange phosphorescence in the solid states at room temperature, which is completely quenched in solutions.

  14. Crystal Structures and Antifungal Activities of Fluorine-Containing Thioureido Complexes with Nickel(II

    Directory of Open Access Journals (Sweden)

    Chun Li

    2013-12-01

    Full Text Available Ni(II complexes with N-2-fluorobenzoylpiperidine-1-carbothioimidate (L2−, N-4-fluorobenzoylpiperidine-1-carbothioimidate (L3−, N-2-fluorobenzoylmorpholine- 1-carbothioimidate (L5− and N-4-fluorobenzoylmorpholine-1-carbothioimidate (L6−  have been synthesized and characterized by elemental analysis, FTIR and 1H-NMR. The crystal structures of three ligands (HL2, HL3 and HL6 and the corresponding Ni(II complexes ([Ni(L22], [Ni(L32] and [Ni(L62] have been determined by X-ray diffraction. The antifungal activities of the Ni(II complexes together and the corresponding ligands against the fungi Botrytis cinerea, Trichoderma spp., Myrothecium and Verticillium spp. have been investigated. The experimental results showed that the ligands and their complexes have antifungal abilities. When the fluorine was substituted on the para-benzoyl moiety, the antifungal activity of the ligands was obviously increased. Moreover, the ligands were stronger than their complexes in inhibiting fungal activities. The antifungal ability of HL6 is especially strong, and similar to that of the commercial fungicide fluconazole.

  15. Crystal structure of tarocystatin-papain complex: implications for the inhibition property of group-2 phytocystatins.

    Science.gov (United States)

    Chu, Ming-Hung; Liu, Kai-Lun; Wu, Hsin-Yi; Yeh, Kai-Wun; Cheng, Yi-Sheng

    2011-08-01

    Tarocystatin (CeCPI) from taro (Colocasia esculenta cv. Kaohsiung no. 1), a group-2 phytocystatin, shares a conserved N-terminal cystatin domain (NtD) with other phytocystatins but contains a C-terminal cystatin-like extension (CtE). The structure of the tarocystatin-papain complex and the domain interaction between NtD and CtE in tarocystatin have not been determined. We resolved the crystal structure of the phytocystatin-papain complex at resolution 2.03 Å. Surprisingly, the structure of the NtD-papain complex in a stoichiometry of 1:1 could be built, with no CtE observed. Only two remnant residues of CtE could be built in the structure of the CtE-papain complex. Therefore, CtE is easily digested by papain. To further characterize the interaction between NtD and CtE, three segments of tarocystatin, including the full-length (FL), NtD and CtE, were used to analyze the domain-domain interaction and the inhibition ability. The results from glutaraldehyde cross-linking and yeast two-hybrid assay indicated the existence of an intrinsic flexibility in the region linking NtD and CtE for most tarocystatin molecules. In the inhibition activity assay, the glutathione-S-transferase (GST)-fused FL showed the highest inhibition ability without residual peptidase activity, and GST-NtD and FL showed almost the same inhibition ability, which was higher than with NtD alone. On the basis of the structures, the linker flexibility and inhibition activity of tarocystatins, we propose that the overhangs from the cystatin domain may enhance the inhibition ability of the cystatin domain against papain.

  16. Crystal structure of dimeric heme oxygenase-2 from Synechocystis sp. PCC 6803 in complex with heme.

    Science.gov (United States)

    Sugishima, Masakazu; Hagiwara, Yoshinori; Zhang, Xuhong; Yoshida, Tadashi; Migita, Catharina T; Fukuyama, Keiichi

    2005-03-22

    Phycobiliproteins, light-harvesting proteins in cyanobacteria, red algae, and cryptophytes, contain phycobilin pigments. Phycobilins are synthesized from biliverdin, which is produced by the oxidative cleavage of the heme porphyrin ring catalyzed by heme oxygenase (HO). Two paralogs of ho (ho1 and ho2) have been identified in the genome of the cyanobacterium, Synechocystis sp. PCC 6803. The recombinant proteins of both paralogs (Syn HO-1 and Syn HO-2) possess in vitro heme degradation activity. We have determined the crystal structures of Syn HO-2 in complex with heme (heme-Syn HO-2) and its reduced and NO bound forms. The heme-Syn HO-2 crystal was a nonmerohedral twin, and detwinned diffraction data were used to refine the structure. Although heme-Syn HO-2 shares common folding with other HOs, the C-terminal segment is ordered and turns back to the heme-binding side. Gel-filtration chromatography analysis and molecular packing in the crystal indicate that heme-Syn HO-2 forms a homodimer, in which the C-terminal ordered segments interact with each other. Because Syn HO-2 is a monomer in the apo state, the dimeric interaction may aid in the selection of the reducing partner but likely does not interfere with heme binding. The heme iron is coordinated by a water molecule in the ferric form, but the distal water is absent in the ferrous form. In all of the Syn HO-2 structures, several water molecules form a hydrogen-bond network at the distal hemepocket, which is involved in HO activity. Upon NO binding, the side-chain conformation of Tyr 156 changes. Tyr 156 is located at the hydrophobic cluster, which interrupts the possible H(+) pathway from the molecular surface to the hemepocket. Thus, Tyr 156 may function as a H(+) shuttle by changing conformation.

  17. Synthesis and Crystal Structure of a Novel Fe(Ⅲ) Schiff Base Complex

    Institute of Scientific and Technical Information of China (English)

    JIANG Guang-Qi; ZHANG Dai-Yu; YANG Zheng-Feng

    2012-01-01

    A novel Fe(Ⅲ) Schiff base complex,FeⅢ(HL) {H4L = 1,1,1,1-tetrakis[(salicylaldimino)methyl]methane},has been prepared and characterized by elemental analyses,IR spectrum,and single-crystal X-ray diffraction analysis.The crystal belongs to the monoclinic system,space group P21/n with a = 12.569(3),b = 12.955(3),c = 17.647(4) ,β = 91.896(9)°,V = 2871.9(1) 3,Z = 4,Dc = 1.391 g/cm3,F(000) = 1252.0,Mr = 601.45,R = 0.0383 and wR = 0.1025.The structural analysis reveals that the Fe(Ⅲ) ions are six-coordinated by imine nitrogen atoms and phenolic oxygen atoms form three pendant arms of Schiff base ligands,and one of the salicylaldimine chelating units remains uncoordinated.Discrete complex molecules were further assembled into 1D supramolecular aggregations by C-H…O hydrogen bonding and C-H…π interactions.

  18. Syntheses, crystal structures, and properties of four complexes based on polycarboxylate and imidazole ligands

    Energy Technology Data Exchange (ETDEWEB)

    Qiao, Rui [School of Chemistry and Chemical Engineering, Fuyang University, Fuyang 236041 (China); Chen, Shui-Sheng, E-mail: chenss@fync.edu.cn [School of Chemistry and Chemical Engineering, Fuyang University, Fuyang 236041 (China); Coordination Chemistry Institute, State Key Laboratory of Coordination Chemistry, Nanjing University, Nanjing 210093 (China); Sheng, Liang-Quan; Yang, Song; Li, Wei-Dong [School of Chemistry and Chemical Engineering, Fuyang University, Fuyang 236041 (China)

    2015-08-15

    Four metal–organic coordination polymers [Zn(HL)(H{sub 2}O)]·4H{sub 2}O (1), [Zn(HL)(L{sub 1})]·4H{sub 2}O (2), [Cu(HL)(H{sub 2}O)]·3H{sub 2}O (3) and [Cu(HL)(L{sub 1})]·5H{sub 2}O (4) were synthesized by reactions of the corresponding metal(II) salts with semirigid polycarboxylate ligand (5-((4-carboxypiperidin-1-yl)methyl)isophthalic acid hydrochloride, H{sub 3}L·HCl) or auxiliary ligand (1,4-di(1H-imidazol-4-yl)benzene, L{sub 1}). The structures of the compounds were characterized by elemental analysis, FT-IR spectroscopy and single-crystal X-ray diffraction. The use of auxiliary ligand L{sub 1} has great influence on the structures of two pairs of complexes 1, 2 and 3, 4. Complex 1 is a uninodal 3-connected rare 2-fold interpenetrating ZnSc net with a Point (Schlafli) symbol of (10{sup 3}) while 2 is a one-dimensional (1D) ladder structure. Compound 3 features a two-dimensional (2D) honeycomb network with typical 6{sup 3}-hcb topology, while 4 is 2D network with (4, 4) sql topology based on binuclear Cu{sup II} subunits. The non-covalent bonding interactions such as hydrogen bonds, π···π stacking and C–H···π exist in complexes 1–4, which contributes to stabilize crystal structure and extend the low-dimensional entities into high-dimensional frameworks. And the photoluminescent property of 1 and 2 and gas sorption property of 4 have been investigated. - Graphical abstract: Four new coordination polymers have been obtained and their photoluminescent and gas sorption properties have also been investigated. - Highlights: • Two pairs of Zn{sup II}/ Cu{sup II} compounds have been synthesized. • Auxiliary ligand-controlled assembly of the complexes is reported. • The luminescent properties of complexes 1–2 were investigated. • The gas sorption property of 4 has been investigated.

  19. Crystal Structure of a Dimerized Cockroach Allergen Bla g 2 Complexed with a Monoclonal Antibody

    Energy Technology Data Exchange (ETDEWEB)

    Li, Mi; Gustchina, Alla; Alexandratos, Jerry; Wlodawer, Alexander; Wünschmann, Sabina; Kepley, Christopher L.; Chapman, Martin D.; Pomes, Anna (INDOOR Bio.); (VCU); (NIH)

    2008-09-03

    The crystal structure of a 1:1 complex between the German cockroach allergen Bla g 2 and the Fab' fragment of a monoclonal antibody 7C11 was solved at 2.8-{angstrom} resolution. Bla g 2 binds to the antibody through four loops that include residues 60-70, 83-86, 98-100, and 129-132. Cation-{pi} interactions exist between Lys-65, Arg-83, and Lys-132 in Bla g 2 and several tyrosines in 7C11. In the complex with Fab', Bla g 2 forms a dimer, which is stabilized by a quasi-four-helix bundle comprised of an {alpha}-helix and a helical turn from each allergen monomer, exhibiting a novel dimerization mode for an aspartic protease. A disulfide bridge between C51a and C113, unique to the aspartic protease family, connects the two helical elements within each Bla g 2 monomer, thus facilitating formation of the bundle. Mutation of these cysteines, as well as the residues Asn-52, Gln-110, and Ile-114, involved in hydrophobic interactions within the bundle, resulted in a protein that did not dimerize. The mutant proteins induced less {beta}-hexosaminidase release from mast cells than the wild-type Bla g 2, suggesting a functional role of dimerization in allergenicity. Because 7C11 shares a binding epitope with IgE, the information gained by analysis of the crystal structure of its complex provided guidance for site-directed mutagenesis of the allergen epitope. We have now identified key residues involved in IgE antibody binding; this information will be useful for the design of vaccines for immunotherapy.

  20. Crystal structure of a PCP/Sfp complex reveals the structural basis for carrier protein posttranslational modification.

    Science.gov (United States)

    Tufar, Peter; Rahighi, Simin; Kraas, Femke I; Kirchner, Donata K; Löhr, Frank; Henrich, Erik; Köpke, Jürgen; Dikic, Ivan; Güntert, Peter; Marahiel, Mohamed A; Dötsch, Volker

    2014-04-24

    Phosphopantetheine transferases represent a class of enzymes found throughout all forms of life. From a structural point of view, they are subdivided into three groups, with transferases from group II being the most widespread. They are required for the posttranslational modification of carrier proteins involved in diverse metabolic pathways. We determined the crystal structure of the group II phosphopantetheine transferase Sfp from Bacillus in complex with a substrate carrier protein in the presence of coenzyme A and magnesium, and observed two protein-protein interaction sites. Mutational analysis showed that only the hydrophobic contacts between the carrier protein's second helix and the C-terminal domain of Sfp are essential for their productive interaction. Comparison with a similar structure of a complex of human proteins suggests that the mode of interaction is highly conserved in all domains of life.

  1. Synthesis, Spectroscopy and Crystal Structure of a New Copper Complex Builtup by Cationic (Dimethylphosphorylmethanaminium Ligands

    Directory of Open Access Journals (Sweden)

    Manuela E. Richert

    2014-05-01

    Full Text Available A new transition metal complex of the mono-protonated ligand (dimethylphosphorylmethanamine (dpmaH+ was obtained by equimolar reaction of copper(II chloride dihydrate and dpma in concentrated hydrochloric acid. The asymmetric unit of the title structure, [CuCl2(C3H11NOP4][CuCl4]2, consists of one half of a fourfold charged trans-dichloridotetrakis[(dimethylphosphorylmethanaminium]copper(II complex with the copper atom located on an inversion centre and one tetrachloridocuprate(II dianion found in a general position. The copper centre in the cationic complex shows a tetragonally distorted octahedral environment composed of four oxygen atoms in a square plane and two trans-coordinated chlorido ligands. This 4+2-coordination causes elongated Cu-Cl distances because of the Jahn-Teller effect. The geometry of the tetrachloridocuprate(II dianion is best described as a seriously distorted tetrahedron. Analysis of the hydrogen bonding scheme by graph-set theory shows three patterns of rings in the title compound. The cationic copper complex reveals intramolecular hydrogen bonds between two aminium groups and the two axial chlorido ligands. Further hydrogen bonding among the cations and anions, more precisely between four aminium groups and the chlorido ligands of four adjacent tetrachloridocuprate(II anions, lead to a chain-type structure. Comparing the coordination chemistry of the title structure with an analogue cobalt(II compound only disclose differences in hydrogen bonding pattern resulting in an unusual chain propagation. Besides the crystal structure received spectroscopic data are in accordance with appropriate literature.

  2. Syntheses and Crystal Structures of Two VO(IV) Schiff Base Complexes with Oxyammonia Ligand

    Institute of Scientific and Technical Information of China (English)

    李连之; 许涛; 王大奇; 牛梅菊; 冀海伟

    2004-01-01

    Two novel VO(IV) Schiff base complexes, VO(SALHA)2[SALHA: salicyaldehydeoxyammonia] and VO(o-VANHA)2 [o-VANHA: o-vanillin-oxyammonia], have been synthesized with salicyaldehyde or o-vanilline, hydroxylammonium chloride and vanadyl sulfate in absolute methanol, and their crystal structures were determined by single-crystal X-ray diffraction. The vanadium(IV) centers in both complexes are five-coordinate in a distorted square pyramidal geometry. VO(SALHA)2 (C14H12N2O5V, Mr = 339.20) crystallizes in the monoclinic system, space group P21/n with a = 14.716(9), b = 7.175(5), c = 14.716(9) A, β = 113.130(7), V = 1428.8(15) A3, Z = 4, Dc = 1.577 g/cm3, β = 0.71073 A, μ(MoKα) = 0.720 mm-1, F(000) = 692, the final R = 0.0466 and wR = 0.0829 for 1561 observed reflections (I > 2σ(I)). VO(o-VANHA)2 (C16H16N2O7V, Mr = 399.25) is of monoclinic, space group P21/n with a = 11.386(12), b = 10.405(10), c = 14.627(15) A, β = 93.654(19), V = 1729(3) A3, Z = 4, Dc = 1.533 g/cm3, β = 0.71073 A, μ(MoKα) = 0.615 mm-1, F(000) = 820, the final R = 0.0513 and wR = 0.1129 for 1235 observed reflections (I > 2σ(I)).

  3. Crystal structure of mouse coronavirus receptor-binding domain complexed with its murine receptor

    Energy Technology Data Exchange (ETDEWEB)

    Peng, Guiqing; Sun, Dawei; Rajashankar, Kanagalaghatta R.; Qian, Zhaohui; Holmes, Kathryn V.; Li, Fang (Cornell); (UMM-MED); (Colorado)

    2011-09-28

    Coronaviruses have evolved diverse mechanisms to recognize different receptors for their cross-species transmission and host-range expansion. Mouse hepatitis coronavirus (MHV) uses the N-terminal domain (NTD) of its spike protein as its receptor-binding domain. Here we present the crystal structure of MHV NTD complexed with its receptor murine carcinoembryonic antigen-related cell adhesion molecule 1a (mCEACAM1a). Unexpectedly, MHV NTD contains a core structure that has the same {beta}-sandwich fold as human galectins (S-lectins) and additional structural motifs that bind to the N-terminal Ig-like domain of mCEACAM1a. Despite its galectin fold, MHV NTD does not bind sugars, but instead binds mCEACAM1a through exclusive protein-protein interactions. Critical contacts at the interface have been confirmed by mutagenesis, providing a structural basis for viral and host specificities of coronavirus/CEACAM1 interactions. Sugar-binding assays reveal that galectin-like NTDs of some coronaviruses such as human coronavirus OC43 and bovine coronavirus bind sugars. Structural analysis and mutagenesis localize the sugar-binding site in coronavirus NTDs to be above the {beta}-sandwich core. We propose that coronavirus NTDs originated from a host galectin and retained sugar-binding functions in some contemporary coronaviruses, but evolved new structural features in MHV for mCEACAM1a binding.

  4. Crystal structure of the β2 adrenergic receptor-Gs protein complex

    Energy Technology Data Exchange (ETDEWEB)

    Rasmussen, Søren G.F.; DeVree, Brian T; Zou, Yaozhong; Kruse, Andrew C; Chung, Ka Young; Kobilka, Tong Sun; Thian, Foon Sun; Chae, Pil Seok; Pardon, Els; Calinski, Diane; Mathiesen, Jesper M; Shah, Syed T.A.; Lyons, Joseph A; Caffrey, Martin; Gellman, Samuel H; Steyaert, Jan; Skiniotis, Georgios; Weis, William I; Sunahara, Roger K; Kobilka, Brian K [Brussels; (Trinity); (Michigan); (Stanford-MED); (Michigan-Med); (UW)

    2011-12-07

    G protein-coupled receptors (GPCRs) are responsible for the majority of cellular responses to hormones and neurotransmitters as well as the senses of sight, olfaction and taste. The paradigm of GPCR signalling is the activation of a heterotrimeric GTP binding protein (G protein) by an agonist-occupied receptor. The β2 adrenergic receptor (β2AR) activation of Gs, the stimulatory G protein for adenylyl cyclase, has long been a model system for GPCR signalling. Here we present the crystal structure of the active state ternary complex composed of agonist-occupied monomeric β2AR and nucleotide-free Gs heterotrimer. The principal interactions between the β2AR and Gs involve the amino- and carboxy-terminal α-helices of Gs, with conformational changes propagating to the nucleotide-binding pocket. The largest conformational changes in the β2AR include a 14Å outward movement at the cytoplasmic end of transmembrane segment 6 (TM6) and an α-helical extension of the cytoplasmic end of TM5. The most surprising observation is a major displacement of the α-helical domain of Gαs relative to the Ras-like GTPase domain. This crystal structure represents the first high-resolution view of transmembrane signalling by a GPCR.

  5. Crystal structure and thermal decomposition mechanism of the supramolecular complex of barium chloride with inositol

    Institute of Scientific and Technical Information of China (English)

    WANG; Feili; TANG; Zongxun; LI; Shuni; HU; Daodao; ZHAO; Ho

    2005-01-01

    The single crystal of [Ba(H2O)2(C6H12O6)2Cl2] was obtained based on the phase equilibrium results. Its structure was determined by X-ray crystallographic analysis. The crystals are monoclinic and in space group C2/c with a = 1.901 7(2) nm, b = 0.682 13(8) nm, c = 0.162 60(2) nm, β = 96.593(2)° and V = 2.095 3(4) nm3, Z = 4, DC = 1.917 g·cm-3. In its solid state, this supramolecular complex is a three-dimensional network with double layers connected by hydrogen bondings. The molecule structure of [Ba(H2O)2(C6H12O6)2Cl2] has a central barium ion that is coordinated to two water molecules, two chlorides, and four hydroxyls from the two inositols. Losing the coordinating water is controlled by random nucleation and growth mechanism (n = 2/3) and 3-dimensional diffusion mechanism (n = 2).

  6. Synthesis, Characterization and Crystal Structure of Quaternary Complex of Gadolinium (Ⅲ)

    Institute of Scientific and Technical Information of China (English)

    朱龙观; 蔡国强; 王国平; 北川进; 正冈重行

    2003-01-01

    A new quaternary mixed anion complex of gadolinium(Ⅲ), [Gd(CH3CH2COO)2(NO3)(phen)]2, was synthesized and structurally characterized. The ESR spectrum of the complex with effective g values of 5.314, 2.473 and 1.880 in polycrystalline powder at room temperature is quite different from the U spectrum. The coordination number of Gd3+ is nine with a monocapped square antiprism geometry. And the stacking effect was observed in the complex. The crystal of the complex belongs to triclinic with space group P 1, a=0.9626(4) nm, b=0.9732(4) nm, c=1.1758(5) nm, α=102.45(1)°, β=108.16(1)°, γ=96.68(2)°, V=1.0018(7) nm3, Z=2, Dc=1.80 g*cm-3, μ(MoKα)=33.63 mm-1, F(000)=530, GOF=1.80, R=0.023 and Rw=0.027.

  7. Crystal structure of Pterocarpus angolensis lectin in complex with glucose, sucrose, and turanose.

    Science.gov (United States)

    Loris, Remy; Imberty, Anne; Beeckmans, Sonia; Van Driessche, Edilbert; Read, John S; Bouckaert, Julie; De Greve, Henri; Buts, Lieven; Wyns, Lode

    2003-05-02

    The crystal structure of the Man/Glc-specific seed lectin from Pterocarpus angolensis was determined in complex with methyl-alpha-d-glucose, sucrose, and turanose. The carbohydrate binding site contains a classic Man/Glc type specificity loop. Its metal binding loop on the other hand is of the long type, different from what is observed in other Man/Glc-specific legume lectins. Glucose binding in the primary binding site is reminiscent of the glucose complexes of concanavalin A and lentil lectin. Sucrose is found to be bound in a conformation similar as seen in the binding site of lentil lectin. A direct hydrogen bond between Ser-137(OG) to Fru(O2) in Pterocarpus angolensis lectin replaces a water-mediated interaction in the equivalent complex of lentil lectin. In the turanose complex, the binding site of the first molecule in the asymmetric unit contains the alphaGlc1-3betaFruf form of furanose while the second molecule contains the alphaGlc1-3betaFrup form in its binding site.

  8. Crystal structure of HIV-1 Tat complexed with human P-TEFb

    Energy Technology Data Exchange (ETDEWEB)

    Tahirov, Tahir H.; Babayeva, Nigar D.; Varzavand, Katayoun; Cooper, Jeffrey J.; Sedore, Stanley C.; Price, David H. (Nebraska-Med); (Iowa)

    2010-08-23

    Regulation of the expression of the human immunodeficiency virus (HIV) genome is accomplished in large part by controlling transcription elongation. The viral protein Tat hijacks the host cell's RNA polymerase II elongation control machinery through interaction with the positive transcription elongation factor, P-TEFb, and directs the factor to promote productive elongation of HIV mRNA. Here we describe the crystal structure of the Tat-P-TEFb complex containing HIV-1 Tat, human Cdk9 (also known as CDK9), and human cyclin T1 (also known as CCNT1). Tat adopts a structure complementary to the surface of P-TEFb and makes extensive contacts, mainly with the cyclin T1 subunit of P-TEFb, but also with the T-loop of the Cdk9 subunit. The structure provides a plausible explanation for the tolerance of Tat to sequence variations at certain sites. Importantly, Tat induces significant conformational changes in P-TEFb. This finding lays a foundation for the design of compounds that would specifically inhibit the Tat-P-TEFb complex and block HIV replication.

  9. Crystal structure and stability of gyrase–fluoroquinolone cleaved complexes from Mycobacterium tuberculosis

    Science.gov (United States)

    Williamson, Benjamin H.; Kerns, Robert J.; Berger, James M.

    2016-01-01

    Mycobacterium tuberculosis (Mtb) infects one-third of the world’s population and in 2013 accounted for 1.5 million deaths. Fluoroquinolone antibacterials, which target DNA gyrase, are critical agents used to halt the progression from multidrug-resistant tuberculosis to extensively resistant disease; however, fluoroquinolone resistance is emerging and new ways to bypass resistance are required. To better explain known differences in fluoroquinolone action, the crystal structures of the WT Mtb DNA gyrase cleavage core and a fluoroquinolone-sensitized mutant were determined in complex with DNA and five fluoroquinolones. The structures, ranging from 2.4- to 2.6-Å resolution, show that the intrinsically low susceptibility of Mtb to fluoroquinolones correlates with a reduction in contacts to the water shell of an associated magnesium ion, which bridges fluoroquinolone–gyrase interactions. Surprisingly, the structural data revealed few differences in fluoroquinolone–enzyme contacts from drugs that have very different activities against Mtb. By contrast, a stability assay using purified components showed a clear relationship between ternary complex reversibility and inhibitory activities reported with cultured cells. Collectively, our data indicate that the stability of fluoroquinolone/DNA interactions is a major determinant of fluoroquinolone activity and that moieties that have been appended to the C7 position of different quinolone scaffolds do not take advantage of specific contacts that might be made with the enzyme. These concepts point to new approaches for developing quinolone-class compounds that have increased potency against Mtb and the ability to overcome resistance. PMID:26792525

  10. Crystal structure and stability of gyrase-fluoroquinolone cleaved complexes from Mycobacterium tuberculosis.

    Science.gov (United States)

    Blower, Tim R; Williamson, Benjamin H; Kerns, Robert J; Berger, James M

    2016-02-16

    Mycobacterium tuberculosis (Mtb) infects one-third of the world's population and in 2013 accounted for 1.5 million deaths. Fluoroquinolone antibacterials, which target DNA gyrase, are critical agents used to halt the progression from multidrug-resistant tuberculosis to extensively resistant disease; however, fluoroquinolone resistance is emerging and new ways to bypass resistance are required. To better explain known differences in fluoroquinolone action, the crystal structures of the WT Mtb DNA gyrase cleavage core and a fluoroquinolone-sensitized mutant were determined in complex with DNA and five fluoroquinolones. The structures, ranging from 2.4- to 2.6-Å resolution, show that the intrinsically low susceptibility of Mtb to fluoroquinolones correlates with a reduction in contacts to the water shell of an associated magnesium ion, which bridges fluoroquinolone-gyrase interactions. Surprisingly, the structural data revealed few differences in fluoroquinolone-enzyme contacts from drugs that have very different activities against Mtb. By contrast, a stability assay using purified components showed a clear relationship between ternary complex reversibility and inhibitory activities reported with cultured cells. Collectively, our data indicate that the stability of fluoroquinolone/DNA interactions is a major determinant of fluoroquinolone activity and that moieties that have been appended to the C7 position of different quinolone scaffolds do not take advantage of specific contacts that might be made with the enzyme. These concepts point to new approaches for developing quinolone-class compounds that have increased potency against Mtb and the ability to overcome resistance.

  11. Crystal Structure of HIV-1 Primary Receptor CD4 i Complex with a Potent Antiviral Antibody

    Energy Technology Data Exchange (ETDEWEB)

    Freeman, M.M.; Hong, X.; Seaman, M.S.; Rits-Vollock, S.p Kao, C.Y.; Ho, D.D.; Chen, B.

    2010-06-18

    Ibalizumab is a humanized, anti-CD4 monoclonal antibody. It potently blocks HIV-1 infection and targets an epitope in the second domain of CD4 without interfering with immune functions mediated by interaction of CD4 with major histocompatibility complex (MHC) class II molecules. We report here the crystal structure of ibalizumab Fab fragment in complex with the first two domains (D1-D2) of CD4 at 2.2 {angstrom} resolution. Ibalizumab grips CD4 primarily by the BC-loop (residues 121125) of D2, sitting on the opposite side of gp120 and MHC-II binding sites. No major conformational change in CD4 accompanies binding to ibalizumab. Both monovalent and bivalent forms of ibalizumab effectively block viral infection, suggesting that it does not need to crosslink CD4 to exert antiviral activity. While gp120-induced structural rearrangements in CD4 are probably minimal, CD4 structural rigidity is dispensable for ibalizumab inhibition. These results could guide CD4-based immunogen design and lead to a better understanding of HIV-1 entry.

  12. Crystal structure of HIV-1 primary receptor CD4 in complex with a potent antiviral antibody.

    Science.gov (United States)

    Freeman, Michael M; Seaman, Michael S; Rits-Volloch, Sophia; Hong, Xinguo; Kao, Chia-Ying; Ho, David D; Chen, Bing

    2010-12-08

    Ibalizumab is a humanized, anti-CD4 monoclonal antibody. It potently blocks HIV-1 infection and targets an epitope in the second domain of CD4 without interfering with immune functions mediated by interaction of CD4 with major histocompatibility complex (MHC) class II molecules. We report here the crystal structure of ibalizumab Fab fragment in complex with the first two domains (D1-D2) of CD4 at 2.2 Å resolution. Ibalizumab grips CD4 primarily by the BC-loop (residues 121-125) of D2, sitting on the opposite side of gp120 and MHC-II binding sites. No major conformational change in CD4 accompanies binding to ibalizumab. Both monovalent and bivalent forms of ibalizumab effectively block viral infection, suggesting that it does not need to crosslink CD4 to exert antiviral activity. While gp120-induced structural rearrangements in CD4 are probably minimal, CD4 structural rigidity is dispensable for ibalizumab inhibition. These results could guide CD4-based immunogen design and lead to a better understanding of HIV-1 entry.

  13. Crystal structure of the PIM2 kinase in complex with an organoruthenium inhibitor.

    Directory of Open Access Journals (Sweden)

    Alex N Bullock

    Full Text Available BACKGROUND: The serine/threonine kinase PIM2 is highly expressed in human leukemia and lymphomas and has been shown to positively regulate survival and proliferation of tumor cells. Its diverse ATP site makes PIM2 a promising target for the development of anticancer agents. To date our knowledge of catalytic domain structures of the PIM kinase family is limited to PIM1 which has been extensively studied and which shares about 50% sequence identity with PIM2. PRINCIPAL FINDINGS: Here we determined the crystal structure of PIM2 in complex with an organoruthenium complex (inhibition in sub-nanomolar level. Due to its extraordinary shape complementarity this stable organometallic compound is a highly potent inhibitor of PIM kinases. SIGNIFICANCE: The structure of PIM2 revealed several differences to PIM1 which may be explored further to generate isoform selective inhibitors. It has also demonstrated how an organometallic inhibitor can be adapted to the binding site of protein kinases to generate highly potent inhibitors. ENHANCED VERSION: This article can also be viewed as an enhanced version in which the text of the article is integrated with interactive 3D representations and animated transitions. Please note that a web plugin is required to access this enhanced functionality. Instructions for the installation and use of the web plugin are available in Text S1.

  14. Crystal structures of Pseudomonas syringae pv. tomato DC3000 quinone oxidoreductase and its complex with NADPH

    Energy Technology Data Exchange (ETDEWEB)

    Pan, Xiaowei [National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, 15 Datun Road, Chaoyang District, Beijing 100101 (China); Graduate University of the Chinese Academy of Sciences, Beijing 100049 (China); Zhang, Hongmei; Gao, Yu; Li, Mei [National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, 15 Datun Road, Chaoyang District, Beijing 100101 (China); Chang, Wenrui, E-mail: wrchang@sun5.ibp.ac.cn [National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, 15 Datun Road, Chaoyang District, Beijing 100101 (China)

    2009-12-18

    Zeta-crystallin-like quinone oxidoreductase is NAD(P)H-dependent and catalyzes one-electron reduction of certain quinones to generate semiquinone. Here we present the crystal structures of zeta-crystallin-like quinone oxidoreductase from Pseudomonas syringae pv. tomato DC3000 (PtoQOR) and its complexes with NADPH determined at 2.4 and 2.01 A resolutions, respectively. PtoQOR forms as a homologous dimer, each monomer containing two domains. In the structure of the PtoQOR-NADPH complex, NADPH locates in the groove between the two domains. NADPH binding causes obvious conformational changes in the structure of PtoQOR. The putative substrate-binding site of PtoQOR is wider than that of Escherichia coli and Thermus thermophilus HB8. Activity assays show that PtoQOR has weak 1,4-benzoquinone catalytic activity, and very strong reduction activity towards large substrates such as 9,10-phenanthrenequinone. We propose a model to explain the conformational changes which take place during reduction reactions catalyzed by PtoQOR.

  15. Crystal Structure and Characterization of Pd(Ⅱ) Bis(diisopropyldithiocarbamate) Complex

    Institute of Scientific and Technical Information of China (English)

    XU, Liang-Zhong; ZHAO, Pu-Su; ZHANG, Shu-Sheng

    2001-01-01

    The crystal and molecular structure of [Pd(iPr2 dtc)2] (dtc=dithiocarbamate) have been determined by X-ray crystallography. The unit cell of the crystal structure consists of two discrete monomeric molecules of [Pd(iPr2dtc)2]. The Pd(Ⅱ)ion has an square-planar. The electronic and IR spectral data are in agreement with the X-ray structure. The TG data indicate slight degradation of a few percent.

  16. Crystal structure of Mdm12 and combinatorial reconstitution of Mdm12/Mmm1 ERMES complexes for structural studies

    Energy Technology Data Exchange (ETDEWEB)

    AhYoung, Andrew P.; Lu, Brian; Cascio, Duilio; Egea, Pascal F.

    2017-06-01

    Membrane contact sites between organelles serve as molecular hubs for the exchange of metabolites and signals. In yeast, the Endoplasmic Reticulum – Mitochondrion Encounter Structure (ERMES) tethers these two organelles likely to facilitate the non-vesicular exchange of essential phospholipids. Present in Fungi and Amoebas but not in Metazoans, ERMES is composed of five distinct subunits; among those, Mdm12, Mmm1 and Mdm34 each contain an SMP domain functioning as a lipid transfer module. We previously showed that the SMP domains of Mdm12 and Mmm1 form a hetero-tetramer. Here we describe our strategy to diversify the number of Mdm12/Mmm1 complexes suited for structural studies. We use sequence analysis of orthologues combined to protein engineering of disordered regions to guide the design of protein constructs and expand the repertoire of Mdm12/Mmm1 complexes more likely to crystallize. Using this combinatorial approach we report crystals of Mdm12/Mmm1 ERMES complexes currently diffracting to 4.5 Å resolution and a new structure of Mdm12 solved at 4.1 Å resolution. Our structure reveals a monomeric form of Mdm12 with a conformationally dynamic N-terminal β-strand; it differs from a previously reported homodimeric structure where the N-terminal β strands where swapped to promote dimerization. Based on our electron microscopy data, we propose a refined pseudo-atomic model of the Mdm12/Mmm1 complex that agrees with our crystallographic and small-angle X-ray scattering (SAXS) solution data.

  17. Crystal structure of a shark single-domain antibody V region in complex with lysozyme.

    Science.gov (United States)

    Stanfield, Robyn L; Dooley, Helen; Flajnik, Martin F; Wilson, Ian A

    2004-09-17

    Cartilaginous fish are the phylogenetically oldest living organisms known to possess components of the vertebrate adaptive immune system. Key to their immune response are heavy-chain, homodimeric immunoglobulins called new antigen receptors (IgNARs), in which the variable (V) domains recognize antigens with only a single immunoglobulin domain, akin to camelid heavy-chain V domains. The 1.45 angstrom resolution crystal structure of the type I IgNAR V domain in complex with hen egg-white lysozyme (HEL) reveals a minimal antigen-binding domain that contains only two of the three conventional complementarity-determining regions but still binds HEL with nanomolar affinity by means of a binding interface comparable in size to conventional antibodies.

  18. Synthesis and Crystal Structure of Novel Cyclic Tetranuclear Manganese(Ⅱ)Complex With Ferromagnetic Coupling

    Institute of Scientific and Technical Information of China (English)

    姜宗慧; 马书林; 廖代正; 阎世平; 王耕霖; 姚心侃; 王如骥

    1994-01-01

    Three novel 16-member macrocyclic complexes containing 4 manganese atoms on ring and 2phthalate as bridging ligand have been synthesized.The composition of the complexes has been determinedby elemental analyses and characterized by IR and magnetic balance.The crystal structure of the complex[Mn4(μ-phth)2(bpy)8](ClO4)·3H2O has been determined.Crystal data:space group P (?),with a=14.276(6),b=14.369(9),c=15.540(1) (?),α=70.22(5),β=61.73(6),γ=66.38(5)°,Z=1.The vari-able-temperature magnetic susceptibility (4-300 K) of [Mn4 (μ-phth)2(bpy)8] (ClO4)4·3H2O and [Mn4(μ-phth)2(phen)8](ClO4))4·2H2O has been determined and the susceptibility data are least squares fit tothe susceptibility equation derived from the spin Hamihonian (?)=-2J((?)1·(?)2+(?)2·(?)3+(?)3·(?)4+(?)1·(?)4).The exchange intergral,J,has been found equal to 0.53 cm-1(bpy) and 0.23 cm-1(phen).This indi-cates a weak ferromagnetic spin exchange interaction among the metal ions.

  19. Synthesis, characterization, and crystal structure of mercury(II) complex containing new phosphine oxide salt

    Science.gov (United States)

    Samiee, Sepideh; Kooti, Nadieh; Gable, Robert W.

    2017-02-01

    The reaction of new phosphonium-phosphine oxide salt [P(O)Ph2(CH2)2PPh2CH2C(O)C6H4NO2]Br (1) with mercury(II) iodide in a methanolic solution yielded [P(O)Ph2(CH2)2PPh2CH2C(O)C6H4NO2]2[Hg2I5Br](2). These two compounds were fully characterized by elemental analysis, IR, 1H, 31P, and 13C NMR spectra. Crystal and molecular structure of 2 has been determined by means of X-ray diffraction. In mercury compound, the phosphine oxide salt is found as a counter ion letting the mercury(II) ion to bound halides to all four coordination sites and to give dimermercurate(II) ions as the structure-constructing species. The neighboring [P(O)Ph2(CH2)2PPh2CH2C(O)C6H4NO2]2+cations are joined together by intramolecular Csbnd H⋯O hydrogen bonds to give a 1-D chain structure along the crystallographic b-axis. The [Hg2I5Br]2-anions act as cross-linkers between neighbouring strands extending the supramolecular structure into 2D layers in (110) planes as well as balances the charge of the complex. The significant effects of Csbnd H⋯X (Xdbnd O, Br and I) and π⋯π aromatic interactions play a major role in the crystal packing of compound 2.

  20. Star hexacarboxylate: synthesis, crystal structure and luminescent properties of its terbium complex

    Institute of Scientific and Technical Information of China (English)

    杨迟; 黄永德; 陈小明; 崔英德; 杨燕生

    2003-01-01

    A new star host, hexakis(carboxylphenyl-2-thiolmethyl)benzene(1H6), has been synthesized by a simple one-step condensation procedure with the high yield. Crystal structure of the DMSO adduct 1H6·6DMSO(2) reveals it to be rhombohedral crystal system, space group R-3, with a = b = 2.4129(2), c = 1.1576(3) nm, α=β= 90°, γ= 120°, V = 5.837(2) nm3,Z = 3. The six arms of side benzoic acid rings and the H-bonded DMSO molecules are located alternatively above and below the central benzene plane with "1,3,5-up/2,4,6-down" conformation. Terbium complex(Tb21)2Py·9H2O(3) was prepared in hot pyridine, which shows bright characterized Tb(III) emission with a longer lifetime and higher luminescent intensity than that of the corresponding terbium benzoate in solid state. These observations suggest that host 1 is a good antenna for sensitizing TbIII emission.

  1. Crystal structures of two ytterbium(III) complexes comprising alkynylamidinate ligands.

    Science.gov (United States)

    Wang, Sida; Sroor, Farid M; Liebing, Phil; Lorenz, Volker; Hilfert, Liane; Edelmann, Frank T

    2016-09-01

    Two ytterbium(III) complexes comprising alkynylamidinate ligands, namely bis-(η(5)-cyclo-penta-dien-yl)(3-cyclo-propyl-N,N'-diiso-propyl-propynamidinato-κ(2)N,N')ytterbium(III), [Yb(C5H5)2(C12H19N2)] or Cp2Yb[( (i) Pr2N)2C-C≡C-c-C3H5] (1) and tris-(3-phenyl-N,N'-di-cyclo-hexyl-propynamidinato-κ(2)N,N')ytterbium(III), [Yb(C21H27N2)3] or Yb[(CyN)2C-C≡C-Ph]3 (Cy = cyclo-hex-yl) (2) have been synthesized and structurally characterized. Both complexes are monomers; for complex 2, the contribution to the scattering from highly disordered toluene solvent molecules in these voids was removed with the SQUEEZE routine [Spek (2015). Acta Cryst. C71, 9-18] in PLATON. The stated crystal data for Mr, μ etc. do not take these into account.

  2. Synthesis and Crystal Structure of a New Copper(Ⅱ) Complex with 4-Cyanobenzoic Acid

    Institute of Scientific and Technical Information of China (English)

    2005-01-01

    A new Cu(Ⅱ) complex [Cu(4-cba)(l,10-phen)(H2O)2](NO3) (4-Hcba = 4-cyanobenzoic acid) has been synthesized by solvothermal reaction in an ethanol/water mixed solution at 100℃ and structurally characterized by single-crystal X-ray diffraction. Crystallographic data: C20H16CuN4O7, Mr= 487.91, triclinic, space group P1, a = 7.8420(2), b = 9.1070(2), c = 15.1140(6) A,α=76.889(9), β = 81.332( 11 ), γ = 74.844(11 )°, V = 1009.89(5) A3, Z = 2, Dc = 1.605 g/cm3, F(000)=498,μ=1.134 mm-1,the final R = 0.0379 and wR = 0.0865 for 2977 observed reflections with I > 2σ(Ⅰ).The Cu(Ⅱ) atom is coordinated by two terminal water molecules, one chelating 1,10-phen molecule and one monodentate 4-cba ligand to form a slightly distorted square pyramid. The title complex molecules are connected through hydrogen bonds and π-π stacking interactions to generate a 2D layered network. The thermogravimetric analysis of the title complex has also been discussed.

  3. Crystallization and preliminary X-ray structural studies of a Melan-A pMHC–TCR complex

    Energy Technology Data Exchange (ETDEWEB)

    Yuan, Fang [Nuffield Department of Clinical Medicine, John Radcliffe Hospital, Oxford University, Oxford OX3 9DU (United Kingdom); Georgiou, Theonie; Hillon, Theresa [STFC Daresbury Laboratory, Warrington, Cheshire WA4 4AD (United Kingdom); Gostick, Emma; Price, David A. [Nuffield Department of Clinical Medicine, John Radcliffe Hospital, Oxford University, Oxford OX3 9DU (United Kingdom); Sewell, Andrew K. [Medical Biochemistry and Immunology, Cardiff University School of Medicine, Cardiff CF14 4XN,Wales (United Kingdom); Moysey, Ruth; Gavarret, Jessie; Vuidepot, Annelise; Sami, Malkit [Medigene, 57c Milton Park, Abingdon, Oxdfordshire OX14 4RX (United Kingdom); Bell, John I. [Nuffield Department of Clinical Medicine, John Radcliffe Hospital, Oxford University, Oxford OX3 9DU (United Kingdom); Gao, George F. [Center for Molecular Immunology, Institute of Microbiology, Chinese Academy of Sciences, 13 Beiyitiao, Zhongguancun, Beijing 100080 (China); Rizkallah, Pierre J., E-mail: p.j.rizkallah@dl.ac.uk [STFC Daresbury Laboratory, Warrington, Cheshire WA4 4AD (United Kingdom); Jakobsen, Bent K., E-mail: p.j.rizkallah@dl.ac.uk [Medigene, 57c Milton Park, Abingdon, Oxdfordshire OX14 4RX (United Kingdom); Nuffield Department of Clinical Medicine, John Radcliffe Hospital, Oxford University, Oxford OX3 9DU (United Kingdom)

    2007-09-01

    A preliminary X-ray crystal structural study of a soluble cognate T-cell receptor (TCR) in complex with a pMHC presenting the Melan-A peptide (ELAGIGILTV) is reported. The TCR and pMHC were refolded, purified and mixed together to form complexes, which were crystallized using the sitting-drop vapour-diffusion method. Single TCR–pMHC complex crystals were cryocooled and used for data collection. Melanocytes are specialized pigmented cells that are found in all healthy skin tissue. In certain individuals, diseased melanocytes can form malignant tumours, melanomas, which cause the majority of skin-cancer-related deaths. The melanoma-associated antigenic peptides are presented on cell surfaces via the class I major histocompatibility complex (MHC). Among the melanoma-associated antigens, the melanoma self-antigen A/melanoma antigen recognized by T cells (Melan-A/MART-1) has attracted attention because of its wide expression in primary and metastatic melanomas. Here, a preliminary X-ray crystal structural study of a soluble cognate T-cell receptor (TCR) in complex with a pMHC presenting the Melan-A peptide (ELAGIGILTV) is reported. The TCR and pMHC were refolded, purified and mixed together to form complexes, which were crystallized using the sitting-drop vapour-diffusion method. Single TCR–pMHC complex crystals were cryocooled and used for data collection. Diffraction data showed that these crystals belonged to space group P4{sub 1}/P4{sub 3}, with unit-cell parameters a = b = 120.4, c = 81.6 Å. A complete data set was collected to 3.1 Å and the structure is currently being analysed.

  4. Synthesis and Crystal Structure of a Lanthanum(III) Complex with Chelidamic Acid

    Institute of Scientific and Technical Information of China (English)

    ZOU Jian-Ping; ZHOU Guo-Wei; GUO Guo-Cong; YAN Liu-Shui; ZENG Gui-Sheng; HUANG Jin-Shun

    2008-01-01

    A new lanthanum complex, (H3O)2[La(C7H3NO5)2(H2O)2]2·3(H2O) or (H3O)2[La(HChel)2(H2O)2]2·3(H2O) 1 (H3Chel = 4-hydroxypyridine-2,6-dicarboxylic(chelidamic) acid), has been prepared by the hydrothermal reaction, and its crystal structure was determined based on single-crystal diffraction data. Compound 1 crystallizes in triclinic, space group P with a = 9.6939(19), b = 10.176(2), c = 11.502(2) (A), α = 111.52(3), β = 93.74(3), γ = 103.33(3)°, V = 1013.0(3) (A)3, Dc = 1.912 g/cm3, Z = 1, Mr = 1166.40, μ = 2.188 mm-1, λ(MoKα) = 0.71073 (A) and F(000) = 574. The final R = 0.0342 and wR = 0.0737 for 4080 observed reflections with I > 2σ(I), and R = 0.0429 and wR = 0.0772 for all data. Compound 1 contains two lanthanum ions, four chelidamic acid ligands, four coordinated water molecules, two hydroniums, and three discrete water molecules. The LaIII atom is ten-coordinated by four oxygen and two nitrogen atoms from two tridentate chelating chelidamic acid ligands, two carboxylic oxygen atoms from an adjacent chelidamic acid ligand and two coordinated water molecules, leading to a distorted dodecahedral geometry. A three-dimensional network is formed by H-bonds.

  5. Crystal structure of TAZ-TEAD complex reveals a distinct interaction mode from that of YAP-TEAD complex.

    Science.gov (United States)

    Kaan, Hung Yi Kristal; Chan, Siew Wee; Tan, Siew Kim Joyce; Guo, Fusheng; Lim, Chun Jye; Hong, Wanjin; Song, Haiwei

    2017-05-17

    The Hippo pathway is a tumor suppressor pathway that is implicated in the regulation of organ size. The pathway has three components: the upstream regulatory factors, the kinase core, and the downstream transcriptional machinery, which consists of YAP, TAZ (transcription co-activators) and TEAD (transcription factor). Formation of YAP/TAZ-TEAD complexes leads to the transcription of growth-promoting genes. Herein, we report the crystal structure of TAZ-TEAD4 complex, which reveals two binding modes. The first is similar to the published YAP-TEAD structure. The second is a unique binding mode, whereby two molecules of TAZ bind to and bridge two molecules of TEAD4. We validated the latter using cross-linking and multi-angle light scattering. Using siRNA, we showed that TAZ knockdown leads to a decrease in TEAD4 dimerization. Lastly, results from luciferase assays, using YAP/TAZ transfected or knockdown cells, give support to the non-redundancy of YAP/TAZ co-activators in regulating gene expression in the Hippo pathway.

  6. Synthesis, spectral, crystal structure, thermal behavior, antimicrobial and DNA cleavage potential of two octahedral cadmium complexes: a supramolecular structure.

    Science.gov (United States)

    Montazerozohori, M; Musavi, S A; Masoudiasl, A; Naghiha, A; Dusek, M; Kucerakova, M

    2015-02-25

    Two new cadmium(II) complexes with the formula of CdL2(NCS)2 and CdL2(N3)2 (in which L is 2,2-dimethyl-N,N'-bis-(3-phenyl-allylidene)-propane-1,3-diamine) have been synthesized and characterized by elemental analysis, molar conductivity measurements, FT/IR, UV-Visible, (1)H and (13)C NMR spectra and X-ray studies. The crystal structure analysis of CdL2(NCS)2 indicated that it crystallizes in orthorhombic system with space group of Pbca. Two Schiff base ligands are bonded to cadmium(II) ion as N2-donor chelate. Coordination geometry around the cadmium ion was found to be partially distorted octahedron. The Cd-Nimine bond distances are found in the range of 2.363(2)-2.427(2)Å while the Cd-Nisothiocyanate bond distances are 2.287(2)Å and 2.310(2)Å. The existence of C-H⋯π and C-H⋯S interactions in the CdL2(NCS)2 crystal leads to a supramolecular structure in its network. Then cadmium complexes were screened in vitro for their antibacterial and antifungal activities against two Gram-negative and two Gram-positive bacteria and also against Candida albicans as a fungus. Moreover, the compounds were subjected for DNA-cleavage potential by gel electrophoresis method. Finally thermo-gravimetric analysis of the complexes was applied for thermal behavior studies and then some thermo-kinetics activation parameters were evaluated.

  7. Synthesis, spectral, crystal structure, thermal behavior, antimicrobial and DNA cleavage potential of two octahedral cadmium complexes: A supramolecular structure

    Science.gov (United States)

    Montazerozohori, M.; Musavi, S. A.; Masoudiasl, A.; Naghiha, A.; Dusek, M.; Kucerakova, M.

    2015-02-01

    Two new cadmium(II) complexes with the formula of CdL2(NCS)2 and CdL2(N3)2 (in which L is 2,2-dimethyl-N,N‧-bis-(3-phenyl-allylidene)-propane-1,3-diamine) have been synthesized and characterized by elemental analysis, molar conductivity measurements, FT/IR, UV-Visible, 1H and 13C NMR spectra and X-ray studies. The crystal structure analysis of CdL2(NCS)2 indicated that it crystallizes in orthorhombic system with space group of Pbca. Two Schiff base ligands are bonded to cadmium(II) ion as N2-donor chelate. Coordination geometry around the cadmium ion was found to be partially distorted octahedron. The Cd-Nimine bond distances are found in the range of 2.363(2)-2.427(2) Å while the Cd-Nisothiocyanate bond distances are 2.287(2) Å and 2.310(2) Å. The existence of C-H⋯π and C-H⋯S interactions in the CdL2(NCS)2 crystal leads to a supramolecular structure in its network. Then cadmium complexes were screened in vitro for their antibacterial and antifungal activities against two Gram-negative and two Gram-positive bacteria and also against Candida albicans as a fungus. Moreover, the compounds were subjected for DNA-cleavage potential by gel electrophoresis method. Finally thermo-gravimetric analysis of the complexes was applied for thermal behavior studies and then some thermo-kinetics activation parameters were evaluated.

  8. High-resolution crystal structure of HA33 of botulinum neurotoxin type B progenitor toxin complex

    Science.gov (United States)

    Lee, Kwangkook; Lam, Kwok-Ho; Kruel, Anna Magdalena; Perry, Kay; Rummel, Andreas; Jin, Rongsheng

    2014-01-01

    Botulinum neurotoxins (BoNTs) are produced as progenitor toxin complexes (PTCs) by Clostridium botulinum. The PTCs are composed of BoNT and non-toxic neurotoxin-associated proteins (NAPs), which serve to protect and deliver BoNT through the gastrointestinal tract in food borne botulism. HA33 is a key NAP component that specifically recognizes host carbohydrates and helps enrich PTC on the intestinal lumen preceding its transport across the epithelial barriers. Here, we report the crystal structure of HA33 of type B PTC (HA33/B) in complex with lactose at 1.46 Å resolution. The structural comparisons among HA33 of serotypes A–D reveal two different HA33–glycan interaction modes. The glycan-binding pockets on HA33/A and B are more suitable to recognize galactose-containing glycans in comparison to the equivalent sites on HA33/C and D. On the contrary, HA33/C and D could potentially recognize Neu5Ac as an independent receptor, whereas HA33/A and B do not. These findings indicate that the different oral toxicity and host susceptibility observed among different BoNT serotypes could be partly determined by the serotype-specific interaction between HA33 and host carbohydrate receptors. Furthermore, we have identified a key structural water molecule that mediates the HA33/B–lactose interactions. It provides the structural basis for development of new receptor-mimicking compounds, which have enhanced binding affinity with HA33 through their water-displacing moiety. PMID:24631690

  9. Crystal structure of CD155 and electron microscopic studies of its complexes with polioviruses.

    Science.gov (United States)

    Zhang, Ping; Mueller, Steffen; Morais, Marc C; Bator, Carol M; Bowman, Valorie D; Hafenstein, Susan; Wimmer, Eckard; Rossmann, Michael G

    2008-11-25

    When poliovirus (PV) recognizes its receptor, CD155, the virus changes from a 160S to a 135S particle before releasing its genome into the cytoplasm. CD155 is a transmembrane protein with 3 Ig-like extracellular domains, D1-D3, where D1 is recognized by the virus. The crystal structure of D1D2 has been determined to 3.5-A resolution and fitted into approximately 8.5-A resolution cryoelectron microscopy reconstructions of the virus-receptor complexes for the 3 PV serotypes. These structures show that, compared with human rhinoviruses, the virus-receptor interactions for PVs have a greater dependence on hydrophobic interactions, as might be required for a virus that can inhabit environments of different pH. The pocket factor was shown to remain in the virus during the first recognition stage. The present structures, when combined with earlier mutational investigations, show that in the subsequent entry stage the receptor moves further into the canyon when at a physiological temperature, thereby expelling the pocket factor and separating the viral subunits to form 135S particles. These results provide a detailed analysis of how a nonenveloped virus can enter its host cell.

  10. Crystal structure of CD155 and electron microscopic studies of its complexes with polioviruses

    Energy Technology Data Exchange (ETDEWEB)

    Zhang, Ping; Mueller, Steffen; Morais, Marc C.; Bator, Carol M.; Bowman, Valorie D.; Hafenstein, Susan; Wimmer, Eckard; Rossmann, Michael G. (SBU); (Purdue)

    2010-11-02

    When poliovirus (PV) recognizes its receptor, CD155, the virus changes from a 160S to a 135S particle before releasing its genome into the cytoplasm. CD155 is a transmembrane protein with 3 Ig-like extracellular domains, D1-D3, where D1 is recognized by the virus. The crystal structure of D1D2 has been determined to 3.5-{angstrom} resolution and fitted into {approx}8.5-{angstrom} resolution cryoelectron microscopy reconstructions of the virus-receptor complexes for the 3 PV serotypes. These structures show that, compared with human rhinoviruses, the virus-receptor interactions for PVs have a greater dependence on hydrophobic interactions, as might be required for a virus that can inhabit environments of different pH. The pocket factor was shown to remain in the virus during the first recognition stage. The present structures, when combined with earlier mutational investigations, show that in the subsequent entry stage the receptor moves further into the canyon when at a physiological temperature, thereby expelling the pocket factor and separating the viral subunits to form 135S particles. These results provide a detailed analysis of how a nonenveloped virus can enter its host cell.

  11. Crystal structure of an EAL domain in complex with reaction product 5'-pGpG.

    Directory of Open Access Journals (Sweden)

    Julien Robert-Paganin

    Full Text Available FimX is a large multidomain protein containing an EAL domain and involved in twitching motility in Pseudomonas aeruginosa. We present here two crystallographic structures of the EAL domain of FimX (residues 438-686: one of the apo form and the other of a complex with 5'-pGpG, the reaction product of the hydrolysis of c-di-GMP. In both crystal forms, the EAL domains form a dimer delimiting a large cavity encompassing the catalytic pockets. The ligand is trapped in this cavity by its sugar phosphate moiety. We confirmed by NMR that the guanine bases are not involved in the interaction in solution. We solved here the first structure of an EAL domain bound to the reaction product 5'-pGpG. Though isolated FimX EAL domain has a very low catalytic activity, which would not be significant compared to other catalytic EAL domains, the structure with the product of the reaction can provides some hints in the mechanism of hydrolysis of the c-di-GMP by EAL domains.

  12. Crystal Structures of the Nitrite and Nitric Oxide Complexes of Horse Heart Myoglobin

    Energy Technology Data Exchange (ETDEWEB)

    Copeland,D.; Soares, A.; West, A.; Richter-Addo, G.

    2006-01-01

    Nitrite is an important species in the global nitrogen cycle, and the nitrite reductase enzymes convert nitrite to nitric oxide (NO). Recently, it has been shown that hemoglobin and myoglobin catalyze the reduction of nitrite to NO under hypoxic conditions. We have determined the 1.20 Angstroms resolution crystal structure of the nitrite adduct of ferric horse heart myoglobin (hh Mb). The ligand is bound to iron in the nitrito form, and the complex is formulated as Mb{sup III}(ONO{sup -}). The Fe-ONO bond length is 1.94 Angstroms, and the O-N-O angle is 113 degrees. In addition, the nitrite ligand is stabilized by hydrogen bonding with the distal His64 residue. We have also determined the 1.30 Angstroms resolution crystal structures of hh Mb{sup II}NO. When hh Mb{sup II}NO is prepared from the reaction of metMb{sup III} with nitrite/dithionite, the FeNO angle is 144 degrees with a Fe-NO bond length of 1.87 Angstroms. However, when prepared from the reaction of NO with reduced Mb{sup II}, the FeNO angle is 120 degrees with a Fe-NO bond length of 2.13 Angstroms. This difference in FeNO conformations as a function of preparative method is reproducible, and suggests a role of the distal pocket in hh Mb{sup II}NO in stabilizing local FeNO conformational minima.

  13. Template Syntheses and Crystal Structures of Hexaaza Macrocyclic Complexes with C-Methyl Substituents

    Institute of Scientific and Technical Information of China (English)

    2005-01-01

    Two new macrocyclic complexes with C-methyl substituents on the framework,namely, [CuL](ClO4)2 (L = 5,12-dimethyl- 1,8-dihydroxyethyl- 1,3,6,8,10,13-hexaazacyclotetradecane) 1 and [NiL](ClO4)2 2, have been synthesized and structurally characterized through X-ray diffraction analysis. Also, crystal structure of [CuL1](ClO4)2 (L1 = 1,8-dimethyl- 1,3,6,8,10,13- hexaazacyclotetradecane) 3 has been determined. Crystal data for 1: C14H32C12CuN6O10, Mr = 578.90,monoclinic, P21In, a = 8.3529(11), b = 10.8105(17), c = 13.3709(17) A, β = 105.189(10)°, V =1165.2(3) A3, Z = 2, Dc = 1.650 g/cm3, F(000) = 602, λ(MoKα) = 0.71073 A,μ = 1.229 mm-1, R =0.0474 and wR = 0.0895 for 2771 observed reflections (I > 2σ(I)). Crystal data for 2:C14H32C12N6NiO10, Mr = 574.07, monoclinic, P21/c, a = 8.3636(12), b = 12.997(2), c = 10.764(2) A,β = 99.31 (2)°, V = 1154.7(3) A3, Z = 2, Dc = 1.651 g/cm3, F(000) = 600, λ(MoKα) = 0.71073 A,μ =1.134 mm-1, R = 0.0380 and wR = 0.0796 for 2670 observed reflections (I > 2σ(Ⅰ)). Crystal data for 3. C10H26Cl2CuN6O8, Mr = 492.81, monoclinic, P21/n, a = 8.4860(17), b = 8.6320(17), c = 12.662(3)A, β = 103.40(3)°, V = 902.2(3) A3, Z = 2, Dc = 1.814 g/cm3, F(000) = 510, λ(MoKα) = 0.71073 A,μ = 1.562 mm - 1, R = 0.0505 and wR = 0. 1 061 for 1967 observed reflections (I > 2σ(Ⅰ)). Complexes 1 and 2 are isostructural with the metal ions situated at the inversion center. Hydrogen bonds between O atoms of pendant and perchlorate anion give rise to a two-dimensional supramolecular layer. The Cu(Ⅱ) ions of compounds 1 and 3 adopt distorted axially-elongated octahedral coordinate geometry, and the nickel(Ⅱ) ion in complex 2 is four-coordinated with a square-planar configuration.

  14. Synthesis, crystal structure and luminescence properties of "paddle wheel" and "butterfly" shaped polynuclear complexes

    Science.gov (United States)

    Bai, Fenghua; Ni, Yulan; Jiang, Yang; Feng, Xuenan; Wuren, Tuya; Zhang, Liping; Su, Haiquan

    2017-03-01

    A series of metal cluster-based complexes were constructed from the reaction of metal ions (FeIII, CuII, ZnII) and ligand (2-({2-[2-carbosybenzoy])oxy]-ethoxy}carbonyal)benzoic acid) (H2L) in CH3CH2OH, CH3OH, (C2H5)3N and C2H3N. Two paddle wheel trinuclear clusters [Fe3(μ3-O)(μ2-η2-L)3(CH3OH)3]NO3·C2H5OH·CH3OH (1) and [Fe3(μ3-O)(μ2-η2-L)3(H2O)3]NO3·5CH3OH·H2O (2), one tetranuclear cluster [Cu2(μ2-L)2(C2H3N)2·2C2H3N]2 (3) and one butterfly shaped dinuclear cluster [Zn2(μ2-L)2(C2H5OH)2]·2CH3OH (4) were obtained. Complexes 1, 2, and 4 are further assembled by intermolecular hydrogen bonds to form supramolecular frameworks. In complex 3, the flexible benzoic acid ligand chelates with two CuII, which induces a decrease of Cusbnd Cu intermetallic separation (rang from 2.644 to 2.657 Å). The structures of the complexes are characterized by elemental analyses, Infrared spectroscopy (IR spectroscopy), thermal gravimetry (TG) analyses, single crystal X-ray diffraction and powder X-ray diffraction techniques (PXRD), and high resolution mass spectra (HRMS). The luminescent properties of the clusters 1-4 are also studied, the results show that the cluster 4 exhibits blue fluorescence at room temperature.

  15. Crystal Structure of the CLOCK Transactivation Domain Exon19 in Complex with a Repressor

    Energy Technology Data Exchange (ETDEWEB)

    Hou, Zhiqiang; Su, Lijing; Pei, Jimin; Grishin, Nick V.; Zhang, Hong

    2017-08-01

    In the canonical clock model, CLOCK:BMAL1-mediated transcriptional activation is feedback regulated by its repressors CRY and PER and, in association with other coregulators, ultimately generates oscillatory gene expression patterns. How CLOCK:BMAL1 interacts with coregulator(s) is not well understood. Here we report the crystal structures of the mouse CLOCK transactivating domain Exon19 in complex with CIPC, a potent circadian repressor that functions independently of CRY and PER. The Exon19:CIPC complex adopts a three-helical coiled-coil bundle conformation containing two Exon19 helices and one CIPC. Unique to Exon19:CIPC, three highly conserved polar residues, Asn341 of CIPC and Gln544 of the two Exon19 helices, are located at the mid-section of the coiled-coil bundle interior and form hydrogen bonds with each other. Combining results from protein database search, sequence analysis, and mutagenesis studies, we discovered for the first time that CLOCK Exon19:CIPC interaction is a conserved transcription regulatory mechanism among mammals, fish, flies, and other invertebrates.

  16. Synthesis, Crystal Structure and Magnetic Properties of a New Zn(Ⅱ)-Nitronyl Nitroxide Complex

    Institute of Scientific and Technical Information of China (English)

    JIANG Kai; YANG Rui-Hua; WANG Li-Ya; WANG Yu-Fang

    2008-01-01

    A new complex [Zn(NIT-1'-MeBzIm)Cl2(H2O)] (NIT-1'-MeBzIm = 2-{2'-[(1'-methyl)benzimidazolyl]}-4,4,5,5-tetramethylimidazoline-l-oxyl-3-oxide) has been prepared and structurally characterized by X-ray diffraction method. Crystal data: monoclinic, space group P21/n, Z = 4, C15H21Cl2N4O3Zn, Mr = 441.63, a = 7.2225(10), b = 30.849(4), c = 8.8758(13) (A), β= 103.904(2)°, V = 1919.6(5) A3, Dc = 1.528 g/cm3, μ(MoKα) = 1.579 mm-1, F(000) = 908, R = 0.0436 and wR = 0.1029 for 2456 observed reflections with Ⅰ> 2σ(Ⅰ). X-ray analysis reveals that the Zn(Ⅱ) ion is four-coordinated with a distorted tetrahedron. There also exist H-bonds, π-π piling interactions and weak intermolecular contacts between the NO groups which form a mutual stagger 3-D network configuration. Magnetic investigation reveals that there exists intermolecular antiferro- and ferromagnetic interactions in the title complex.

  17. Crystal Structure of the Conserved Herpes Virus Fusion Regulator Complex gH–gL

    Energy Technology Data Exchange (ETDEWEB)

    Chowdary, T.; Cairns, T; Atanasiu, D; Cohen, G; Eisenberg, R; Heldwein, E

    2010-01-01

    Herpesviruses, which cause many incurable diseases, infect cells by fusing viral and cellular membranes. Whereas most other enveloped viruses use a single viral catalyst called a fusogen, herpesviruses, inexplicably, require two conserved fusion-machinery components, gB and the heterodimer gH-gL, plus other nonconserved components. gB is a class III viral fusogen, but unlike other members of its class, it does not function alone. We determined the crystal structure of the gH ectodomain bound to gL from herpes simplex virus 2. gH-gL is an unusually tight complex with a unique architecture that, unexpectedly, does not resemble any known viral fusogen. Instead, we propose that gH-gL activates gB for fusion, possibly through direct binding. Formation of a gB-gH-gL complex is critical for fusion and is inhibited by a neutralizing antibody, making the gB-gH-gL interface a promising antiviral target.

  18. Crystal structure of the conserved herpesvirus fusion regulator complex gH—gL

    Energy Technology Data Exchange (ETDEWEB)

    Chowdary, Tirumala K.; Cairns, Tina M.; Atanasiu, Doina; Cohen, Gary H.; Eisenberg, Roselyn J.; Heldwein, Ekaterina E. [UPENN; (Tufts-MED)

    2015-02-09

    Herpesviruses, which cause many incurable diseases, infect cells by fusing viral and cellular membranes. Whereas most other enveloped viruses use a single viral catalyst called a fusogen, herpesviruses, inexplicably, require two conserved fusion-machinery components, gB and the heterodimer gH–gL, plus other nonconserved components. gB is a class III viral fusogen, but unlike other members of its class, it does not function alone. We determined the crystal structure of the gH ectodomain bound to gL from herpes simplex virus 2. gH–gL is an unusually tight complex with a unique architecture that, unexpectedly, does not resemble any known viral fusogen. Instead, we propose that gH–gL activates gB for fusion, possibly through direct binding. Formation of a gB–gH–gL complex is critical for fusion and is inhibited by a neutralizing antibody, making the gB–gH–gL interface a promising antiviral target.

  19. Crystal structure of the conserved herpes virus fusion regulator complex gH-gL

    Energy Technology Data Exchange (ETDEWEB)

    Chowdary, Tirumala K; Cairns, Tina M; Atanasiu, Doina; Cohen, Gary H; Eisenberg, Roselyn J; Heldwein, Ekaterina E [UPENN; (Tufts-MED)

    2010-09-13

    Herpesviruses, which cause many incurable diseases, infect cells by fusing viral and cellular membranes. Whereas most other enveloped viruses use a single viral catalyst called a fusogen, herpesviruses, inexplicably, require two conserved fusion-machinery components, gB and the heterodimer gH-gL, plus other nonconserved components. gB is a class III viral fusogen, but unlike other members of its class, it does not function alone. We determined the crystal structure of the gH ectodomain bound to gL from herpes simplex virus 2. gH-gL is an unusually tight complex with a unique architecture that, unexpectedly, does not resemble any known viral fusogen. Instead, we propose that gH-gL activates gB for fusion, possibly through direct binding. Formation of a gB-gH-gL complex is critical for fusion and is inhibited by a neutralizing antibody, making the gB-gH-gL interface a promising antiviral target.

  20. A mononuclear zinc(II) complex with piroxicam: crystal structure, DNA- and BSA-binding studies; in vitro cell cytotoxicity and molecular modeling of oxicam complexes.

    Science.gov (United States)

    Jannesari, Zahra; Hadadzadeh, Hassan; Amirghofran, Zahra; Simpson, Jim; Khayamian, Taghi; Maleki, Batool

    2015-02-05

    A new mononuclear Zn(II) complex, trans-[Zn(Pir)2(DMSO)2], where Pir(-) is 4-hydroxy-2-methyl-N-2-pyridyl-2H-1,2-benzothiazine-3-carboxamide-1,1-dioxide (piroxicam), has been synthesized and characterized. The crystal structure of the complex was obtained by the single crystal X-ray diffraction technique. The interaction of the complex with DNA and BSA was investigated. The complex interacts with FS-DNA by two binding modes, viz., electrostatic and groove binding (major and minor). The microenvironment and the secondary structure of BSA are changed in the presence of the complex. The anticancer effects of the seven complexes of oxicam family were also determined on the human K562 cell lines and the results showed reasonable cytotoxicities. The interactions of the oxicam complexes with BSA and DNA were modeled by molecular docking and molecular dynamic simulation methods.

  1. A mononuclear zinc(II) complex with piroxicam: Crystal structure, DNA- and BSA-binding studies; in vitro cell cytotoxicity and molecular modeling of oxicam complexes

    Science.gov (United States)

    Jannesari, Zahra; Hadadzadeh, Hassan; Amirghofran, Zahra; Simpson, Jim; Khayamian, Taghi; Maleki, Batool

    2015-02-01

    A new mononuclear Zn(II) complex, trans-[Zn(Pir)2(DMSO)2], where Pir- is 4-hydroxy-2-methyl-N-2-pyridyl-2H-1,2-benzothiazine-3-carboxamide-1,1-dioxide (piroxicam), has been synthesized and characterized. The crystal structure of the complex was obtained by the single crystal X-ray diffraction technique. The interaction of the complex with DNA and BSA was investigated. The complex interacts with FS-DNA by two binding modes, viz., electrostatic and groove binding (major and minor). The microenvironment and the secondary structure of BSA are changed in the presence of the complex. The anticancer effects of the seven complexes of oxicam family were also determined on the human K562 cell lines and the results showed reasonable cytotoxicities. The interactions of the oxicam complexes with BSA and DNA were modeled by molecular docking and molecular dynamic simulation methods.

  2. Fast motif-network scheme for extensive exploration of complex crystal structures in silicate cathodes

    CERN Document Server

    Zhao, Xin; Lv, Xiaobao; Nguyen, Manh Cuong; Wang, Cai-Zhuang; Lin, Zijing; Zhu, Zi-Zhong; Ho, Kai-Ming

    2015-01-01

    A motif-network search scheme is proposed to study the crystal structures of the dilithium/disodium transition metal orthosilicates A2MSiO4. Using this fast and efficient method, the structures of all six combinations with A = Li or Na and M = Mn, Fe or Co were extensively explored. In addition to finding all previously reported structures, we discovered many other different crystal structures which are highly degenerate in energy. These tetrahedral-network-based structures can be classified into 1D, 2D and 3D types based on M-Si-O frames. A clear trend of the structural preference in different systems was revealed and possible indicators that affect the structure stabilities were introduced. For the case of Na systems which have been much less investigated in the literature relative to the Li systems, we predicted their ground state structures and found evidence for the existence of new structural motifs.

  3. Crystal Structure of the Human Symplekin-Ssu72-CTD Phosphopeptide Complex

    Energy Technology Data Exchange (ETDEWEB)

    K Xiang; T Nigaike; S Xiang; T Kilic; M Beh; J Manley; L Tong

    2011-12-31

    Symplekin (Pta1 in yeast) is a scaffold in the large protein complex that is required for 3'-end cleavage and polyadenylation of eukaryotic messenger RNA precursors (pre-mRNAs); it also participates in transcription initiation and termination by RNA polymerase II (Pol II). Symplekin mediates interactions between many different proteins in this machinery, although the molecular basis for its function is not known. Here we report the crystal structure at 2.4 {angstrom} resolution of the amino-terminal domain (residues 30-340) of human symplekin in a ternary complex with the Pol II carboxy-terminal domain (CTD) Ser5 phosphatase Ssu72 and a CTD Ser5 phosphopeptide. The N-terminal domain of symplekin has the ARM or HEAT fold, with seven pairs of antiparallel {alpha}-helices arranged in the shape of an arc. The structure of Ssu72 has some similarity to that of low-molecular-mass phosphotyrosine protein phosphatase, although Ssu72 has a unique active-site landscape as well as extra structural features at the C terminus that are important for interaction with symplekin. Ssu72 is bound to the concave face of symplekin, and engineered mutations in this interface can abolish interactions between the two proteins. The CTD peptide is bound in the active site of Ssu72, with the pSer5-Pro6 peptide bond in the cis configuration, which contrasts with all other known CTD peptide conformations. Although the active site of Ssu72 is about 25 {angstrom} from the interface with symplekin, we found that the symplekin N-terminal domain stimulates Ssu72 CTD phosphatase activity in vitro. Furthermore, the N-terminal domain of symplekin inhibits polyadenylation in vitro, but only when coupled to transcription. Because catalytically active Ssu72 overcomes this inhibition, our results show a role for mammalian Ssu72 in transcription-coupled pre-mRNA 3'-end processing.

  4. Crystal structure of Cpf1 in complex with guide RNA and target DNA

    Science.gov (United States)

    Yamano, Takashi; Nishimasu, Hiroshi; Zetsche, Bernd; Hirano, Hisato; Slaymaker, Ian M.; Li, Yinqing; Fedorova, Iana; Nakane, Takanori; Makarova, Kira S.; Koonin, Eugene V.; Ishitani, Ryuichiro; Zhang, Feng; Nureki, Osamu

    2016-01-01

    Cpf1 is an RNA-guided endonuclease of a type V CRISPR-Cas system that has been recently harnessed for genome editing. Here, we report the crystal structure of Acidaminococcus sp. Cpf1 (AsCpf1) in complex with the guide RNA and its target DNA, at 2.8 Å resolution. AsCpf1 adopts a bilobed architecture, with the RNA–DNA heteroduplex bound inside the central channel. The structural comparison of AsCpf1 with Cas9, a type II CRISPR-Cas nuclease, reveals both striking similarity and major differences, thereby explaining their distinct functionalities. AsCpf1 contains the RuvC domain and a putative novel nuclease domain, which are responsible for the cleavage of the non-target and target strands, respectively, and jointly generate staggered DNA double-strand breaks. AsCpf1 recognizes the 5′-TTTN-3′ protospacer adjacent motif by base and shape readout mechanisms. Our findings provide mechanistic insights into RNA-guided DNA cleavage by Cpf1, and establish a framework for rational engineering of the CRISPR-Cpf1 toolbox. PMID:27114038

  5. Crystal Structure of a Josephin-Ubiquitin Complex: Evolutionary Restraints on Ataxin-3 Deubiquitinating Activity

    Energy Technology Data Exchange (ETDEWEB)

    S Weeks; K Grasty; L Hernandez-Cuebas; P Loll

    2011-12-31

    The Josephin domain is a conserved cysteine protease domain found in four human deubiquitinating enzymes: ataxin-3, the ataxin-3-like protein (ATXN3L), Josephin-1, and Josephin-2. Josephin domains from these four proteins were purified and assayed for their ability to cleave ubiquitin substrates. Reaction rates differed markedly both among the different proteins and for different substrates with a given protein. The ATXN3L Josephin domain is a significantly more efficient enzyme than the ataxin-3 domain despite their sharing 85% sequence identity. To understand the structural basis of this difference, the 2.6 {angstrom} x-ray crystal structure of the ATXN3L Josephin domain in complex with ubiquitin was determined. Although ataxin-3 and ATXN3L adopt similar folds, they bind ubiquitin in different, overlapping sites. Mutations were made in ataxin-3 at selected positions, introducing the corresponding ATXN3L residue. Only three such mutations are sufficient to increase the catalytic activity of the ataxin-3 domain to levels comparable with that of ATXN3L, suggesting that ataxin-3 has been subject to evolutionary restraints that keep its deubiquitinating activity in check.

  6. Crystal structure and substrate specificity of D-galactose-6-phosphate isomerase complexed with substrates.

    Directory of Open Access Journals (Sweden)

    Woo-Suk Jung

    Full Text Available D-Galactose-6-phosphate isomerase from Lactobacillus rhamnosus (LacAB; EC 5.3.1.26, which is encoded by the tagatose-6-phosphate pathway gene cluster (lacABCD, catalyzes the isomerization of D-galactose-6-phosphate to D-tagatose-6-phosphate during lactose catabolism and is used to produce rare sugars as low-calorie natural sweeteners. The crystal structures of LacAB and its complex with D-tagatose-6-phosphate revealed that LacAB is a homotetramer of LacA and LacB subunits, with a structure similar to that of ribose-5-phosphate isomerase (Rpi. Structurally, LacAB belongs to the RpiB/LacAB superfamily, having a Rossmann-like αβα sandwich fold as has been identified in pentose phosphate isomerase and hexose phosphate isomerase. In contrast to other family members, the LacB subunit also has a unique α7 helix in its C-terminus. One active site is distinctly located at the interface between LacA and LacB, whereas two active sites are present in RpiB. In the structure of the product complex, the phosphate group of D-tagatose-6-phosphate is bound to three arginine residues, including Arg-39, producing a different substrate orientation than that in RpiB, where the substrate binds at Asp-43. Due to the proximity of the Arg-134 residue and backbone Cα of the α6 helix in LacA to the last Asp-172 residue of LacB with a hydrogen bond, a six-carbon sugar-phosphate can bind in the larger pocket of LacAB, compared with RpiB. His-96 in the active site is important for ring opening and substrate orientation, and Cys-65 is essential for the isomerization activity of the enzyme. Two rare sugar substrates, D-psicose and D-ribulose, show optimal binding in the LacAB-substrate complex. These findings were supported by the results of LacA activity assays.

  7. Synthesis, crystal structures, spectroscopic characterization and in vitro antidiabetic studies of new Schiff base Copper(II) complexes

    Indian Academy of Sciences (India)

    SUNDARAMURTHY SANTHA LAKSHMI; KANNAPPAN GEETHA; M GAYATHRI; GANESH SHANMUGAM

    2016-07-01

    Two new Schiff base copper(II) complexes, [CuL¹(tmen)] (1) and [Cu₂L₂² (tmen)] (2) {where, H₂L¹ = N-(salicylidene)-L-valine, H₂L² = N-(3,5-dichlorosalicylidene)-L-valine and tmen = N,N,N',N'- tetramethylethylene-1,2-diamine} have been synthesized and characterized by molar conductance, elemental analyses, VSM-RT, UV-Vis, FTIR, EPR, and CD spectra. Both the complexes were structurally characterized by single crystal XRD. The crystal structure of complex 1 displays a distorted square pyramidal geometry in which Schiff base is coordinated to the Cu(II) ion via ONO-donor in the axial mode, whereas, the chelating diamine displays axial and equatorial mode of binding via NN-donor atoms. The crystal structure of the complex 2 reveals a syn-anti mode of carboxylate bridged dinuclear complex, in which, the coordination geometry around Cu(1) is square pyramid and distorted square planar around Cu(2). The target complexes were screened for in vitro antidiabetic activity. Both the complexes showed good inhibitory activity for α-amylase and α-glucosidase.

  8. Synthesis and Crystal Structure of Zinc(Ⅱ) Complex with Isonicotinate Containing a Three-dimensional Hydrogen-bond Network

    Institute of Scientific and Technical Information of China (English)

    2001-01-01

    A zinc complex, [Zn(iso)2(H2O)4](iso=C6H4NO2-), was synthesized and characterized by elemental analysis, thermal analysis and IR spectrum studies. The crystal structure of the complex was determined by X-ray diffraction. The crystal crystallizes in the triclinic system, molecular formula ZnC12H16N2Os, Mr=381.64, space group P1 with a = 6.338(1 ), b =6.919(1), c=9.277(1), a =96.28(1),β =104.91(1 ),γ =112.85(1)°, V=352.12(9)A3, Z=1, Dc=l.80g·cm-3 and F(000)=196, μ =l.791mm-1. The crystal structure was solved by direct methods for final R=0.0204 and Rw=0.0542 for 1258 observed reflections with [Fo>4 σ (Fo)]. The crystal structure reveals that zinc ion is trans-octahedral with two pyridyl nitrogens and two aque oxygens at the equational positions and two aqua oxygens at the axial positions. The complex forms a three-dimensional network through intermolecular hydrogen bonds.

  9. Synthesis and crystal structure of nickel complex of N, N-bis(benzimidazol-2-yl-methyl)amine

    Science.gov (United States)

    Xu, Jing-Yuan; Gu, Wen; Li, Ling; Yan, Shi-Ping; Cheng, Peng; Liao, Dai-Zheng; Jiang, Zong-Hui

    2003-01-01

    A new nickel(II) complex, [NiL 2]Cl 2 (L= N, N-bis(benzimidazol-2-yl-methyl)amine), was synthesized and its crystal structure was determined. According to X-ray crystallographic studies, each nickel(II) ion was six-coordinated with six nitrogen atoms of two L ligands. The complex crystallizes in triclinic system, space group P 1¯, a=9.764(3) Å, b=11.032(3) Å, c=16.402(5) Å, α=80.529(6)°, β=79.180(7)°, γ=74.232(6)°, and Z=2. The title complex forms two-dimensional hydrogen bond network structures between the chlorine atoms and the nitrogens of L. The IR and UV spectroscopy were measured. The absorption bands of d-d electron transition are assigned, the values of Dq and B were calculated according to the electronic spectrum of the complex.

  10. Synthesis, crystal structures and electrochemical properties of two new metal-centered ferrocene complexes

    Institute of Scientific and Technical Information of China (English)

    2009-01-01

    Two new metal-centered ferrocene complexes Ni(SCN)2(L)4 (1) and Cu(OAc)2(L)2 (2) (L = 1-[1-ferro- cenylmethyl]imidazole) have been synthesized and characterized by elemental analysis, single crystal X-ray diffraction analysis, spectroscopic and cyclic voltammetric measurements. The geometry of Ni(Ⅱ) in 1 is octahedral, with four ligands in the equatorial plan and two thiocyanate anions at the axial site, while that of Cu(Ⅱ) in 2 is a distorted octahedron formed by two chealted OAc- and two ligands. Single crystal X-ray diffraction studies reveal that there is partial electron delocalization from ferrocene to imidazole in the two complexes. Electrochemical measurements exhibit that complexes 1 and 2 un-dergo similar reversible one electron redox processes, suggesting that the ferrocene moieties are equivalent and there are no interactions among them.

  11. A ternary tetracoordinated Pd II complex with metformin and dipicolinate: Synthesis, characterization and crystal structure

    Science.gov (United States)

    Moghimi, A.; Khavassi, H. R.; Dashtestani, F.; Kordestani, D.; Ekram Jafari, A.; Maddah, B.; Moosavi, S. M.

    2011-06-01

    A proton transfer compound L, (MetH) 2(dipic), (dipicH 2 = 2,6-pyridinedicarboxylic acid and Met = Metformin (N,N-dimethylebiguanidine), was synthesized and characterized by IR, 1H and 13C NMR spectroscopy. The reaction of L with PdCl 2 in water results in the formation of novel tetracoordinated Pd II complex [Pd(dipic)(Met)]·2H 2O indicating the participation of both dipic 2- and Met as chelating ligands. This complex was characterized by single crystal X-ray analysis. The crystal system is monoclinic with space group P2 1/c. The unit cell dimensions for Pd II complex 1 is a = 8.8619(14) Å, b = 9.5072(9) Å, c = 19.153(3) Å.

  12. Crystal structure of linoleate 13R-manganese lipoxygenase in complex with an adhesion protein.

    Science.gov (United States)

    Chen, Yang; Wennman, Anneli; Karkehabadi, Saeid; Engström, Åke; Oliw, Ernst H

    2016-08-01

    The crystal structure of 13R-manganese lipoxygenase (MnLOX) of Gaeumannomyces graminis (Gg) in complex with zonadhesin of Pichia pastoris was solved by molecular replacement. Zonadhesin contains β-strands in two subdomains. A comparison of Gg-MnLOX with the 9S-MnLOX of Magnaporthe oryzae (Mo) shows that the protein fold and the geometry of the metal ligands are conserved. The U-shaped active sites differ mainly due to hydrophobic residues of the substrate channel. The volumes and two hydrophobic side pockets near the catalytic base may sanction oxygenation at C-13 and C-9, respectively. Gly-332 of Gg-MnLOX is positioned in the substrate channel between the entrance and the metal center. Replacements with larger residues could restrict oxygen and substrate to reach the active site. C18 fatty acids are likely positioned with C-11 between Mn(2+)OH2 and Leu-336 for hydrogen abstraction and with one side of the 12Z double bond shielded by Phe-337 to prevent antarafacial oxygenation at C-13 and C-11. Phe-347 is positioned at the end of the substrate channel and replacement with smaller residues can position C18 fatty acids for oxygenation at C-9. Gg-MnLOX does not catalyze the sequential lipoxygenation of n-3 fatty acids in contrast to Mo-MnLOX, which illustrates the different configurations of their substrate channels.

  13. Crystal structures and vibrational spectroscopy of neutral platinum(IV) amine iodo complexes

    Science.gov (United States)

    Thiele, G.; Danzeisen, O. F.; Rotter, H. W.; Goanta, M.

    1999-05-01

    A series of platinum(IV) amine iodo complexes of the type [PtL 2I 4] was synthesized for the first time and their infrared and Raman spectra were recorded. The crystal structures of cis-[Pt(net) 2I 4], (net=ethylamine) (space group Pnma, a=14.668(3), b=8.787(2), c=11.433(2) Å), trans-[Pt(net) 2I 4] (space group C2/c, a=11.276(2), b=8.866(2), c=12.542(3) Å, β=114.86(3)°) and [Pt(en)I 4] (en=ethylendiamine) (space group P1, a=6.780(1), b=11.613(2), c=14.703(3) Å, α=71.87(3), β=80.78(3), γ=80.08 (3)°) were determined. Formation of linear chains of molecules with short intermolecular I-I distances was observed for cis-[Pt(net) 2I 4]. The spectroscopic behavior is discussed according to these results.

  14. Crystal Structures of DNA-Whirly Complexes and Their Role in Arabidopsis Organelle Genome Repair

    Energy Technology Data Exchange (ETDEWEB)

    Cappadocia, Laurent; Maréchal, Alexandre; Parent, Jean-Sébastien; Lepage, Étienne; Sygusch, Jurgen; Brisson, Normand (Montreal)

    2010-09-07

    DNA double-strand breaks are highly detrimental to all organisms and need to be quickly and accurately repaired. Although several proteins are known to maintain plastid and mitochondrial genome stability in plants, little is known about the mechanisms of DNA repair in these organelles and the roles of specific proteins. Here, using ciprofloxacin as a DNA damaging agent specific to the organelles, we show that plastids and mitochondria can repair DNA double-strand breaks through an error-prone pathway similar to the microhomology-mediated break-induced replication observed in humans, yeast, and bacteria. This pathway is negatively regulated by the single-stranded DNA (ssDNA) binding proteins from the Whirly family, thus indicating that these proteins could contribute to the accurate repair of plant organelle genomes. To understand the role of Whirly proteins in this process, we solved the crystal structures of several Whirly-DNA complexes. These reveal a nonsequence-specific ssDNA binding mechanism in which DNA is stabilized between domains of adjacent subunits and rendered unavailable for duplex formation and/or protein interactions. Our results suggest a model in which the binding of Whirly proteins to ssDNA would favor accurate repair of DNA double-strand breaks over an error-prone microhomology-mediated break-induced replication repair pathway.

  15. Crystal structure of the histone lysine specific demethylase LSD1 complexed with tetrahydrofolate.

    Science.gov (United States)

    Luka, Zigmund; Pakhomova, Svetlana; Loukachevitch, Lioudmila V; Calcutt, M Wade; Newcomer, Marcia E; Wagner, Conrad

    2014-07-01

    An important epigenetic modification is the methylation/demethylation of histone lysine residues. The first histone demethylase to be discovered was a lysine-specific demethylase 1, LSD1, a flavin containing enzyme which carries out the demethylation of di- and monomethyllysine 4 in histone H3. The removed methyl groups are oxidized to formaldehyde. This reaction is similar to those performed by dimethylglycine dehydrogenase and sarcosine dehydrogenase, in which protein-bound tetrahydrofolate (THF) was proposed to serve as an acceptor of the generated formaldehyde. We showed earlier that LSD1 binds THF with high affinity which suggests its possible participation in the histone demethylation reaction. In the cell, LSD1 interacts with co-repressor for repressor element 1 silencing transcription factor (CoREST). In order to elucidate the role of folate in the demethylating reaction we solved the crystal structure of the LSD1-CoREST-THF complex. In the complex, the folate-binding site is located in the active center in close proximity to flavin adenine dinucleotide. This position of the folate suggests that the bound THF accepts the formaldehyde generated in the course of histone demethylation to form 5,10-methylene-THF. We also show the formation of 5,10-methylene-THF during the course of the enzymatic reaction in the presence of THF by mass spectrometry. Production of this form of folate could act to prevent accumulation of potentially toxic formaldehyde in the cell. These studies suggest that folate may play a role in the epigenetic control of gene expression in addition to its traditional role in the transfer of one-carbon units in metabolism.

  16. Towards new cholera prophylactics and treatment: Crystal structures of bacterial enterotoxins in complex with GM1 mimics

    OpenAIRE

    Julie Elisabeth Heggelund; Alasdair Mackenzie; Tobias Martinsen; Joel Benjamin Heim; Pavel Cheshev; Anna Bernardi; Ute Krengel

    2017-01-01

    Cholera is a life-threatening disease in many countries, and new drugs are clearly needed. C-glycosidic antagonists may serve such a purpose. Here we report atomic-resolution crystal structures of three such compounds in complexes with the cholera toxin. The structures give unprecedented atomic details of the molecular interactions and show how the inhibitors efficiently block the GM1 binding site. These molecules are well suited for development into low-cost prophylactic drugs, due to their ...

  17. Crystal structures of multidrug binding protein TtgR in complex with antibiotics and plant antimicrobials.

    Science.gov (United States)

    Alguel, Yilmaz; Meng, Cuixiang; Terán, Wilson; Krell, Tino; Ramos, Juan L; Gallegos, María-Trinidad; Zhang, Xiaodong

    2007-06-08

    Antibiotic resistance is a widely spread phenomenon. One major mechanism that underlies antibiotic resistance in bacteria is the active extrusion of toxic compounds through the membrane-bound efflux pumps that are often regulated at the transcriptional level. TtgR represses the transcription of TtgABC, a key efflux pump in Pseudomonas putida, which is highly resistant to antibiotics, solvents and toxic plant secondary products. Previously we showed that TtgR is the only reported repressor that binds to different classes of natural antimicrobial compounds, which are also extruded by the efflux pump. We report here five high-resolution crystal structures of TtgR from the solvent-tolerant strain DOT-T1E, including TtgR in complex with common antibiotics and plant secondary metabolites. We provide structural basis for the unique ligand binding properties of TtgR. We identify two distinct and overlapping ligand binding sites; the first one is broader and consists of mainly hydrophobic residues, whereas the second one is deeper and contains more polar residues including Arg176, a unique residue present in the DOT-T1E strain but not in other Pseudomonas strains. Phloretin, a plant antimicrobial, can bind to both binding sites with distinct binding affinities and stoichiometries. Results on ligand binding properties of native and mutant TtgR proteins using isothermal titration calorimetry confirm the binding affinities and stoichiometries, and suggest a potential positive cooperativity between the two binding sites. The importance of Arg176 in phloretin binding was further confirmed by the reduced ability of phloretin in releasing the mutant TtgR from bound DNA compared to the native protein. The results presented here highlight the importance and versatility of regulatory systems in bacterial antibiotic resistance and open up new avenues for novel antimicrobial development.

  18. Crystal structure of the FK506 binding domain of human FKBP25 in complex with FK506.

    Science.gov (United States)

    Prakash, Ajit; Rajan, Sreekanth; Yoon, Ho Sup

    2016-04-01

    Human FKBP25 (hFKBP25) is a nuclear immunophilin and interacts with several nuclear proteins, hence involving in many nuclear events. Similar to other FKBPs, FK506 binding domain (FKBD) of hFKBP25 also binds to immunosuppressive drugs such as rapamycin and FK506, albeit with a lower affinity for the latter. The molecular basis underlying this difference in affinity could not be addressed due to the lack of the crystal structure of hFKBD25 in complex with FK506. Here, we report the crystal structure of hFKBD25 in complex with FK506 determined at 1.8 Å resolution and its comparison with the hFKBD25-rapamycin complex, bringing out the microheterogeneity in the mode of interaction of these drugs, which could possibly explain the lower affinity for FK506.

  19. Crystal and Molecular Structure of Bis(2,2-diphenyl-N-(di-n-propylcarbamothioyl acetamidocopper(II Complex

    Directory of Open Access Journals (Sweden)

    Hakan Arslan

    2011-01-01

    Full Text Available Bis(2,2-diphenyl-N-(di-n-propylcarbamothioyl acetamidocopper(II complex has been synthesized and characterized by elemental analysis and FT-IR spectroscopy. The crystal and molecular structure of the title compound has been determined from single crystal X-ray diffraction data. It crystallizes in the triclinic space group P-1, with a = 13.046(2 Å, b = 13.135(2 Å, c = 13.179(2 Å, α= 67.083(4°, β= 67.968(4°, γ = 84.756(4° and Dcalc =1.330 g/cm3 for Z = 2. The crystal structure confirms that the complex is a mononuclear copper(II complex and the 2,2-diphenyl-N-(di-n-propyl-carbamothioylacetamide ligand is a bidentate chelating ligand, coordinating to the copper atom through the thiocarbonyl and carbonyl groups. This coordination has a slightly distorted square-planar geometry (O1-Cu1-O2: 86.48(11°, O1-Cu1-S1: 93.85(9°, O2-Cu1-S2: 94.20(9° and S1-Cu1-S2: 91.21(4°. The title molecule shows a cis-arrangement and C–O, C–S and C–N bond lengths of the complex suggest considerable electronic delocalization in the chelate rings.

  20. Synthesis, structural characterization and crystal structure of some dimethyltin complexes containing substituted 1,10-phenanthroline

    Science.gov (United States)

    Momeni, Badri Z.; Haghshenas, Fahimeh; Hadi, Saba

    2017-08-01

    The reaction of dimethyltin dichloride with four substituted 1, 10- phenanthroline has been studied. The reactions of dimethyltin dichloride with 5-methyl-1,10-phenanthroline (Mephen); 5,6-dimethyl-1,10-phenanthroline (Me2phen); 5-nitro-1,10-phenanthroline (NO2phen); 5-chloro-1,10-phenanthroline (Clphen) resulted in the formation of the hexa-coordinated complexes of [SnMe2Cl2(NN)] {Mephen (1), Me2phen (2), NO2phen (3), Clphen (4)}. The resulting products have been fully characterized by elemental analysis, multinuclear (1H, 13C, 119Sn) NMR, DEPT-135, HHCOSY and HSQC NMR spectroscopy. The solid state X-ray determination of complexes [SnMe2Cl2(Mephen)] (1) and [SnMe2Cl2(Me2phen)] (2) revealed that the complexes 1 and 2 contain the hexa-coordinated tin(IV) atom in an octahedral geometry with the trans-[SnMe2] configuration. The Snsbnd N bond distances in 1-2 are 2.47-2.48 Å which are almost among the largest values.

  1. Synthesis and crystal structures of three isophthalato-bridged macrocyclic nickel(II) complexes

    Indian Academy of Sciences (India)

    Guang-Chuan Ou; Zhi-Zhang Li; Lin Yuan; Xian-You Yuan

    2015-01-01

    Three dinuclear isophthalato-bridged nickel(II) complexes formulated as [Ni(rac-L)]2(-IPA)(ClO4)2 (1), [Ni(-L)]2(-IPA)(ClO4)2 (2) and [Ni(SS-L)]2(-IPA)(ClO4)2 (3) (L = 5,5,7,12,12,14-hexamethyl-1,4,8,11-tetraazacyc-lotetradecane, IPA = isophthalic acid) have been isolated and characterized. Single crystal X-ray diffraction analyses revealed that the Ni(II) atoms have six-coordinated distorted octahedral environments, and the isophthalato ligand bridges two Ni(II) centres in a bis bidentate fashion to form dimers in all three complexes. The monomers of {[Ni(-L)]2(-IPA)}2+ are connected through intermolecular hydrogen bonds to generate one-dimensional left-handed helical chains in complex 3. The homochiral natures of complexes 2 and 3 have been confirmed by CD spectroscopy.

  2. Liquid crystal infiltration of complex dielectrics

    NARCIS (Netherlands)

    Gottardo, Stefano; Wiersma, Diederik S.; Vos, Willem L.

    2003-01-01

    Liquid crystal infiltration is becoming an important tool to control the optical properties of complex dielectric systems like photonic crystals and disordered dielectrics. We discuss the technical aspects of liquid crystal infiltration in meso-porous structures, give some details of the sample

  3. Crystal structures of organoplatinum complexes containing alkyleugenoxyacetate and p-chloroaniline

    Directory of Open Access Journals (Sweden)

    Hai Le Thi Hong

    2016-07-01

    Full Text Available In the title complexes, trans-dichlorido(4-chloroaniline-κN{3-methoxy-4-methoxycarbonylmethoxy-1-[(2,3-η-prop-2-en-1-yl]benzene}platinum(II 0.1-hydrate, [PtCl2(C6H6ClN(C13H16O4]·0.1H2O, (I, and trans-dichlorido(4-chloroaniline-κN{4-ethoxycarbonylmethoxy-3-methoxy-1-[(2,3-η-prop-2-en-1-yl]benzene}platinum(II, [PtCl2(C6H6ClN(C14H18O4], (II, the PtII metal atom displays a slightly distorted square-planar coordination geometry defined by the aniline N atom, two chloride anions (trans-positioned and one ethylenic double bond. The least-squares planes through the two aromatic ring systems make an angle of 47.3 (3° for (I and 38.6 (2° for (II. Both structures show disorder for the PtCl2 fragment, in the case of (I even further extended towards the CH2—CH=CH2 ligand. An intramolecular C—H...Cl hydrogen bond occurs in (I. In the crystal packing of (I, which is dominated by N—H...O and C—H...Cl interactions, a partially occupied water molecule is observed on a twofold rotation axis with a refined site occupancy of 0.10 (1. A C—H...π interaction is also present. In (II, inversion dimers form chains along the b-axis direction by N—H...O hydrogen bonds.

  4. Synthesis, Crystal Structure, and Characterization of Ternary Copper(II Complex Derived from N-(salicylidene-L-valine

    Directory of Open Access Journals (Sweden)

    Sundaramurthy Santha Lakshmi

    2016-01-01

    Full Text Available Ternary Schiff base copper(II complex [CuL(tmpda] (where H2L is N-(salicylidene-L-valine; tmpda is N,N,N′,N′-tetramethyl-1,3-propanediamine has been characterized by UV-Vis., FTIR, and single crystal XRD. The crystal structure displays a distorted square pyramidal geometry in which Schiff base is bonded to the Cu(II ion via phenolate oxygen, imine nitrogen, and an oxygen atom of the carboxylate group through the basal plane and the chelating diamine, N,N,N′,N′-tetramethyl-1,3-propanediamine, displays an axial and equatorial mode of binding via NN-donor atoms.

  5. Syntheses, characterization and crystal structures of potassium and barium complexes of a Schiff base ligand with different anions

    Indian Academy of Sciences (India)

    Bhavesh Parmar; Kamal Kumar Bisht; Pratyush Maiti; Parimal Paul; Eringathodi Suresh

    2014-09-01

    New pseudopolymorph of a O,N,N′-donor hydrazone ligand, 2-pyridylcarboxaldehyde isonicotinoylhydrazone (L) and its discrete complexes with K+ and Ba2+ have been reported. L forms isostructural dinuclear complexes with K+ when bromide and iodide were employed as counter anions. However, a monomeric complex in the case of Ba2+ with existence of coordinated as well as lattice perchlorate counter anions was observed. All compounds were characterized by single crystal X-ray analysis and other physicochemical techniques. Structural analysis and spectral features of all compounds are described in detail.

  6. Synthesis, crystal structure and characterization of one-dimension complex constructed by terbium(Ⅲ) and 2-iodobenzoate

    Institute of Scientific and Technical Information of China (English)

    XU Lijuan; LI Yanqiu; LI Xia

    2009-01-01

    The complex of [Tb(2-IBA)3(H2O)2]n (2-IBA=2-iodobenzoate) was prepared by solvent method from TbCl36H2O and 2-iodo-benzoic acid. The crystal structure was determined with X-ray single-crystal diffraction. The X-ray diffraction analysis indicated that the title complex crystallized in triclinic crystal system and Pi space group. The Tb3+ ion was coordinated by six oxygen atoms from five 2-IBA ligands and two oxygen atoms from two water molecules, giving a distorted square-antiprism polyhedral geometry. The carboxyl groups were bonded to the Tb3+ ions with bidentate-bridging and bidentate-chelating coordination modes. The adjacent Tb3+ ions were linked by two bidentate-bridging 2-IBA ligands, forming I-D chain structure. The fluorescence spectrum of the complex showed four main peaks at 489, 543, 587, and 618 nm, Corresponding to 5D4→7F (J=6-3) transition emissions of the Tb3+ ion, respectively.

  7. Crystal structures of the complexes of rare earth picrates with N, N, N’, N’-tetraphenyl-3, 6-dioxaoctanediamide

    Institute of Scientific and Technical Information of China (English)

    刘伟生; 柳士霞; 谭民裕; 郁开北; 谭干祖

    1997-01-01

    The complexes of rare earth picrate with N,N,N’,N’-tetraphenyl-3,6-dioxaoctanediamide(TDD),Eu(picc(TDD)] 2CH3CN and [ Y(pic)3(TDD)],have been synthesized.The crystal structures reveal that TDD at is as n tetradentate ligand,forming a ring-like coordination structure with its oxygen atoms together with one oxygen atom of the bidentate pterate In the Eu(Ⅲ) complex,the europium ion with a larger ionic radius lies out of the ring,while in the Y(Ⅲ) complex,the yttrium ion with a smaller ionic radius enters the cavity of the ligand.The structures of the complexes are greatly affected by the ionic radii due to participation of the picrates in coordination.

  8. Synthesis and Crystal Structure of a Ternary Complex: [Ni(phen)2(pmal)]·8H2O

    Institute of Scientific and Technical Information of China (English)

    GAO En-Jun; YU Ying; WANG Ke-Hua; SNN Ya-Guang; LI Hao-Yang

    2006-01-01

    A new ternary complex [Ni(phen)(pmal)]·8H2O (phen = 1,10-phenanthroline,pmal2- = phenethyl malonic acid) has been synthesized by the reaction of nickel acetate, phen and phenethyl malonic acid. Elemental analysis, IR spectra and X-ray single-crystal diffraction were carried out to determine the composition and crystal structure. Crystal data for this complex: triclinic system, space group P1, a = 10.387(5), b = 13.112(6), c = 14.229(6) (A), α = 76.176(7), β =83.778(8), y = 71.770(6)°, C35H42N4O12Ni, Mr= 769.44, Z = 2, F(000) = 808, V = 1786.1 (A)3, Dc =1.431 g/cm3, μ = 0.612 mm-1, the final R = 0.0653 and wR = 0.1033 for 9379 (Rint = 0.0244)independent reflections and 4730 observed reflections (I > 2σ(I)). Structural analysis shows that the coordination geometry of Ni(Ⅱ) is a distorted octahedron. A novel two-dimensional structure is constructed from (H2O)4 and (H2O)12 water clusters, and the complex forms a 3-D network supramolecular structure by hydrogen bonds and π-π stacking of neighboring phens.

  9. Crystal Structure and Characterization of 2-N-(2-Hydroxy-benzylidene) Furanmethanoamine Nickel(Ⅱ) Complex

    Institute of Scientific and Technical Information of China (English)

    WANG Jun; XU Hong; ZHOU Hua; WEI Ping

    2005-01-01

    The Ni(Ⅱ) complex with ligand 2-N-(2-hydroxy-benzylidene) furanmethanoamine has been synthesized and characterized by elemental analysis, IR and single-crystal X-ray diffraction.It crystallizes in the monoclinic system, space group C2/c with a = 2.0280(4), b =0.57700(12), c = 1.7340(4) nm, β = 94.74(3)°, Z = 4, Dc = 1.508 g/cm3, the final R = 0.0434 and wR = 0.1112 for 1843 observed reflections with I > 2σ(I).X-ray analysis revealed that the Ni(Ⅱ)ion is coordinated by two nitrogen atoms of Schiff base and two oxygen atoms of salicylaldehyde in the equatorial plane, and the coordination geometry can be described as a square.

  10. Synthesis and Crystal Structure of Palladium(Ⅱ) Complex with 2,2'-Bipyridine-3,3'-dicarboxylic Acid

    Institute of Scientific and Technical Information of China (English)

    2006-01-01

    The title complex Pd(H2BDA)Cl2(2DMSO (C16H14Cl2N2O6PdS2, H2BDA = 2,2'- bipyridine-3,3'-dicarboxylic acid) has been synthesized and characterized by IR spectra, elemental analysis and 1H NMR spectra. Its structure was determined by single-crystal X-ray diffraction analysis. The complex crystallizes in the monoclinic system, space group P21/c with a = 1.3604(6), b = 1.2606(6), c = 1.3521(6) nm, β = 103.677(7)°, V = 2.2530(17) nm3, Mr = 571.75, Z = 4, Dc = 1.686 g/cm3, μ = 1.280 mm-1, F(000) = 1136, R = 0.0405 and wR = 0.0908. The complex presents a planar quadrangle arrangement and is assembled via hydrogen bonds.

  11. Crystal structure and prediction.

    Science.gov (United States)

    Thakur, Tejender S; Dubey, Ritesh; Desiraju, Gautam R

    2015-04-01

    The notion of structure is central to the subject of chemistry. This review traces the development of the idea of crystal structure since the time when a crystal structure could be determined from a three-dimensional diffraction pattern and assesses the feasibility of computationally predicting an unknown crystal structure of a given molecule. Crystal structure prediction is of considerable fundamental and applied importance, and its successful execution is by no means a solved problem. The ease of crystal structure determination today has resulted in the availability of large numbers of crystal structures of higher-energy polymorphs and pseudopolymorphs. These structural libraries lead to the concept of a crystal structure landscape. A crystal structure of a compound may accordingly be taken as a data point in such a landscape.

  12. Synthesis,Crystal Structure and Thermal Stability of(Diacetylacetone)(diimidazole)Nickel(Ⅱ)Complex

    Institute of Scientific and Technical Information of China (English)

    建方方; 庞蕾; 肖海连; 孙萍萍

    2004-01-01

    The title compound, [Ni(acac)2(Im)2] (acac = acetylacetone), has been obtained by the reaction of Ni(acac)2 with imidazole ligand in the ethanol solvent. The blue crystal is of triclinic, space group Pī with a = 7.472(2), b = 9.456(2), c = 13.823(3)A, α = 85.55(3), β = 89.03(3), γ = 80.63(3)o, C16H22N4NiO4, Mr = 393.09, V = 960.7(3)A3, Z = 2, Dc = 1.359 g/cm3, F(000) = 412, μ = 1.036 mm-1, R = 0.0549 and wR = 0.1615. The crystal structure consists of two disconnected structural units. Each Ni atom coordinated by two N atoms from two imidazole ligands and four O atoms from two acetylactone ligands adopts a slightly distorted octahedron. The structure characterization was performed by means of IR, UV, TG, elemental analysis and single-crystal X-ray analysis. The thermal gravity (TG) data indicate that thermal decomposition of the title compound takes place in two steps, and the residue is NiO.

  13. The Syntheses, Crystal Structure and Luminescence Properties of Cone-Like Octadentate Europium (III Complexes with Four Short Alkoxy Substituents

    Directory of Open Access Journals (Sweden)

    Tetsuji Moriguchi

    2017-03-01

    Full Text Available Treatment of 1-(4′-methoxy or ethoxy phenyl-4,4,4-trifluoro-1,3-butanedione with europium (III chloride in the presence of piperidine resulted in the halide ligands exchange yielded new piperidinium tetrakis{1-(4′-methoxy or ethoxy phenyl-4,4,4-trifluoro-1,3-butanedionato} europate (III complexes 2a and 2b. Complexes 2a and 2b have been characterized by elemental analysis, 1H NMR spectroscopy, and FAB-MS, and their absolute structures were determined by single crystal X-ray diffraction analysis. The complexes 2a and 2b have the monoclinic space groups C2/c (No. 15, 4′-substituent = OCH3 and with P − 1 (No. 2, 4′-substituent = OC2H5, respectively. X-ray analysis results showed that eight coordinate structures of the complexes 2a and 2b have conelike structures, like calix[4]arenes, but their structures were slightly different due to the crystal packing and the existence of the solvent molecule. The complexes 2a and 2b exhibited identical, strong photoluminescence emissions in the solution phase.

  14. Crystal structure of a CRISPR RNA-guided surveillance complex bound to a ssDNA target

    Science.gov (United States)

    Mulepati, Sabin; Héroux, Annie; Bailey, Scott

    2015-01-01

    In prokaryotes, RNA derived from type I and type III CRISPR loci direct large ribonucleoprotein complexes to destroy invading bacteriophage and plasmids. In Escherichia coli, this 405-kDa complex is called Cascade. Here we report the 3.03Å crystal structure of Cascade bound to a single-stranded DNA target. The structure reveals that the CRISPR RNA and target strands do not form a double helix but instead adopt an underwound ribbon-like structure. This non-canonical structure is facilitated by rotation of every sixth nucleotide out of the RNA-DNA hybrid and is stabilized by the highly interlocked organization of protein subunits. These studies provide insight into both the assembly and the activity of this complex and suggest a mechanism to enforce fidelity of target binding. PMID:25123481

  15. Crystal Structure of a CRISPR RNA-guided Surveillance Complex Bound to a ssDNA Target

    Energy Technology Data Exchange (ETDEWEB)

    Mulepati, Sabin [Johns Hopkins Univ., Baltimore, MD (United States); Heroux, Annie; Bailey, Scott [Johns Hopkins Univ., Baltimore, MD (United States)

    2014-09-19

    In prokaryotes, RNA derived from type I and type III CRISPR loci direct large ribonucleoprotein complexes to destroy invading bacteriophage and plasmids. In Escherichia coli, this 405-kilodalton complex is called Cascade. We report the crystal structure of Cascade bound to a single-stranded DNA (ssDNA) target at a resolution of 3.03 angstroms. The structure reveals that the CRISPR RNA and target strands do not form a double helix but instead adopt an underwound ribbon-like structure. This noncanonical structure is facilitated by rotation of every sixth nucleotide out of the RNA-DNA hybrid and is stabilized by the highly interlocked organization of protein subunits. These studies provide insight into both the assembly and the activity of this complex and suggest a mechanism to enforce fidelity of target binding.

  16. Synthesis, crystal structure and luminescence properties of acenaphthene benzohydrazide based ligand and its zinc(II) complex

    Science.gov (United States)

    Kumar, Mukesh; Roy, Soumyabrata; Faizi, Md. Serajul Haque; Kumar, Santosh; Singh, Mantu Kumar; Kishor, Shyam; Peter, Sebastian C.; John, Rohith P.

    2017-01-01

    The complex compound of zinc(II) supported by (Z)-2-hydroxy-N‧-(1-oxoacenaphthylen-2(1H) ylidene)benzohydrazide ligand (H2L1) has been reported and discussed. The reaction of zinc acetate with H2L1 ligand leads to the formation of a mononuclear zinc(ii) complex, [Zn(HL1)2H2O]. The ligand, H2L1 has been characterized by elemental analysis, 1H, 13C and 1Hsbnd COSY -NMR, IR and ESI-MS, while the complex was characterized by elemental analysis, IR, and ESI-MS. The crystal structures of the free ligand H2L1 and the complex have also been determined by single crystal X-ray diffraction. The ligand chelates with metal centre with a nitrogen atom of imino moiety and an oxygen atom of enolic group. The complex shows distorted trigonal bipyramidal geometry around the metal centre with oxygen atoms lying in the equatorial plane and imino nitrogen atoms along the axial direction. The DFT/TD-DFT calculations were performed on both the ligand and its zinc complex to get insight into the structural, electronic and optical properties. The photoluminescence, fluorescence properties of the complex have been investigated.

  17. Synthesis and crystal structure of 5-(4'-carboxyphenyl)-10,15,20-tri(4¢-t-butylphenyl)porphinato zinc(II) complex

    Indian Academy of Sciences (India)

    P Bhyrappa; C Arunkumar; J J Vittal

    2005-03-01

    Synthesis and crystal structure of 5-(4'-carboxyphenyl)-10,15,20-tri(4'--butylphenyl)porphinato zinc(II) have been presented. The title complex shows interesting hydrogen-bonded dimeric structure in the solid state.

  18. RADCHARM++: A C++ routine to compute the electromagnetic radiation generated by relativistic charged particles in crystals and complex structures

    Energy Technology Data Exchange (ETDEWEB)

    Bandiera, Laura; Bagli, Enrico; Guidi, Vincenzo [INFN Sezione di Ferrara and Dipartimento di Fisica e Scienze della Terra, Università degli Studi di Ferrara, Via Saragat 1, 44121 Ferrara (Italy); Tikhomirov, Victor V. [Research Institute for Nuclear Problems, Belarusian State University, Minsk (Belarus)

    2015-07-15

    The analytical theories of coherent bremsstrahlung and channeling radiation well describe the process of radiation generation in crystals under some special cases. However, the treatment of complex situations requires the usage of a more general approach. In this report we present a C++ routine, named RADCHARM++, to compute the electromagnetic radiation emitted by electrons and positrons in crystals and complex structures. In the RADCHARM++ routine, the model for the computation of e.m. radiation generation is based on the direct integration of the quasiclassical formula of Baier and Katkov. This approach allows one taking into account real trajectories, and thereby the contribution of incoherent scattering. Such contribution can be very important in many cases, for instance for electron channeling. The generality of the Baier–Katkov operator method permits one to simulate the electromagnetic radiation emitted by electrons/positrons in very different cases, e.g., in straight, bent and periodically bent crystals, and for different beam energy ranges, from sub-GeV to TeV and above. The RADCHARM++ routine has been implemented in the Monte Carlo code DYNECHARM++, which solves the classical equation of motion of charged particles traveling through a crystal under the continuum potential approximation. The code has proved to reproduce the results of experiments performed at the MAinzer MIkrotron (MAMI) with 855 MeV electrons and has been used to predict the radiation spectrum generated by the same electron beam in a bent crystal.

  19. Mononuclear mercury(II) complexes containing bipyridine derivatives and thiocyanate ligands: Synthesis, characterization, crystal structure determination, and luminescent properties

    Science.gov (United States)

    Amani, Vahid; Alizadeh, Robabeh; Alavije, Hanieh Soleimani; Heydari, Samira Fadaei; Abafat, Marzieh

    2017-08-01

    A series of mercury(II) complexes, [Hg(Nsbnd N)(SCN)2] (Nsbnd N is 4,4‧-dimethyl-2,2‧-bipyridine in 1, 5,5‧-dimethyl-2,2‧-bipyridine in 2, 6,6‧-dimethyl-2,2‧-bipyridine in 3 and 6-methyl-2,2‧-bipyridine in 4), were prepared from the reactions of Hg(SCN)2 with mentioned ligands in methanol. Suitable crystals of these complexes were obtained for X-ray diffraction measurement by methanol diffusion into a DMSO solution. The four complexes were thoroughly characterized by spectral methods (IR, UV-Vis, 13C{1H}NMR, 1H NMR and luminescence), elemental analysis (CHNS) and single crystal X-ray diffraction. The X-ray structural analysis indicated that in the structures of these complexes, the mercury(II) cation is four-coordinated in a distorted tetrahedral configuration by two S atoms from two thiocyanate anions and two N atoms from one chelating 2,2‧-bipyridine derivative ligand. Also, in these complexes intermolecular interactions, for example Csbnd H⋯N hydrogen bonds (in 1-4), Csbnd H⋯S hydrogen bonds (in 1, 2 and 4), π … π interactions (in 2-4), Hg⋯N interactions (in 2) and S⋯S interactions (in 4), are effective in the stabilization of the crystal structures and the formation of the 3D supramolecular complexes. Furthermore, the luminescence spectra of the title complexes show that the intensity of their emission bands are stronger than the emission bands for the free bipyridine derivative ligands.

  20. Synthesis, characterization and crystal structure of a 2-(diethylaminomethylindole ligated dimethylaluminium complex

    Directory of Open Access Journals (Sweden)

    Logan E. Shephard

    2015-10-01

    Full Text Available The title compound, [Al(CH32(C13H17N2] (systematic name; {2-[(diethylaminomethyl]indol-1-yl-κ2N,N′}dimethylaluminium, was prepared by methane elimination from the reaction of 2-(diethylaminomethylindole and trimethylaluminium. The complex crystallizes readily from a concentrated toluene solution in high yield. The asymmetric unit contains two crystallographically independent molecules. Each molecule has a four-coordinate aluminium atom that has pseudo-tetrahedral geometry. C—H...π interactions link the independent molecules into chains extending along the b-axis direction.

  1. Crystal structure of R-spondin 2 in complex with the ectodomains of its receptors LGR5 and ZNRF3.

    Science.gov (United States)

    Zebisch, Matthias; Jones, E Yvonne

    2015-08-01

    The four secreted R-spondin (Rspo1-4) proteins of vertebrates function as stem cell growth factors and potentiate canonical Wnt signalling. Rspo proteins act by cross-linking members of two cell surface receptor families, complexing the stem cell markers LGR4-6 with the Frizzled-specific E3 ubiquitin ligases ZNRF3/RNF43. The consequent internalisation of the ternary LGR-Rspo-E3 complex removes the E3 ligase activity, which otherwise targets the Wnt receptor Frizzled for degradation, and thus enhances Wnt signalling. Multiple combinations of LGR4-6, Rspo1-4 and ZNRF3/RNF43 are possible, implying the existence of generic interaction determinants, but also of specific differences in complex architecture and activity. We present here a high resolution crystal structure of an ectodomain variant of human LGR5 (hLGR5ecto) complexed with a signalling competent fragment of mouse Rspo2 (mRspo2Fu1-Fu2). The structure shows that the particularly potent Rspo2 ligand engages LGR5 in a fashion almost identical to that reported for hRSPO1. Comparison of our hLGR5ecto structure with previously published structures highlights a surprising plasticity of the LGR ectodomains, characterised by a nearly 9° or larger rotation of the N-terminal half of the horseshoe-like fold relative to the C-terminal half. We also report a low resolution hLGR5-mRspo2Fu1-Fu2-mZNRF3ecto ternary complex structure. This crystal structure confirms our previously suggested hypothesis, showing that Rspo proteins cross-link LGRs and ZNRF3 into a 2:2:2 complex, whereas a 1:1:1 complex is formed with RNF43.

  2. Crystal structure of the Csm3-Csm4 subcomplex in the type III-A CRISPR-Cas interference complex.

    Science.gov (United States)

    Numata, Tomoyuki; Inanaga, Hideko; Sato, Chikara; Osawa, Takuo

    2015-01-30

    Clustered, regularly interspaced, short palindromic repeat (CRISPR) loci play a pivotal role in the prokaryotic host defense system against invading genetic materials. The CRISPR loci are transcribed to produce CRISPR RNAs (crRNAs), which form interference complexes with CRISPR-associated (Cas) proteins to target the invading nucleic acid for degradation. The interference complex of the type III-A CRISPR-Cas system is composed of five Cas proteins (Csm1-Csm5) and a crRNA, and targets invading DNA. Here, we show that the Csm1, Csm3, and Csm4 proteins from Methanocaldococcus jannaschii form a stable subcomplex. We also report the crystal structure of the M. jannaschii Csm3-Csm4 subcomplex at 3.1Å resolution. The complex structure revealed the presence of a basic concave surface around their interface, suggesting the RNA and/or DNA binding ability of the complex. A gel retardation analysis showed that the Csm3-Csm4 complex binds single-stranded RNA in a non-sequence-specific manner. Csm4 structurally resembles Cmr3, a component of the type III-B CRISPR-Cas interference complex. Based on bioinformatics, we constructed a model structure of the Csm1-Csm4-Csm3 ternary complex, which provides insights into its role in the Csm interference complex.

  3. Metal-ion interactions with sugars. The crystal structure and FTIR study of an SrCl2-fructose complex.

    Science.gov (United States)

    Guo, Jianyu; Zhang, Xiangmin

    2004-06-01

    The single-crystal structure of SrCl2 x 2C6H12O6 x 3H2O was determined with Mr = 572.88, a = 16.252, b = 7.941(2), c = 10.751(3) angstroms, beta = 127.652(4) degrees, V = 1098.5(6) angstroms3, C2, Z = 2, mu = 0.71073 angstroms and R = 0.0296 for 1998 observed reflections. The fructose moiety of the complex exists as a beta-d-pyranose. The strontium atom is surrounded by eight oxygen atoms, which are arranged in symmetry-related pairs that are derived from four sugar and two water molecules. Three nonvicinal hydroxyl groups of fructose are involved in strontium binding. All the hydroxyl groups and water molecules are involved in forming an extensive hydrogen-bond network. The Sr-fructose complex is isostructural with the Ca-fructose complex, and the crystal structures and FTIR spectra of the two complexes are compared in this article. The O-H, C-O, and C-O-H vibrations are shifted, and the relative intensities changed in the complexes IR spectra, which indicate sugar metalation. By studying the metal-binding properties of fructose, it is hoped that such would aid in the understanding of the structural chemistry of metal ions interacting with saccharides, as an actual biological system, and thereby aid in the interpretation of some particular biological processes.

  4. Homoleptic tetraazaphenanthrene-based copper(I) complexes: Synthesis, spectroscopic characterization, crystal structures and computational studies.

    OpenAIRE

    Kia, R.; Scholz, M; Raithby, P.; Techert, S.

    2014-01-01

    Three new Cu(I) complexes containing bidentate N^N donor ligands with the general formula [Cu(N^N)2][PF6] (N^N = 2,3-diphenyl-6,7-di-p-tolyl-1,4,5,8-tetraazaphenanthrene (L1), 2,3-diphenyl-6,7-di(2-thienyl)-1,4,5,8-tetraazaphenanthrene (L2), and 2,3-diphenyl-6,7-di-p-fluorophenyl-1,4,5,8-tetraazaphenanthrene (L3), were prepared by the reaction of [Cu(CH3CN)4][PF6] with two equivalents of the N^N ligand. Single-crystal X-ray diffraction analysis confirmed that in each complex the metal display...

  5. Complexes of uranyl nitrate with 2,6-pyridinedicarboxamides: synthesis, crystal structure, and DFT study

    Energy Technology Data Exchange (ETDEWEB)

    Alyapyshev, Mikhail; Babain, Vasiliy [ITMO University, 49, Kronverksky pr., 197101, St. Petersburg (Russian Federation); ThreeArc Mining Ltd., 5, Stary Tolmachevskiy per., 115184, Moscow (Russian Federation); Tkachenko, Lyudmila; Lumpov, Alexander [Khlopin Radium Institute, 28, 2nd Murinskiy pr., 194021, St. Petersburg (Russian Federation); Gurzhiy, Vladislav; Zolotarev, Andrey; Dar' in, Dmitriy [St. Petersburg State University, 7-9, Universitetskaya nab., 199034, St. Petersburg (Russian Federation); Ustynyuk, Yuriy; Gloriozov, Igor [M.V. Lomonosov Moscow State University, 119991, Moscow (Russian Federation); Paulenova, Alena [Department of Nuclear Engineering, Oregon State University, Corvallis, OR (United States)

    2017-05-04

    Two complexes of uranyl nitrate with N,N,N',N'-tetrabutyl-2,6-pyridinedicarboxamide (TBuDPA) and N,N'-diethyl-N,N'-diphenyl-2,6-pyridinedicarboxamide (EtPhDPA) were synthesized and studied. The complex of tetraalkyl-2,6-pyridinedicarboxamide with metal nitrate was synthesized for the first time. XRD analysis revealed the different type of complexation: a 1:1 metal:ligand complex for EtPhDPA and complex with polymeric structure for TBuDPA. The quantum chemical calculations (DFT) confirm that both ligands form the most stable complexes that match the minimal values pre-organization energy of the ligands. (copyright 2017 WILEY-VCH Verlag GmbH and Co. KGaA, Weinheim)

  6. Crystal structure of an FIV/HIV chimeric protease complexed with the broad-based inhibitor, TL-3

    Directory of Open Access Journals (Sweden)

    Elder John H

    2007-01-01

    Full Text Available Abstract We have obtained the 1.7 Å crystal structure of FIV protease (PR in which 12 critical residues around the active site have been substituted with the structurally equivalent residues of HIV PR (12X FIV PR. The chimeric PR was crystallized in complex with the broad-based inhibitor TL-3, which inhibits wild type FIV and HIV PRs, as well as 12X FIV PR and several drug-resistant HIV mutants 1234. Biochemical analyses have demonstrated that TL-3 inhibits these PRs in the order HIV PR > 12X FIV PR > FIV PR, with Ki values of 1.5 nM, 10 nM, and 41 nM, respectively 234. Comparison of the crystal structures of the TL-3 complexes of 12X FIV and wild-typeFIV PR revealed theformation of additinal van der Waals interactions between the enzyme inhibitor in the mutant PR. The 12X FIV PR retained the hydrogen bonding interactions between residues in the flap regions and active site involving the enzyme and the TL-3 inhibitor in comparison to both FIV PR and HIV PR. However, the flap regions of the 12X FIV PR more closely resemble those of HIV PR, having gained several stabilizing intra-flap interactions not present in wild type FIV PR. These findings offer a structural explanation for the observed inhibitor/substrate binding properties of the chimeric PR.

  7. Syntheses and Crystal Structures of Two Complexes with 3-(3-Pyridyl)acrylic Acid

    Institute of Scientific and Technical Information of China (English)

    2005-01-01

    The reaction of 3-(3-pyridyl)acrylic acid (H(3-PYA)) with Co(NO3)2·6H2O or Complex 1 crystallizes in monoclinic, space group C2/c with a = 9.9473(12), b = 13.7227(16), c =14.7376(18) (A), β = 99.043(2)°, V = 1986.7(4) (A)3, Z = 4, Dc = 1.549 g/cm3, μ = 0.921 mm 1, F(000)= 964, R = 0.0786 and wR = 0.1443. Six types of hydrogen bonds and π-π packing interactions molecular architecture. Complex 2 crystallizes in monoclinic, space group P21/n with a =11.3630(16), b = 7.0346(10), c = 12.1365(18) (A), β = 112.545(3)°, V = 896.0(2) (A)3, Z = 2, Dc =1.997 g/cm3,μ = 0.785 mm-1, F(000) = 438, R = 0.0787 and wR = 0.1550. The discrete entity Mn(Ⅱ)(3-PYD)2(H2O)4 is extended into a 3-D supramolecular architecture by four kinds of hydrogen bonds.

  8. Synthesis, spectral characterization and crystals structure of some arsane derivatives of gold (I complexes: a comparative density functional theory study.

    Directory of Open Access Journals (Sweden)

    Omar Bin Shawkataly

    Full Text Available A series of complexes of the type LAuCl where L = tris(p-tolylarsane, tris(m-tolylarsane, bis(diphenylarsanoethane, and tris(naphthylarsane have been synthesized. All of the new complexes, 1-4, have been fully characterized by means of ¹H NMR and ¹³C NMR spectroscopy and single crystal X-ray crystallography. The structures of complexes 1-4 have been determined from X-ray diffraction data. The linear molecules have an average bond distance between gold-arsenic and gold-chlorine of 2.3390Å and 2.2846Å, respectively. Aurophilic interaction was prominent in complex 1 and 3, whereas complex 2 and 4 do not show any such interaction. The intermolecular gold interaction bond length was affected by the electronegativity of the molecule. The computed values calculated at DFT level using B3LYP function are in good agreement with the experimental results.

  9. Crystal growth of semiorganic complex- samarium chloride coordinated thiourea-L-tartaric acid and its studies on structure and optical characteristics

    Science.gov (United States)

    Slathia, Goldy; Singh, Harjinder; Ramya, E.; Rao, D. Narayana; Bamzai, K. K.

    2017-05-01

    The semi-organic complex of samarium chloride coordinated thiourea-L-tartaric acid (SCTLT) has been grown as a single crystal by slow evaporation technique at room temperature. For structural studies, the grown crystal was subjected to single crystal X-ray diffraction and Fourier transform infra-red (FTIR) spectroscopy. Low cut off wavelength and transparent characteristics were explored by UV-VIS optical characterization. Third-order nonlinear optical properties of grown crystal were investigated by Z-scan technique.

  10. Synthesis, Crystal structure and Characterization of a New Oxalate Chromium (III) Complex

    Indian Academy of Sciences (India)

    Rihab Dridi; Saoussen Cherni; Mohamed Faouzi Zid

    2015-08-01

    A new hybrid salt (C5H9N2)[Cr(C2O4)2 (H2O)2].3H2O, 3,5-dimethylpyrazole Cis diaquadioxala-tochromate(III) trihydrate, has been prepared by slow evaporation at room temperature and characterized by single crystal X-ray diffraction, IR, UV–visible spectroscopies, PXRD and thermogravimetric analyses. Furthermore, the observed crystal morphology was compared to the simulated one using the Bravais-Friedel, Donnay-Harker model. The structure of the title compound consists of [Cr(C2O4) 2 (H2O) 2]− mononuclear anions, 3,5-dimethylpyrazole cations and three uncoordinated water molecules. The Cr3+ ion is six coordinated in a slightly distorted octahedral environment, by two O atoms from two water molecules and four O atoms of two oxalate anions acting as chelating ligands. The cohesion of the structure is established by intermolecular O–H...O, N–H...O hydrogen bonds which connect ionic entities and water molecules and also by – stacking interactions between the rings of 3,5-dimethylpyrazole cations. Hence, both coordinated and uncoordinated water molecules play an important role in the hydrogen-bonding system and stabilize the structure.

  11. Crystal Structure of the VapBC Toxin–Antitoxin Complex from Shigella flexneri Reveals a Hetero-Octameric DNA-Binding Assembly

    DEFF Research Database (Denmark)

    Dienemann, Christian; Bøggild, Andreas; Winther, Kristoffer S.

    2011-01-01

    the crystal structure of the intact Shigella flexneri VapBC TA complex, determined to 2.7 Å resolution. Both in solution and in the crystal structure, four molecules of each protein combine to form a large and globular hetero-octameric assembly with SpoVT/AbrB-type DNA-binding domains at each end and a total...

  12. Crystal structures of human group-VIIA phospholipase A2 inhibited by organophosphorus nerve agents exhibit non-aged complexes

    Energy Technology Data Exchange (ETDEWEB)

    Samanta, Uttamkumar; Kirby, Stephen D.; Srinivasan, Prabhavathi; Cerasoli, Douglas M.; Bahnson, Brian J.; (Delaware); (USAMRIID)

    2009-09-02

    The enzyme group-VIIA phospholipase A2 (gVIIA-PLA2) is bound to lipoproteins in human blood and hydrolyzes the ester bond at the sn-2 position of phospholipid substrates with a short sn-2 chain. The enzyme belongs to a serine hydrolase superfamily of enzymes, which react with organophosphorus (OP) nerve agents. OPs ultimately exert their toxicity by inhibiting human acetycholinesterase at nerve synapses, but may additionally have detrimental effects through inhibition of other serine hydrolases. We have solved the crystal structures of gVIIA-PLA2 following inhibition with the OPs diisopropylfluorophosphate, sarin, soman and tabun. The sarin and soman complexes displayed a racemic mix of P{sub R} and P{sub S} stereoisomers at the P-chiral center. The tabun complex displayed only the P{sub R} stereoisomer in the crystal. In all cases, the crystal structures contained intact OP adducts that had not aged. Aging refers to a secondary process OP complexes can go through, which dealkylates the nerve agent adduct and results in a form that is highly resistant to either spontaneous or oxime-mediated reactivation. Non-aged OP complexes of the enzyme were corroborated by trypsin digest and matrix-assisted laser desorption ionization mass spectrometry of OP-enzyme complexes. The lack of stereoselectivity of sarin reaction was confirmed by gas chromatography/mass spectrometry using a chiral column to separate and quantitate the unbound stereoisomers of sarin following incubation with enzyme. The structural details and characterization of nascent reactivity of several toxic nerve agents is discussed with a long-term goal of developing gVIIA-PLA2 as a catalytic bioscavenger of OP nerve agents.

  13. Complexing ability of (-)-cytisine--synthesis, spectroscopy and crystal structures of the new copper and zinc complexes.

    Science.gov (United States)

    Przybył, Anna K; Kubicki, Maciej; Jastrzab, Renata

    2014-09-01

    For the first time the NMR spectra of quinolizidine alkaloid with Cu(II) are studied. Structures of new complexes of (-)-cytisine with Cu(+2) and Zn(+2) cations are visualized, discussed in detail and characterized by spectroscopic methods: ESI-MS, NMR, UV-vis, EPR and crystallographic methods. In solution metal coordinates through the protonated nitrogen atoms of secondary amino groups (in piperidine ring) of cytisine molecule. While in solid state the most stable structures of the complexes are those in which the coordination of Cu(II) and Zn(II) salts is realized solely through the lactam carbonyl oxygen atom.

  14. Crystal structure of the G3BP2 NTF2-like domain in complex with a canonical FGDF motif peptide

    DEFF Research Database (Denmark)

    Kristensen, Ole

    2015-01-01

    The crystal structure of the NTF2-like domain of the human Ras GTPase SH3 Binding Protein (G3BP), isoform 2, was determined at a resolution of 2.75 Å in complex with a peptide containing a FGDF sequence motif. The overall structure of the protein is highly similar to the homodimeric N...... molecular modeling suggested that FGDF-motif containing peptides bind in an extended conformation into a hydrophobic groove on the surface of the G3BP NTF2-like domain in a manner similar to the known binding of FxFG nucleoporin repeats. The results in this paper provide evidence for a different binding...

  15. Synthesis, crystal structure and thermodynamic properties of a new praseodymium Schiff-base complex

    Energy Technology Data Exchange (ETDEWEB)

    Li, Chuan-Hua, E-mail: lichuanhua0526@126.com [School of Chemistry and Chemical Engineering, Central South University, Changsha 410083, Hunan (China); Hunan Provincial Key Laboratory of Xiangnan Rare-Precious Metals Compounds and Applications, Department of Chemistry and Life Science, Xiangnan University, Chenzhou 423000, Hunan (China); Song, Xiang-Zhi, E-mail: xzsong@csu.edu.cn [School of Chemistry and Chemical Engineering, Central South University, Changsha 410083, Hunan (China); Jiang, Jian-Hong [Hunan Provincial Key Laboratory of Xiangnan Rare-Precious Metals Compounds and Applications, Department of Chemistry and Life Science, Xiangnan University, Chenzhou 423000, Hunan (China); Gu, Hui-Wen [State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, Hunan (China); Tao, Li-Ming; Yang, Ping; Li, Xu; Xiao, Sheng-Xiong; Yao, Fei-Hong; Liu, Wen-Qi; Xie, Jin-Qi; Peng, Meng-Na; Pan, Lan; Wu, Xi-Bin; Jiang, Chao; Wang, Song; Xu, Man-Fen [Hunan Provincial Key Laboratory of Xiangnan Rare-Precious Metals Compounds and Applications, Department of Chemistry and Life Science, Xiangnan University, Chenzhou 423000, Hunan (China); Li, Qiang-Guo, E-mail: liqiangguo@163.com [Hunan Provincial Key Laboratory of Xiangnan Rare-Precious Metals Compounds and Applications, Department of Chemistry and Life Science, Xiangnan University, Chenzhou 423000, Hunan (China)

    2014-04-01

    Highlights: • A new mononuclear Schiff base praseodymium complex was synthesized. • Based on Hess's law, thermochemical cycles of two reactions were designed. • The dissolution enthalpies were measured by a solution–reaction calorimeter. • The standard molar enthalpy of formation of the complex was calculated. - Abstract: The title complex [Pr(H{sub 2}vanen)(NO{sub 3}){sub 2}(H{sub 2}O){sub 2}·NO{sub 3}] was synthesized reacting of Valen Schiff-base ligand [H{sub 2}vanen = N,N′-ethylene-bis(3-methoxysalicylideneimine)] and Pr(NO{sub 3}){sub 3}·6H{sub 2}O in ethanol at 60 °C. The complex was crystallized in the monoclinic crystal system with space group P21/c. The coordination polyhedron of Pr(III) ion was consisted of two bidentate nitrate ions, two molecules of water and one ligand which coordinated through oxygen atoms of the two phenolic and methoxy groups. After designing two reasonable thermochemical cycles according to Hess's law, the calorimetric experiments were conducted using isoperibol solution–reaction calorimeter at a constant temperature of 298.15 K. The standard molar enthalpy changes of two reactions were determined to be Δ{sub r}H{sub m}{sup θ}(1a)=−(51.94±1.26) kJ mol{sup −1} and Δ{sub r}H{sub m}{sup θ}(1b)=−(8.62±1.34) kJ mol{sup −1}. Then the standard molar enthalpies of formation of the ligand and the title complex were calculated to be Δ{sub f}H{sub m}{sup θ} [H{sub 2}vanen(s), 298.15 K] = −(517.75 ± 2.36) kJ mol{sup −1} and Δ{sub f}H{sub m}{sup θ} [Pr(H{sub 2}vanen)(NO{sub 3}){sub 2}(H{sub 2}O){sub 2}·NO{sub 3} (s), 298.15 K] = −(2454.8 ± 2.7) kJ mol{sup −1}, respectively. The rationality of two thermochemical cycles was verified by UV spectra and refractive indexes.

  16. Crystal structure of the bacterial ribosomal decoding site complexed with amikacin containing the gamma-amino-alpha-hydroxybutyryl (haba) group.

    Science.gov (United States)

    Kondo, Jiro; François, Boris; Russell, Rupert J M; Murray, James B; Westhof, Eric

    2006-08-01

    Amikacin is the 4,6-linked aminoglycoside modified at position N1 of the 2-deoxystreptamine ring (ring II) by the L-haba group. In the present study, the crystal structure of a complex between oligonucleotide containing the bacterial ribosomal A site and amikacin has been solved at 2.7 A resolution. Amikacin specifically binds to the A site in practically the same way as its parent compound kanamycin. In addition, the L-haba group interacts with the upper side of the A site through two direct contacts, O2*...H-N4(C1496) and N4*-H...O6(G1497). The present crystal structure shows how the introduction of the L-haba group on ring II of aminoglycoside is an effective mutation for obtaining a higher affinity to the bacterial A site.

  17. Crystal Structure of a Linear Ag(Ⅰ) Complex with Niflumic Acid and Its Fluorescent Property

    Institute of Scientific and Technical Information of China (English)

    TAN Yu-Hui; YANG Shao-Ping; LI Qing-Song; TAN Yu-Li

    2006-01-01

    A novel Ag(Ⅰ) complex AgH(Nifa)2 1 (C26H17AgF6N4O4, Mr = 671.31) was synthe- sized through hydrothermal reaction of Ag2SO4 and Niflumic acid (HNifa), and characterized by single-crystal X-ray determination, IR and fluorescent spectra. Crystal data for 1: monoclinic, space group C2/c, with a = 9.5446(16), b = 12.3203(16), c = 21.056 (3) (A), β = 98.075(2)o, V = 2451.5(6) (A)3, T = 293(2) K, Z = 4, Dc = 1.819 g/cm3, F(000) = 1336, μ = 0.912 mm-1, S = 1.001, (Δρ)min = -0.849, the final R = 0.0391 and wR = 0.1286. The local geometry around the central metal Ag(Ⅰ) ion is linear. Two carboxylic acids of neighboring ligands sharing one hydrogen atom by two hydro- gen bonds result in the formation of an infinite hydrogen-bonded chain. Solid-state fluorescence of 1 at room temperature shows that the maximal emission peak occurs in 439 nm.

  18. Synthesis,Charactarization and Crystal Structures of Lanthanide Phenoxyacetate Complexes with1,10—Phenanthroline

    Institute of Scientific and Technical Information of China (English)

    邓洪; 蔡跃鹏; 巢晖; 陈春龙; 蒋才武; 陈超球; 计亮年

    2003-01-01

    Three new lanthanide phenoxyacetate complexes with 1,10-phenanthroline,[Nd(POA)3(phen)]2·2C2H5OH(1),[Eu(POA)3-(phen)]2·2C2H5OH(2) and [Sm(POA)2(DMSO)(phen)]2-(ClO4)2 (3)(POA=phenoxyacetate,phen=1,10-phenanthroline,DMSO=dimethyl sulfoxide),were synthesized and characterized by elemental analyses,IR,UV-vis and FAB-MS spectra.Their structures were determined by single crystal X-ray diffraction analysis.In complexes 1 and 2,the carboxlyate groups are bonded to Ln3+ ion in three modes:the chelating bidentate,the bridging bidentate and the bridging tridentate.In complex3,the carboxylate groups are bonded to Sm3+ ion only involved in one mode:the bridging bidentate.The luminescence behavior of complex 2 was also studied by means of emission spectra.

  19. Crystal structure, complexation, spectroscopic characterization and antimicrobial evaluation of 3,4-dihydroxybenzylidene isonicotinyl-hydrazone

    Science.gov (United States)

    Jeragh, Bakir; Ali, Mayada S.; El-Asmy, Ahmed A.

    2015-06-01

    A single crystal of 3,4-dihydroxybenzylidene isonicotinylhydrazone, HBINH, has been grown and solved by X-ray crystallography. The VO2+, Zr4+, Co2+, Ni2+, Cu2+, Zn2+, Cd2+, Hg2+ and Pd2+ complexes of HBINH have been prepared and spectroscopically characterized. The data confirmed the formulae [Co(HBINH)(H2O)Cl]Cl·H2O, [Pd(HBINH)Cl2], [Zn(HBINH)2Cl2], [Cd(HBINH)(H2O)2Cl2]·1½H2O, [(VO)2(HBINH-3H)(OH)(H2O)], [Ni2(HBINH)(H2O)6Cl2]Cl2, [Cu2(HBINH-3H)(H2O)2(OAc)]·3H2O, [Zr2(HBINH-3H)Cl4]Cl, [Hg2(HBINH)Cl4] and the dimer {[Cu(HBINH)Cl]Cl}2. Most of the complexes have intense colors and high melting points and some are electrolytes in DMSO solution. The ligand behaves as a neutral bidentate in the Co(II), Cu(II), Pd(II), Zn(II) and Cd(II) complexes; dibasic tetradentate in [Ni2(HBINH)(H2O)6Cl2]Cl2 and tribasic tetradentate in [Cu2(HBINH-3H)(OAc)]·5H2O, [(VO)2(HBINH-3H)(OH)(H2O)] and [Zr2(HBINH-3H)Cl4]Cl by the loss of 3H+ due to the deprotonation of the two hydroxyl groups and the enolization of the amide (Odbnd CNH) group. A tetrahedral geometry was proposed for the Co(II), Cu(II), Zn(II) and Hg(II) complexes; square-planar for the Pd(II) complex; square-pyramid for the VO2+ complex and octahedral for the Ni(II) and Cd(II) complexes. The complexes [Cd(HBINH)(H2O)2Cl2]·1½H2O, [(VO)2(HBINH-3H)(OH)(H2O)] and [Cu2(HBINH-3H)-(H2O)2(OAc)]·3H2O have activities against Bacillus sp. M3010, Candida albicans, Escherichia coli, Staphylococcus aureus and Slamonella sp. PA393.

  20. Synthesis and crystal structure of a wheel-shaped supramolecular coordination complex

    Indian Academy of Sciences (India)

    Deepak Gupta; Palanisamy Rajakannu; Bhaskaran Shankar; Firasat Hussain; Malaichamy Sathiyendiran

    2014-09-01

    Supramolecular coordination complex (SCC) possessing spatially arranged three anthraquinone dimers in a slipped-cofacial orientation was achieved by the treatment of Re2(CO)10, 2-hydroxymethylanthraquinone and tritopic N-donor via fac-Re(CO)3-directed one pot approach. The off-set -stacking and C≡O…H bonding interactions stabilize the ring structure.

  1. Anion-tuned self-assembly of zinc(II) fluconazole complexes: Crystal structures, luminescent and thermal properties

    Science.gov (United States)

    Zhang, Lei; Ling, Yun; Peng, Feng; Du, Miao

    2007-03-01

    Four novel fluconazole-bridged Zn(II) complexes, [Zn(HFlu)Cl 2(DMF)] 2 ( 1), {[Zn(HFlu) 2(H 2O) 2](NO 3) 2·2DMF} n ( 2), {[Zn(HFlu) 2(H 2O) 2](NO 3) 2} n ( 3) and {[Zn(HFlu)(SCN) 2]·H 2O} n ( 4) [HFlu = 2-(2,4-difluorophenyl)-1,3-bis(1,2,4-triazol-1-yl)-propan-2-ol], have been synthesized and structurally characterized by X-ray diffraction method. The structure of dimeric complex 1 consists of 20-membered macrometallacyclic ring-like structure, in which the Zn(II) ion is in a five-coordinated distorted trigonal bipyramidal geometry with the Zn⋯Zn distance of 10.265(3) Å across the cis HFlu ligand. Complex 2 shows infinite 1-D macrocyclic double chain structure with the central Zn(II) ions being six-coordinated by four HFlu ligands and two apical water molecules and with the intrachain Zn⋯Zn distance of 10.722(3) Å across the trans HFlu ligand. The crystal structure of complex 3 is analogous to that of complex 2 with the intrachain Zn⋯Zn distance of 10.654(2) Å. The structure of complex 4 consists of infinite 1-D coordination polymeric chain with the tetrahedral coordination geometry of Zn(II) ion and with the intrachain Zn⋯Zn distance of 11.173(2) Å across the cis HFlu ligand. Complexes 1- 4 show the similar fluorescence emission to the free HFlu ligand at ambient temperature and the thermal stabilities of the complexes have also been investigated.

  2. Crystal Structure of the Lactose Operon Repressor and Its Complexes with DNA and Inducer

    Science.gov (United States)

    Lewis, Mitchell; Chang, Geoffrey; Horton, Nancy C.; Kercher, Michele A.; Pace, Helen C.; Schumacher, Maria A.; Brennan, Richard G.; Lu, Ponzy

    1996-03-01

    The lac operon of Escherichia coli is the paradigm for gene regulation. Its key component is the lac repressor, a product of the lacI gene. The three-dimensional structures of the intact lac repressor, the lac repressor bound to the gratuitous inducer isopropyl-β-D-1-thiogalactoside (IPTG) and the lac repressor complexed with a 21-base pair symmetric operator DNA have been determined. These three structures show the conformation of the molecule in both the induced and repressed states and provide a framework for understanding a wealth of biochemical and genetic information. The DNA sequence of the lac operon has three lac repressor recognition sites in a stretch of 500 base pairs. The crystallographic structure of the complex with DNA suggests that the tetrameric repressor functions synergistically with catabolite gene activator protein (CAP) and participates in the quaternary formation of repression loops in which one tetrameric repressor interacts simultaneously with two sites on the genomic DNA.

  3. Magnetic properties and electronic structure of neptunyl(VI) complexes: wavefunctions, orbitals, and crystal-field models

    Energy Technology Data Exchange (ETDEWEB)

    Gendron, Frederic; Pritchard, Ben; Autschbach, Jochen [Department of Chemistry, University at Buffalo, State University of New York, Buffalo, NY (United States); Paez-Hernandez, Dayan; Bolvin, Helene [Laboratoire de Physique et de Chimie Quantiques, Universite Toulouse 3 (France); Notter, Francois-Paul [Laboratoire de Chimie Quantique, Universite de Strasbourg (France)

    2014-06-23

    The electronic structure and magnetic properties of neptunyl(VI), NpO{sub 2}{sup 2+}, and two neptunyl complexes, [NpO{sub 2}(NO{sub 3}){sub 3}]{sup -} and [NpO{sub 2}Cl{sub 4}]{sup 2-}, were studied with a combination of theoretical methods: ab initio relativistic wavefunction methods and density functional theory (DFT), as well as crystal-field (CF) models with parameters extracted from the ab initio calculations. Natural orbitals for electron density and spin magnetization from wavefunctions including spin-orbit coupling were employed to analyze the connection between the electronic structure and magnetic properties, and to link the results from CF models to the ab initio data. Free complex ions and systems embedded in a crystal environment were studied. Of prime interest were the electron paramagnetic resonance g-factors and their relation to the complex geometry, ligand coordination, and nature of the nonbonding 5f orbitals. The g-factors were calculated for the ground and excited states. For [NpO{sub 2}Cl{sub 4}]{sup 2-}, a strong influence of the environment of the complex on its magnetic behavior was demonstrated. Kohn-Sham DFT with standard functionals can produce reasonable g-factors as long as the calculation converges to a solution resembling the electronic state of interest. However, this is not always straightforward. (copyright 2014 WILEY-VCH Verlag GmbH and Co. KGaA, Weinheim)

  4. Synthesis, Crystal Structure, Spectroscopic Properties and Potential Biological Activities of Salicylate‒Neocuproine Ternary Copper(II Complexes

    Directory of Open Access Journals (Sweden)

    Lenka Kucková

    2015-01-01

    Full Text Available Mixed ligand copper(II complexes containing derivatives of salicylic acid and heterocyclic ligands with nitrogen donor atoms have been the subject of various studies and reviews. In this paper, synthesis and characterization of the ternary copper(II complexes of neocuproine (2,9-dimethyl-1,10-phenanthroline, Neo and salicylate ligands (Sal are reported. In addition, the crystal structures of ([Cu(H2O(5-Cl-Sal(Neo] (1, [Cu(μ-Sal(Neo]2 (2, Cu2(μ-5-Cl-Sal(5-Cl-HSal2(Neo2]·EtOH (3 were determined. In order to compare structural and biological properties of the prepared complexes, spectroscopic and biological studies were performed. Results of X-ray diffraction show that prepared complexes form three types of crystal structures in a given system: monomeric, dimeric and dinuclear complex. The preliminary study on the DNA cleavage activity has shown that the complexes under study behave as the chemical nucleases in the presence of added hydrogen peroxide with slight differences in the activity (1 > 2 > 3. The complexes 1 and 2 exhibited nuclease activity itself indicating the interaction of complexes with the DNA. It has been proposed that the enhanced destructive effect of the complexes 1 and 2 on the DNA is a result of two possible mechanisms of action: (i the conversion of closed circular DNA (form I to the nicked DNA (form II caused by the copper complex itself and (ii damage of DNA by Reactive Oxygen Species (ROS—products of the interaction of copper with hydrogen peroxide by means of Fenton reaction (hydroxyl radicals. Thus the biological activity of the prepared Cu(II complexes containing derivatives of salicylic acid and phenanthroline molecules is substantiated by two independent mechanisms. While derivatives of salicylic acids in the coordination sphere of copper complexes are responsible for radical-scavenging activity (predominantly towards superoxide radical anion, the presence of chelating ligand 2,9-dimethyl-1,10-phenanthroline

  5. Copper(II) complexes with pyrazole derivatives - Synthesis, crystal structure, DFT calculations and cytotoxic activity

    Science.gov (United States)

    Kupcewicz, Bogumiła; Ciolkowski, Michal; Karwowski, Boleslaw T.; Rozalski, Marek; Krajewska, Urszula; Lorenz, Ingo-Peter; Mayer, Peter; Budzisz, Elzbieta

    2013-11-01

    The series of pyrazole derivatives (1a-4a) were used as bidentate N,N' ligands to obtain neutral Cu(II) complexes of ML2Cl2 type (1b-4b). The molecular structures of ligand 1a and Cu(II) complex 4b were determined by X-ray crystallography and theoretical DFT calculations. In this study, three functionals B3LYP, BP86 and mPW1PW91 with different basis sets and two effective core potentials Los Alamos and Stuttgart/Dresden were performed. The DFT study disclosed the usefulness of BP86 functional with SDD-ECP for Cu(II) ion and dedicated D95 basis set for other non-transition metal atoms, with the exclusion of Cl for which 6-31++G(2df,2pd) were used. The structural analysis shows that the presence of phenyl substituent in a pyrazole ring contributed to Cu-N bond elongation, which can result in different reactivity of complexes 1b and 3b. The cytotoxicity of the obtained compounds was evaluated on three cancer cells lines: HL-60, NALM-6 and WM-115. The complexes have exhibited similar moderate antiproliferative activity. All the complexes, except for 1b, were found to be more active against three cancer cell lines than uncomplexed pyrazoles. The lipophilicity and electrochemical properties of ligands and complexes was also studied. For complexes with ligand 1a and 3a only one reduction process at the metal centre occurs (Cu(II) → Cu(I)) with oxidization of Cu(I)-Cu(II) in the backward step.

  6. Crystal structure, physical, and photophysical properties of a ruthenium(II) bipyridine diazafluorenone complex

    Energy Technology Data Exchange (ETDEWEB)

    Wang, Y.; Jackman, D.C.; Rillema, D.P. [Univ. of North Carolina, Charlotte, NC (United States)] [and others

    1995-09-01

    The complex [Ru(bpy){sub 2}(dafo)](PF{sub 6}){sub 2}, where bpy is 2,2{prime}-bipyridine and dafo is diazafluorenone crystallizes in the space group P2{sub 1}/n with a = 9.5059(3){angstrom}, b = 14.002(2){angstrom} and c = 25.783(8){angstrom}. The coordination geometry of the Ru atom is that of a distorted octahedron with a RuN{sub 6} core. The two Ru-N bond distances to the dafo ligand are 2.13(1) and 2.15(1) {angstrom}; the four Ru-N bond distances to the bipyridine ligands are 2.03(1), 2.05(1), 2.06(1), and 2.07(1) {angstrom}. The three shortest Ru-N distances are trans to the three longest Ru-N distances. The complex is oxidized and reduced reversibly at 1.41 and -0.65 V vs. SSCE, respectively. It displays absorptions at 438 nm (1.6 x 10{sup 4}), 285 nm (6.2 x 10{sup 4}), and 240 nm (4.1 x 10{sup 4}) and a broad emission centered at 626 nm in water at room temperature. The emission lifetime is 420 ns and the emission quantum yield is 5.3 x 10{sup -4}.

  7. Synthesis, crystal structure of diferrous complex and its reactivity with dioxygen

    Institute of Scientific and Technical Information of China (English)

    阎世平; 程鹏; 王庆伦; 廖代正; 姜宗慧; 王耕霖

    2000-01-01

    The dinuclear complex of [Fe2L{O2P(OPh)2}](CIO4)2 ·Et2O(1) (where L represents the dinucleating ligand N-Et-HPTB, anion of N, N, N’, N’-tetrakis (N-ethyl-2-benzimidazolyemethyl)-2-hydroxy-1, 3-diamino-propane) has been synthesized and crystallizes in the triclinic space group P T with cell constants α = 1.526(3) nm, b = 1.259 8(3) nm, c = 1.563 0(3) nm , α = 94.41 (3)°, P = 115.31(3)°, β=99.90(3)°, V= 3.267(1) nm3, z=2, R = 0.084 7 and Rw = 0.177 8. The Fe(Ⅱ) sites are bridged by an alkoxide of the dinucleating ligand and a phosphate, affording a diiron core with an Fe-μ-O-Fe angle of 131.20(3)° and an Fe-Fe distance of 0.364 9 nm. Both Fe(II) centers have trigonal bipyramidal geometry. Dioxygen adduct (1/O2) forms upon exposure of the diferrous complex to O2 at low temperature (-60℃). The 1/O2 adduct is stable at -60℃ but decomposes upon warming. The adduct exhibits visible absorption maximum near 606 nm and resonance Raman features at 478 cm-1 (γFe-o) and 897 cm-1 (γo-o), and the latter

  8. Crystal Structure of a 4-Methyl-phenylacetylide-bridged PtⅡCuⅠ2 Heterotrinuclear Organometallic Complex

    Institute of Scientific and Technical Information of China (English)

    武梅梅; 陈忠宁

    2004-01-01

    The heterotrinuclear complex [PtCu2(μ-dppm)2(dmbpy)2(μ-η1,(2 C ≡ CPhCH3-4)2] (ClO4)2·1.5CH2Cl2 1 (dmbpy = 4,4‘-dimethyl-2,2'-bipyridine, dppm = bis(diphenylphosphino)meth- ane) has been prepared and characterized by X-ray crystallography. The complex crystallizes in the triclinic system, space group Pī with a = 12.9359(3), b = 14.3908(2), c = 15.2121(3) (A), α = 107.370(1), β = 93.539(1), γ = 108.207(1)o, V = 2529.59(8) (A)3, Mr = 2015.96, Z = 1, Dc = 1.323 g/cm3, F(000) = 1019, ((MoKα) = 2.042 mm-1, the final R = 0.0604 and wR = 0.1529 for 8002 observed reflections with I > 2σ(I). The 4-methylphenylacetylides are bonded to the PtII and CuI centers in η1 (σ) and η2 (π) coordination modes, respectively. The PtII atom is linked by one dppm bridge to adopt a square planar environment and CuI by one alkynyl ligand to assume a distorted tetrahedral geometry.

  9. Synthesis and Crystal Structures of Two Dinuclear Iron(Ⅲ) Complexes with Tripodal Ligands

    Institute of Scientific and Technical Information of China (English)

    TIAN Jin-Lei; XIE Ming-Jin; YAN Shi-Ping; LIAO Dai-Zheng; JIANG Zong-Hui; CHENG Peng

    2005-01-01

    By using the tripodal tetradentate ligands of tris(2-pyridylmethyl)amine (TPA) or tris(2-benzimidazolylmethyl)-amine (NTB), two dinunclear iron(Ⅲ) complexes [Fe2L2(μ2-O)( μ2-p-NH2-C6H4COO)]3+ (L=TPA, 1 and L=NTB,2) were obtained. Both of the two complexes crystallize in monoclinic system with space group P2(1)/c. The cell parameters of 1: a= 1.4529(4) nm, b= 1.6622(5) nm, c=2.0625(6) nm,β=100.327(5)°, V=4.900(3) nm3, Z=4,F(000)=2344, Mr= 1142.91, Dc= 1.549 g/cm3, R1 =0.0544, R2=0.0962. The cell parameters of 2: a= 1.3378(4) nm,b=2.1174(7) nm, c=2.4351(7) nm, β=97.315(6)°, V=6.842(4) nm3, Z=4, F(000)=3116, Mr= 1505.08, Dc= 1.444g/cm3, R1=0.0793, R2=0.1623. In both cases, the central iron(Ⅲ) metal ions are coordinated to the four nitrogen atoms of TPA (or NTB) and two oxygen atoms from two different bridges to form a distorted octahedral geometry.

  10. Synthesis and Crystal Structure of a Complex of Melamine with Benzoic Acid

    Institute of Scientific and Technical Information of China (English)

    ZHANG Xiu-lian

    2008-01-01

    A new complex of melamine(MA) with benzoic acid(HBA) was prepared,affording [(HMA+)(BA-)]·2H2O.Each HBA molecule is deprotonated and one triazine nitrogen atom of MA is protonated,The adjacent HMA+ cations are hydrogen bonded to alternate sides of the (HMA+)∞ ribbons to generate indention 1D tapes,which are extended into the hydrogen bond present in the complex are anion/water and amino/water tape structures,The hydrogen-bonding patterns consist of alternate 6,10-membered rings sharing two edges,Infrared(IR) spectroscopy conforms that proton transfer has taken place in the complex.

  11. Crystal structure of AcrB in complex with a single transmembrane subunit reveals another twist.

    Science.gov (United States)

    Törnroth-Horsefield, Susanna; Gourdon, Pontus; Horsefield, Rob; Brive, Lars; Yamamoto, Natsuko; Mori, Hirotada; Snijder, Arjan; Neutze, Richard

    2007-12-01

    Bacterial drug resistance is a serious concern for human health. Multidrug efflux pumps export a broad variety of substrates out of the cell and thereby convey resistance to the host. In Escherichia coli, the AcrB:AcrA:TolC efflux complex forms a principal transporter for which structures of the individual component proteins have been determined in isolation. Here, we present the X-ray structure of AcrB in complex with a single transmembrane protein, assigned by mass spectrometry as YajC. A specific rotation of the periplasmic porter domain of AcrB is also revealed, consistent with the hypothesized "twist-to-open" mechanism for TolC activation. Growth experiments with yajc-deleted E. coli reveal a modest increase in the organism's susceptibility to beta-lactam antibiotics, but this effect could not conclusively be attributed to the loss of interactions between YajC and AcrB.

  12. Crystal structure of yeast FAD synthetase (Fad1) in complex with FAD.

    Science.gov (United States)

    Leulliot, Nicolas; Blondeau, Karine; Keller, Jenny; Ulryck, Nathalie; Quevillon-Cheruel, Sophie; van Tilbeurgh, Herman

    2010-05-21

    Flavin adenine dinucleotide (FAD) synthetase is an essential enzyme responsible for the synthesis of FAD by adenylation of riboflavin monophosphate (FMN). We have solved the 1.9 A resolution structure of Fad1, the yeast FAD synthetase, in complex with the FAD product in the active site. The structure of Fad1 shows it to be a member of the PP-ATPase superfamily. Important conformational differences in the two motifs involved in binding the phosphate moieties of FAD compared to the Candida glabrata FMNT ortholog suggests that this loop is dynamic and undergoes substantial conformational changes during its catalytic cycle.

  13. Two new heterodinuclear Schiff base complexes: synthesis, crystal structure and thermal studies.

    Science.gov (United States)

    Yardan, Alper; Hopa, Cigdem; Yahsi, Yasemin; Karahan, Ahmet; Kara, Hulya; Kurtaran, Raif

    2015-02-25

    Two new heterodinuclear Schiff base complexes, [Hg(L)NiCl2(DMF)2] 1, and [Zn(L)NiCl2(DMF)2] 2, where H2L = N,N'-bis(salicylidene)-1,3-diaminopropane and DMF = dimethylformamide have been synthesized and characterized using elemental analysis, IR spectroscopy, thermal analysis and X-ray diffraction. Structural studies on 1 and 2 reveal the presence of a heterodinuclear [Ni(II)Hg(II)] unit and [Zn(II)Ni(II)] in which the central metal ions are connected to each other by two phenolate oxygen bridges. For complex 1 the Ni(II) ion adopts an elongated octahedral geometry (NiN2O4) while the Hg(II) ion assumes a distorted tetrahedral arrangement (HgO2Cl2) whereas for complex 2 the Zn(II) ion adopts an elongated octahedral geometry (ZnN2O4) while the Ni(II) ion assumes a distorted tetrahedral arrangement (NiO2Cl2). There are intermolecular C-H···Cl-M interactions among the dinuclear complexes which are interconnected for 1 and 2. These intermolecular interactions result in the formation of a three dimensional structure for 1 and one dimensional zig-zag chains for 2.

  14. Crystal structure, spectroscopic characterization and antibacterial activities of a silver complex with sulfameter

    Science.gov (United States)

    Nakahata, Douglas H.; Lustri, Wilton R.; Cuin, Alexandre; Corbi, Pedro P.

    2016-12-01

    A silver complex with the sulfonamide sulfameter, also known as sulfamethoxydiazine (SMTR), was prepared and characterized. Chemical analyses were consistent with the [Ag(C11H11N4O3S)] composition (AgSMTR), while conductivity measurements in DMSO indicated a non-electrolyte behavior of the complex in this solvent. High-resolution ESI(+)-QTOF mass spectrometric experiments revealed the presence of the [Ag(C11H11N4O3S)+H]+ and [Ag2(C11H11N4O3S)2+H]+ species in solution. Infrared and NMR spectroscopies indicated coordination of the ligand to the metal by the nitrogen atoms of the sulfonamide group and of the pyrimidine ring. The structure of AgSMTR was solved by powder X-ray diffraction technique using the Rietveld method. The solved structure confirms the formation of a dimer, where each silver ion is coordinated by one of the nitrogen atoms of the pyrimidine ring, the nitrogen of the sulfonamide group and by an oxygen atom from the sulfonyl group. An argentophilic interaction of 2.901(1) Å is present in this dimeric structure. The AgSMTR complex was assayed over Gram-positive (Staphylococcus aureus) and Gram-negative (Pseudomonas aeruginosa and Escherichia coli) bacterial strains, and it was found that the compound is 8 times more active over the Gram-negative bacteria in DMSO solution, with MIC values in the micromolar range.

  15. Synthesis and Crystal Structure of a Copper(Ⅱ) Complex with Benzilic Acid and 1,10-Phenanthroline

    Institute of Scientific and Technical Information of China (English)

    2008-01-01

    A new complex [Cu(phen)3][(C6H5)2C(OH)COO]2·6H2O was prepared by self-assembly of benzilic acid, 1,10-phenanthroline (phen), and copper perchlorate.It crystallizes in triclinic, space group P1-, with a = 1.14661(17), b = 1.6455(2), c = 1.6457(2) nm, α = 74.779(2),β= 74.904(3), γ= 84.424(3)°,V= 2.8914(7) nm3, Dc = 1.340 g/cm3, Z = 2, F(000) = 1218, GOOF= 1.018, the final R = 0.0643 and wR= 0.1633.The crystal structure shows that the copper ion is coordinated with six nitrogen atoms from six 1,10-phenanthroline molecules, forming a distorted octahedral coordination geometry.

  16. Synthesis and crystal structure of the iridium(I) carbene complex with a pair of hydrogen wing tips

    Science.gov (United States)

    Huang, H.-Y.; Chen, Z.-M.; Wang, Y.; Wu, E.-M.; Wang, G.; Jiang, M.-J.

    2016-12-01

    The iridium(I) cyclooctadiene complex with two (3- tert-butylimidazol-2-ylidene) ligands [(H-I m t Bu)2Ir(COD)]+PF 6 - (C22H32PF6IrN4) has been prepared, and its crystal structure is determined by X-ray diffraction. Complex exhibits slightly distorted square planar configurations around the metal atom, which is coordinated by two H-I m t Bu ligands and one cyclooctadiene group. The new iridium carbene complex has a pair of hydrogen wing tips. The Ir-Ccarbene bond lengths are 2.066(5) and 2.052(5) Å, and the bond angle C-Ir-C between these bonds is 95.54(19)°. The dihedral angle between two imidazol-2-ylidene rings is 86.42°.

  17. Crystal Structure and Luminescence Property of Lanthanide Complexes with 2-Fluorobenzoic Acid and 2,2'-Bipyridine

    Institute of Scientific and Technical Information of China (English)

    Li Xia; Zhang Zhuoyong; Song Haibin

    2005-01-01

    The two compounds of [Ln(2-FBA)3·2,2'-bpy]2 (2-FBA=2-fluorobenzoato, 2,2'-bpy=2,2'-bipyridine, Ln=Eu(1), Dy(2)) were synthesized and their structures were determined by X-ray diffraction method. Crystallized complexes 1 and 2 are isomorphous, monoclinic system with P21/n space group. The two complexes are binuclear molecule with an inversion center. The two lanthanide ions are linked by four bridged 2-FBA ligands and each lanthanide ion is further bonded to one chelated bidentate 2-FBA ligand and one 2,2'-bipyridine molecule. The coordination number of metal ion is eight. The europium complex exhibits strong red fluorescence. 5D0→7Fj (j= 1~4) transition emission of Eu3+ ion was observed.

  18. Crystal Structure of a Novel Sandwich Inclusion Complex of β-Cyclodextrin with a-Naphthylacetic Acid

    Institute of Scientific and Technical Information of China (English)

    WANG En-ju; CHEN Guang-ying; HAN Chang-ri

    2011-01-01

    A supramolecular inclusion complex between β-cyclodextrin(β-CD) and a-naphthylacetic acid was prepared,and its crystal structure was investigated by single-crystal X-ray crystallography The complex contains two β-CD molecules,one a-naphthylacetic acid,two ethanols and twenty-eight water molecules in the asymmetric unit,which could be formulated as [(C42H70O35)2·(C12H10O2)·(C2H5OH)2·28H2O].Two β-CD molecules constitute a dimer by face-to-face contact of their secondary hydroxyl sides.At the interface of the dimer,one a-naphthylacetic acid molecule is sandwiched between two β-CD molecules.Each β-CD unit of the dimer includes one ethanol molecule in its cavity.The β-CD dimers are linked together via hydrogen bonding to form layers that are stacked in a brickwork-like pattern.The comparative study of some sandwich complexes elucidates that the interface of the β-CD dimer has a stronger inclusion capacity than the cavity of β-CD for some suitable planar guest molecules.The novel inclusion structure results from the competitive inclusion of a-naphthylacetic acid and ethanol.

  19. Hydrothermal Synthesis, Crystal Structure and Electrochemical Properties of Complex Mn2(phen)2(p-CBA)4(H2O)

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    One novel complex Mn2(phen)2(p-CBA)4(H2O) has been hydrothermally synthesized from p-chlorobenzoic acid (p-CBA), 1,10-phenanthroline (phen) and anhydrous man-ganese(Ⅱ) sulfate and then characterized. Crystal data for this complex: monoclinic, space group C2/c, with a = 2.3416(3), b = 1.5604(2), c =1.5605(2) nm, β = 121.048(2)° , V= 4.8849(12) nm3, Dc = 1.510 g/cm3, Mr = 555.26, Z = 8, μ = 0.798 mm-1, F(000) = 2256, GOOF = 1.032, the final R = 0.0393 and wR = 0.0816. The crystal structure shows that two neighboring manganese(Ⅱ) ions are linked together by two bridge-chelating p-chlorobenzoic groups and one bridging water molecule, forming a cage structure with the Mn-Mn bond distance of 0.3512 nm. Each manganese(Ⅱ) ion is coordinated by two nitrogen atoms of one 1,10-phenanthroline molecule and four oxygen atoms from three p-chlorobenzoic acid anions and one water molecule, giving a distorted octahedral coordination geometry. The cyclic voltammetric behavior of the complex was also investigated.

  20. Crystal structure and ligand affinity of avidin in the complex with 4‧-hydroxyazobenzene-2-carboxylic acid

    Science.gov (United States)

    Strzelczyk, Paweł; Bujacz, Grzegorz

    2016-04-01

    Avidin is a protein found in egg white that binds numerous organic compounds with high affinity, especially biotin and its derivatives. Due to its extraordinary affinity for its ligands, avidin is extensively used in biotechnology. X-ray crystallography and fluorescence-based biophysical techniques were used to show that avidin binds the dye 4‧-hydroxyazobenzene-2-carboxylic acid (HABA) with a lower affinity than biotin. The apparent dissociation constant determined for the avidin complex with HABA by microscale thermophoresis (MST) is 4.12 μM. The crystal structure of avidin-HABA complex was determined at a resolution of 2.2 Å (PDB entry 5chk). The crystals belong to a hexagonal system, in the space group P6422. In that structure, the hydrazone tautomer of HABA is bound at the bottom part of the central calyx near the polar residues. We show interactions of the dye with avidin and compare them with the previously reported avidin-biotin complex.

  1. Preparation and Single-Crystal X-Ray Structures of Four Related Mixed-Ligand 4-Methylpyridine Indium Halide Complexes

    Science.gov (United States)

    Hepp, Aloysius F.; Clark, Eric B.; Schupp, John D.; Williams, Jennifer N.; Duraj, Stan A.; Fanwick, Philip E.

    2013-01-01

    We describe the structures of four related indium complexes obtained during synthesis of solid-state materials precursors. Indium adducts of halides and 4-methylpyridine, InX3(pic)3 (X = Cl, Br; pic = 4-methylpyridine) consist of octahedral molecules with meridional (mer) geometry. Crystals of mer-InCl3(pic)3 (1) are triclinic, space group P1(bar) (No. 2), with a = 9.3240(3), b = 13.9580(6), c = 16.7268 (7) A, alpha = 84.323(2), beta = 80.938(2), gamma = 78.274(3)Z = 4, R = 0.035 for 8820 unique reflections. Crystals of mer-InBr3(pic)3 (2) are monoclinic, space group P21/n (No. 14), with a = 15.010(2), b = 19.938(2), c = 16.593(3), beta = 116.44(1)Z = 8, R = 0.053 for 4174 unique reflections. The synthesis and structures of related compounds with phenylsulfide (chloride) (3) and a dimeric complex with bridging hydroxide (bromide) (4) coordination is also described. Crystals of trans-In(SC6H5)Cl2(pic)3 (3) are monoclinic, space group P21/n (No. 14), with a = 9.5265(2), b = 17.8729(6), c = 13.8296(4), beta = 99.7640(15)Z = 4, R = 0.048 for 5511 unique reflections. Crystals of [In(mu-OH)Br2(pic)22 (4) are tetragonal, space group = I41cd (No. 110) with a = 19.8560(4), b = 19.8560(4), c = 25.9528(6), Z = 8, R = 0.039 for 5982 unique reflections.

  2. Hydrothermal Synthesis, Crystal Structure and Thermal Analysis of a Dinuclear Complex Cd2(3,5-Dinitrobenzoate)4(pyridine)4

    Institute of Scientific and Technical Information of China (English)

    GUO Jin-Yu; ZHANG Tong-Lai; ZHANG Jian-Guo; LIU Yan-Hong; QIAO Xiao-Jing; YANG Li

    2006-01-01

    A dinuclear complex Cd2(dnba)4(pyridine)4 (dnba = 3,5-dinitrobenzoate) has been synthesized by hydrothermal method and characterized by X-ray single-crystal diffraction, elemen- tal analysis, FT-IR spectroscopy, DSC and TG-DTG techniques. The complex with empirical formula C48H32Cd2N12O24 (Mr = 692.83) crystallizes in monoclinic, space group P21/n with a = 12.0344(14), b = 10.5752(13), c = 21.578(3) (A), β = 104.150(2)o, V = 2662.8(6) (A)3, Z = 2, Dc = 1.728 g/cm3, μ(MoKα) = 0.897 mm-1, F(000) = 1384, S = 1.016 and (Δ/σ)max = 0.001. R = 0.0638 and wR = 0.0737 for all data; the final R = 0.0337 and wR = 0.0644. In this complex, four carboxylates are bidentate- or chelate-coordinated with the Cd(Ⅱ) centers to give the dinuclear structure. The other coordination positions of Cd(Ⅱ) are occupied by the lone pair electrons from N of four pyridines. Thermal analyses DSC and TG-DTG have been used to determine the thermal decomposition mechanism of the title complex.

  3. Crystal structure of the potassium-importing KdpFABC membrane complex

    Energy Technology Data Exchange (ETDEWEB)

    Huang, Ching-Shin; Pedersen, Bjørn Panyella; Stokes, David L.

    2017-06-21

    Cellular potassium import systems play a fundamental role in osmoregulation, pH homeostasis and membrane potential in all domains of life. In bacteria, the kdp operon encodes a four-subunit potassium pump that maintains intracellular homeostasis, cell shape and turgor under conditions in which potassium is limiting1. This membrane complex, called KdpFABC, has one channel-like subunit (KdpA) belonging to the superfamily of potassium transporters and another pump-like subunit (KdpB) belonging to the superfamily of P-type ATPases. Although there is considerable structural and functional information about members of both superfamilies, the mechanism by which uphill potassium transport through KdpA is coupled with ATP hydrolysis by KdpB remains poorly understood. Here we report the 2.9 Å X-ray structure of the complete Escherichia coli KdpFABC complex with a potassium ion within the selectivity filter of KdpA and a water molecule at a canonical cation site in the transmembrane domain of KdpB. The structure also reveals two structural elements that appear to mediate the coupling between these two subunits. Specifically, a protein-embedded tunnel runs between these potassium and water sites and a helix controlling the cytoplasmic gate of KdpA is linked to the phosphorylation domain of KdpB. On the basis of these observations, we propose a mechanism that repurposes protein channel architecture for active transport across biomembranes.

  4. Template Syntheses, Crystal Structures and Supramolecular Assembly of Hexaaza Macrocyclic Copper(II) Complexes

    Energy Technology Data Exchange (ETDEWEB)

    Kim, Taehyung; Kim, Ju Chang [Pukyong National Univ., Busan (Korea, Republic of); Lough, Alan J. [Univ. of Toronto, Toronto (Canada)

    2013-06-15

    Two new hexaaza macrocyclic copper(II) complexes were prepared by a template method and structurally characterized. In the solid state, they were self-assembled by intermolecular interactions to form the corresponding supramolecules 1 and 2, respectively. In the structure of 1, the copper(II) macrocycles are bridged by a tp ligand to form a macrocyclic copper(II) dimer. The dimer extends its structure by intermolecular forces such as hydrogen bonds and C-H···π interactions, resulting in the formation of a double stranded 1D supramolecule. In 2, the basic structure is a monomeric copper(II) macrocycle with deprotonated imidazole pendants. An undulated 1D hydrogen bonded array is achieved through hydrogen bonds between imidazole pendants and secondary amines, where the imidazole pendants act as a hydrogen bond acceptor. The 1D hydrogen bonded supramolecular chain is supported by C-H···π interactions between the methyl groups of acetonitrile ligands and imidazole pendants of the copper(II) macrocycles. In both complexes, the introduction of imidazoles to the macrocycle as a pendant plays an important role for the formation of supramolecules, where they act as intermolecular hydrogen bond donors and/or acceptors, C-H···π and π-π interactions.

  5. Synthesis, crystal structure and catecholase activity of a Ni(II) complex derived from a tetradentate Schiff base ligand

    Indian Academy of Sciences (India)

    Pradipta Kumar Basu; Merry Mitra; Amrita Ghosh; Latibuddin Thander; Chia -Her Lin; Rajarshi Ghosh

    2014-11-01

    A new nickel(II) complex [Ni(L)] (1) [H2L = 1,1′-(1E,1′E)-(propane-1,3-diylbis(azan-1-yl-1-ylidene))bis(methan-1-yl-1-ylidene)dinaphthalen-2-ol] was synthesized and X-ray crystallographically characterized. 1 crystallizes in orthorhombic crystal system with Cmc21 space group. The unit cell dimensions of the crystal are a = 30.6345(4)Å, b = 8.45340(10)Å, c = 7.75180(10)Å. Structural analysis reveals a tetradentate chelation behaviour of the dianionic ligand H2L having a distorted square planar geometry around Ni(II) with NiN2O2 chromophore in 1. The title complex 1 behaves as an effective catalyst towards oxidation of 3,5-ditertiarybutyl catechol (3,5-DTBC) in acetonitrile to its corresponding quinone derivative in air. The reaction follows first-order reaction kinetics with rate constant 4.28 × 10−5 min-1. The reaction follows Michaelis-Menten enzymatic kinetics with a turnover number of () 140.72 h-1 in acetonitrile.

  6. Synthesis, Crystal Structure, Thermal Decomposition and Sensitive Properties of a New Complex [Cu(IMI)4](PA)2

    Institute of Scientific and Technical Information of China (English)

    WANG Shi-wei; WU Bi-dong; YANG Li; ZHANG Tong-lai; ZHOU Zun-ning; ZHANG Jian-guo

    2012-01-01

    A new coordination complex [Cu(IMI)4](PA)2 had been synthesized with imidazole(IMI) as ligands and picrate(PA ) groups as outer anions,and characterized by Fourier transform infrared(FTIR) spectrum and elemental analysis.Its crystal structure was determined by single crystal X-ray diffraction(XRD) analysis.The crystallographic data show that the crystal belongs to monoclinic,C2/c space group,a=2.542(5) nm,b=0.91773(18) nm,c=1.3778(3)nm,β=107.854(3)° and Z=4.Furthermore,the central copper(Ⅱ) ion is coordinated by four N atoms from four imidazole ligands.All the molecular units are linked into a zigzag pattern along a-axis by the hydrogen bonds,and extended to the distance regularly.Thermal decomposition mechanisms were determined based on differential scanning calorimetry(DSC) and thermogravimetry-diff.erential thermogravimetry(TG-DTG) analysis,and kinetic parameters of the first exothermic process were studied using Kissinger's and Ozawa-Doyle's method,respectively.Sensitivity tests show that the title complex has low sensitivity to external stimulus,but it has a higher energy of combustion of 14.2kJ/g due to which it may be used as the additives of energetic materials to improve the explosive performance.

  7. Crystal structures of HIV-1 reverse transcriptase complexes with thiocarbamate non-nucleoside inhibitors.

    Science.gov (United States)

    Spallarossa, Andrea; Cesarini, Sara; Ranise, Angelo; Ponassi, Marco; Unge, Torsten; Bolognesi, Martino

    2008-01-25

    O-Phthalimidoethyl-N-arylthiocarbamates (TCs) have been recently identified as a new class of potent HIV-1 reverse transcriptase (RT) non-nucleoside inhibitors (NNRTIs), by means of computer-aided drug design techniques [Ranise A. Spallarossa, S. Cesarini, F. Bondavalli, S. Schenone, O. Bruno, G. Menozzi, P. Fossa, L. Mosti, M. La Colla, et al., Structure-based design, parallel synthesis, structure-activity relationship, and molecular modeling studies of thiocarbamates, new potent non-nucleoside HIV-1 reverse transcriptase inhibitor isosteres of phenethylthiazolylthiourea derivatives, J. Med. Chem. 48 (2005) 3858-3873]. To elucidate the atomic details of RT/TC interaction and validate an earlier TC docking model, the structures of three RT/TC complexes were determined at 2.8-3.0A resolution by X-ray crystallography. The conformations adopted by the enzyme-bound TCs were analyzed and compared with those of bioisosterically related NNRTIs.

  8. Synthesis, crystal structure of diferrous complex and its reactivity with dioxygen

    Institute of Scientific and Technical Information of China (English)

    2000-01-01

    The dinuclear complex of [ Fe2L{ O2P(OPh)2} ] (ClO4)2·Et2O(1) (where L represents the dinucleating ligand N-Et-HPTB, anion of N, N, N′, N′-tetrakis (N-ethyl-2-benzimidazolyemethyl)- 2-hydroxy-1, 3-diamino-propane) has been synthesized and crystallizes in the triclinic space group P with cell constants a = 1.526(3) nm, b = 1.259 8(3) nm, c = 1.563 0(3) nm , α= 94.41(3)°, β= 115.31(3)°, γ = 99.90(3)°, V = 3.267(1) nm3, z = 2, R = 0.084 7 and Rw = 0.177 8. The Fe(Ⅱ) sites are bridged by an alkoxide of the dinucleating ligand and a phosphate, affording a diiron core with an Fe-μ-O-Fe angle of 131.20(3)° and an Fe-Fe distance of 0.364 9 nm. Both Fe(Ⅱ) centers have trigonal bipyramidal geometry. Dioxygen adduct (1/O2) forms upon exposure of the diferrous complex to O2 at low temperature (-60℃). The 1/O2 adduct is stable at -60℃ but decomposes upon warming. The adduct exhibits visible absorption maximum near 606 nm and resonance Raman features at 478 cm-1 (γFe-O) and 897 cm-1 (γO-O), and the latter is the characteristic of a μ-1,2-peroxo species, indicating that dioxygen adducts can serve as models for the putative oxygenated intermediate of some non-heme diiron-oxo proteins.

  9. Synthesis and Crystal Structure of Bis((2-methoxy-mercaptomethyl-benzene)hexacarbonyldiiron) Complex

    Institute of Scientific and Technical Information of China (English)

    魏振宏; 游秀丽; 汤英; 肖知音

    2012-01-01

    The reaction of [Fe2S2(CO)6] with one equiv.of o-OCH3C6H4CH2Br under the re-duction of LiBHEt3 in dry THF afforded a tetranuclear cluster [(μ4-S){(μ-SCH2(o-OCH3)Ph)Fe2(CO)6}2](1).Complex 1 crystallizes in monoclinic,space group P21/n with a = 16.5623(6),b = 12.8265(5),c = 18.2702(7) ,β = 115.95(1)o,V = 3489.9(4) 3,Z = 4,μ = 1.87 mm-1,Dc = 1.709 Mg/m3,T = 296(2) K,C28H18Fe4O14S3,Mr = 898.03,F(000) = 1800,S = 1.10,R = 0.032 and wR = 0.058.Complex 1 consists of two diiron fragments possessing a {Fe2(CO)6} core.The two diiron units are bridged by an inorganic sulfide in a μ4-S binding mode and the sulfide is in a distorted tetrahedral geometry with the four iron atoms at each corner of the distorted tetrahedral.In its solid state,two types of non-classic intermolecular hydrogen bonding interactions plus a weak π-π stacking interaction led to a 2-D network.

  10. Crystal structures of two novel sulfonylurea herbicides in complex with Arabidopsis thaliana acetohydroxyacid synthase

    Energy Technology Data Exchange (ETDEWEB)

    Wang, Jian-Guo; Lee, Patrick K.-M.; Dong, Yu-Hui; Pang, Siew Siew; Duggleby, Ronald G.; Li, Zheng-Ming; Guddat, Luke W.; (Queensland); (Nankai); (IHEP-Beijing)

    2009-08-17

    Acetohydroxyacid synthase (AHAS; EC 2.2.1.6) is the first enzyme in the biosynthetic pathway of the branched-chain amino acids. It catalyzes the conversion of two molecules of pyruvate into 2-acetolactate or one molecule of pyruvate and one molecule of 2-ketobutyrate into 2-aceto-2-hydroxybutyrate. AHAS requires the cofactors thiamine diphosphate (ThDP), Mg{sup 2+} and FAD for activity. The herbicides that target this enzyme are effective in protecting a broad range of crops from weed species. However, resistance in the field is now a serious problem worldwide. To address this, two new sulfonylureas, monosulfuron and monosulfuron ester, have been developed as commercial herbicides in China. These molecules differ from the traditional sulfonylureas in that the heterocyclic ring attached to the nitrogen atom of the sulfonylurea bridge is monosubstituted rather than disubstituted. The structures of these compounds in complex with the catalytic subunit of Arabidopsis thaliana AHAS have been determined to 3.0 and 2.8 {angstrom}, respectively. In both complexes, these molecules are bound in the tunnel leading to the active site, such that the sole substituent of the heterocyclic ring is buried deepest and oriented towards the ThDP. Unlike the structures of Arabidopsis thaliana AHAS in complex with the classic disubstituted sulfonylureas, where ThDP is broken, this cofactor is intact and present most likely as the hydroxylethyl intermediate.

  11. Crystal structures of two novel sulfonylurea herbicides in complex with Arabidopsis thaliana acetohydroxyacid synthase.

    Science.gov (United States)

    Wang, Jian-Guo; Lee, Patrick K-M; Dong, Yu-Hui; Pang, Siew Siew; Duggleby, Ronald G; Li, Zheng-Ming; Guddat, Luke W

    2009-03-01

    Acetohydroxyacid synthase (AHAS; EC 2.2.1.6) is the first enzyme in the biosynthetic pathway of the branched-chain amino acids. It catalyzes the conversion of two molecules of pyruvate into 2-acetolactate or one molecule of pyruvate and one molecule of 2-ketobutyrate into 2-aceto-2-hydroxybutyrate. AHAS requires the cofactors thiamine diphosphate (ThDP), Mg(2+) and FAD for activity. The herbicides that target this enzyme are effective in protecting a broad range of crops from weed species. However, resistance in the field is now a serious problem worldwide. To address this, two new sulfonylureas, monosulfuron and monosulfuron ester, have been developed as commercial herbicides in China. These molecules differ from the traditional sulfonylureas in that the heterocyclic ring attached to the nitrogen atom of the sulfonylurea bridge is monosubstituted rather than disubstituted. The structures of these compounds in complex with the catalytic subunit of Arabidopsis thaliana AHAS have been determined to 3.0 and 2.8 A, respectively. In both complexes, these molecules are bound in the tunnel leading to the active site, such that the sole substituent of the heterocyclic ring is buried deepest and oriented towards the ThDP. Unlike the structures of Arabidopsis thaliana AHAS in complex with the classic disubstituted sulfonylureas, where ThDP is broken, this cofactor is intact and present most likely as the hydroxylethyl intermediate.

  12. Synthesis, crystal structure, interaction with BSA and antibacterial activity of La(III) and Sm(III) complexes with enrofloxacin.

    Science.gov (United States)

    Wang, Yan-Jun; Hu, Rui-Ding; Jiang, Dong-Hua; Zhang, Ping-Hua; Lin, Qiu-Yue; Wang, Yun-Yun

    2011-03-01

    Two new La(III) and Sm(III) complexes with enrofloxacin (HER, 1-cyclopropyl-7-(4-ethyl-1-piperazinyl)-6-fluoro-1,4-dihydro-4-oxo-3-quinoline carboxylic acid, C(19)H(21)FN(3)O(3)), [La(2)(ER)(6)(H(2)O)(2)]·14H(2)O(1) and [Sm(2)(ER)(6)(H(2)O)(2)]·14H(2)O(2) have been synthesized and characterized by elemental analysis, FT-IR, TG-DTG and X-ray single crystal diffraction. Both of the complexes are triclinic system with space group Pī. The structure of the complexes show that each rare earth atom in both complexes was nine-coordinated. Two of the enrofloxacin ions acted as tridentate chelate and bridging ligands, while the others as bidentate chelate ligands. The binding reaction between the complexes and bovine serum albumin (BSA) was studied by UV-vis absorption spectra and fluorescence spectroscopy. The results indicated that the two complexes had a quite strong ability to quench the fluorescence from BSA and the binding reaction was mainly a static quenching process. The binding constants K ( A )/(L·mol(-1)) were 1.46 × 10(5)(1) and 8.59 × 10(6)(2) and one binding site was formed. The synchronous spectroscopy suggested that tryptophan residues were placed in BSA. It was also found that the two complexes exhibited greater antimicrobial activity than enrofloxacin at given concentrations.

  13. Crystal structure of the kinase domain of serum and glucocorticoid-regulated kinase 1 in complex with AMP–PNP

    Science.gov (United States)

    Zhao, Baoguang; Lehr, Ruth; Smallwood, Angela M.; Ho, Thau F.; Maley, Kathleen; Randall, Tanya; Head, Martha S.; Koretke, Kristin K.; Schnackenberg, Christine G.

    2007-01-01

    Serum and glucocorticoid-regulated kinase 1 (SGK1) is a serine/threonine protein kinase of the AGC family which participates in the control of epithelial ion transport and is implicated in proliferation and apoptosis. We report here the 1.9 Å crystal structure of the catalytic domain of inactive human SGK1 in complex with AMP–PNP. SGK1 exists as a dimer formed by two intermolecular disulfide bonds between Cys258 in the activation loop and Cys193. Although most of the SGK1 structure closely resembles the common protein kinase fold, the structure around the active site is unique when compared to most protein kinases. The αC helix is not present in this inactive form of SGK1 crystal structure; instead, the segment corresponding to the C helix forms a β-strand that is stabilized by the N-terminal segment of the activation loop through a short antiparallel β-sheet. Since the differences from other kinases occur around the ATP binding site, this structure can provide valuable insight into the design of selective and highly potent ATP-competitive inhibitors of SGK1 kinase. PMID:17965184

  14. Crystal structure of the kinase domain of serum and glucocorticoid-regulated kinase 1 in complex with AMP-PNP

    Energy Technology Data Exchange (ETDEWEB)

    Zhao, Baoguang; Lehr, Ruth; Smallwood, Angela M; Ho, Thau F; Maley, Kathleen; Randall, Tanya; Head, Martha S; Koretke, Kristin K; Schnackenberg, Christine G [GSKPA

    2008-06-30

    Serum and glucocorticoid-regulated kinase 1 (SGK1) is a serine/threonine protein kinase of the AGC family which participates in the control of epithelial ion transport and is implicated in proliferation and apoptosis. We report here the 1.9 {angstrom} crystal structure of the catalytic domain of inactive human SGK1 in complex with AMP-PNP. SGK1 exists as a dimer formed by two intermolecular disulfide bonds between Cys258 in the activation loop and Cys193. Although most of the SGK1 structure closely resembles the common protein kinase fold, the structure around the active site is unique when compared to most protein kinases. The {alpha}C helix is not present in this inactive form of SGK1 crystal structure; instead, the segment corresponding to the C helix forms a {beta}-strand that is stabilized by the N-terminal segment of the activation loop through a short antiparallel {beta}-sheet. Since the differences from other kinases occur around the ATP binding site, this structure can provide valuable insight into the design of selective and highly potent ATP-competitive inhibitors of SGK1 kinase.

  15. Bowl adamanzanes-bicyclic tetraamines: syntheses and crystal structures of complexes with cobalt(III) and chelating coordinated oxo-anions

    DEFF Research Database (Denmark)

    Broge, Louise; Søtofte, Inger; Jensen, Kristian

    2007-01-01

    Seven cobalt(III) complexes of the macrobicyclic tetraamine ligand [2(4).3(1)]adamanzane ([2(4).3(1)]adz) are reported along with the crystal structure of six of these complexes. The solid state and solution structures are discussed, and a detailed assignment of the NMR spectra of the sulfato com...

  16. Synthesis, X-ray crystal structures and thermal analyses of some new antimicrobial zinc complexes: New configurations and nano-size structures.

    Science.gov (United States)

    Masoudiasl, A; Montazerozohori, M; Naghiha, R; Assoud, A; McArdle, P; Safi Shalamzari, M

    2016-04-01

    Some new five coordinated ZnLX2 complexes, where L is N3-Schiff base ligand obtained by condensation reaction between diethylenetriamine and (E)-3-(2-nitrophenyl)acrylaldehyde and X (Cl(-), Br(-), I(-), N3(-) and NCS(-)), were synthesized and characterized by FT-IR, (1)H and (13)CNMR, UV-visible, ESI-mass spectra and molar conductivity measurements. The structures of zinc iodide and thiocyanate complexes were determined by X-ray crystallographic analysis. The X-ray results showed that the Zn (II) center in these complexes is five-coordinated in a distorted trigonal-bipyramidal configuration. Zinc iodide and thiocyanate complexes crystallize in the monoclinic and triclinic systems with space groups of C2/c and P1- with eight and two molecules per unit cell respectively. The crystal packing of the complexes consists of intermolecular interactions such as C-H(…)O and C-H(…)I, C-H(···)S, N(…)O, together with π-π stacking and some other unexpected interactions. The mentioned interactions cause three-dimensional supramolecular structure in the solid state. Zinc complexes were also prepared in nano-structure by sonochemical method confirmed by XRD, SEM and TEM analyses. Moreover, ZnO nanoparticles were synthesized by direct thermolysis of zinc iodide complex. Furthermore, antimicrobial and thermal properties of the compounds were completely investigated.

  17. Characterization and Crystal Structures of Two Copper(Ⅱ) Complexes Constructed by a Flexible Double Betaine Ligand

    Institute of Scientific and Technical Information of China (English)

    JIANG Ning-Yi; LI Song-Lin

    2007-01-01

    A flexible double betaine 1,4-bis(pyridinil-4-carboxylato)-1,4-dimethylbenzene L has been used to generate two Cu(Ⅱ)-containing metal complexes that exhibit different polymeric structures: [Cu(H2O)2 L]·2NO3 1 and [Cu(H2O)3 L]·2Cl·H2O 2. The crystal structures of 1 and 2have been determined by single-crystal X-ray diffraction method. Crystal data for 1: triclinic, space group P1-, a = 5.253(2), b = 7.406(3), c = 14.792(5) (A), α = 84.195(5), β = 80.014(5), γ =78.053(5)°, V = 553.2(3) (A)3, Z = 1, F(000) = 293, Dc = 1.717 g/cm3, the final R = 0.0385 and wR =0.1079 for 1883 observed reflections (I> 2σ(Ⅰ)); and those for 2: monoclinic, space group P21/c, a =10.222(3), b = 25.287(7), c = 9.277(3) (A),β = 93.572(5)°, V = 2393.2(12) (A)3, Z = 4, F(000) = 1140,Dc = 1.540 g/cm3, the final R = 0.0472 and wR = 0.0956 for 3204 observed reflections (I >2σ(Ⅰ)).

  18. Synthesis and Crystal Structure of a Copper(Ⅱ) Complex with 2,4-Dihydroxybenzylidene Benzoylhydrazone Ligand

    Institute of Scientific and Technical Information of China (English)

    LU Wen-Guan; LIU Hong-Wen

    2005-01-01

    A new copper(Ⅱ) complex with formula CuL(py), where L2- is the dianion of 2,4-dihydroxybenzylidene benzoylhydrazone, has been synthesized and characterized by IR spectra and single-crystal X-ray diffraction method. The crystal belongs to monoclinic, space group P21/c with a = 0.9630(4), b = 1.4808(6), c = 1.2320(5) nm, β= 104.969(6)°, V= 1.6973(11)nm3, Z = 4, Dc = 1.553 g/cm3, μ(MoKa) = 1.311 mm-1, F(000) = 812, R = 0.0694 and wR = 0.1727 for 1511 observed reflections (I > 2σ(Ⅰ)). The crystal structure analysis indicates that the copper(Ⅱ) ion lies in a distorted square-planar environment composed of two oxygen atoms, one nitrogen atom from the tridentate acylhydrazone Schiff base ligand L2- and one nitrogen atom teractions to form dimers, which are further linked to generate a two-dimensional layer structure via interdimeric hydrogen bonds.

  19. Synthesis and Crystal Structure of a Novel Polymeric Complex [WS4Cu4(Py)4(μ-CN)2]∞

    Institute of Scientific and Technical Information of China (English)

    焦昌梅; 乔善宝; 徐庆峰; 郎建平

    2004-01-01

    The reaction of [Et4N]2WS4 with 4 equiv of CuCN in pyridine produced a new polymeric complex [WS4Cu4(Py)4(μ-CN)2]∞ 1, whose crystal structure has been characterized by single-crystal X-ray analysis. 1 (C22H2oCu4N6S4W, Mr=934.71) crystallizes in monoclinic, space group P21/n with a ='8.994(2), b=16.038(3), c=12.026(3) A, β= 90.85(1)°, V= 1734.6(6) A3, Z=2, Dc=1.789 g/cm3, F(000)=896,t(MoKa)=59.8 cm-1 and T=193 K. The structure was refined to R=0.064 and Rw=0.080 for 2209 observed reflections (I > 3.0σ(I)). The X-ray analysis shows that the tetrahedral WS4 core is coordinated by four Cu atoms, forming a saddle-like WS4Cu4 unit. These repeating units are further interconnected by four Cu-μ-CN-Cu 2.726(2) and 2.723(2) A, respectively.

  20. Syntheses and Crystal Structures of Mono- and Binuclear Copper( Ⅱ ) Mixed-ligand Complexes Involving Schiff Base

    Institute of Scientific and Technical Information of China (English)

    2005-01-01

    The mononuclear copper(Ⅱ) complex [Cu(L)(2-AP)] 1 and binuclear copper(Ⅱ)complex [Cu(L)(py)]2 2 (L = C1oH1 1O5NS, taurine o-vanillin, py = prydine, 2-AP = 2-aminopyridine)with mixed ligand have been synthesized and characterized by X-ray diffraction method. Crystal data for 1: orthorhombic, space group Pbca with a = 11.921(4), b = 15.816(6), c = 17.076(6) (A), V=3219.7(19) (A)3, C15H17CuN3O5S, Z = 8, Mr = 414.92, Dc = 1.712 g/cm3,μ(MoKα) = 1.520 mm-1,F(000) = 1704, the final R = 0.0300 and wR = 0.0705 for 2840 observed reflections with I > 2σ(I);and crystal data for 2: monoclinic, space group P21/c with a = 7.929(3), b = 17.038(5), c = 11.734(4)(A), β = 98.162(6)°, V = 1569.1 (9) (A)3, C15H16CuN2O5S, Z = 4, Mr = 399.90, Dc = 1.693 g/cm3, F(000)= 820,μ(MoKα) = 1.554 mm-1, the final R = 0.0351 and wR = 0.0848 for 2767 observed reflections (I > 2o(I)). The molecular structure of complex 1 consists of one tetra-coordinated Cu(Ⅱ) atom generating a slightly distorted square plane, and a one-dimensional chain structure is formed by intermolecular hydrogen bonds. Complex 2 consists of a diphenolic hydroxyl O-bridged binuclear copper(Ⅱ) structure. The crystal structures of complexes 1 and 2 reveal that the coordinate copper centers are bound to both nitrogen and oxygen atom donors. The usual N,O-trans arrangement of ligands is observed in both cases.

  1. Synthesis and Crystal Structure of the Copper (Ⅱ) Complex with 1,10-Phenanthroline-5,6-dione

    Institute of Scientific and Technical Information of China (English)

    2002-01-01

    The complex Cu(phon)(NO3)2(CH3CN) (phon = 1,10-phenanthroline-5,6-dione) has been synthesized and characterized by elemental analysis, infrared and UV-Vis spectra. X-ray diffraction analysis at room temperature indicates that the complex crystallizes in orthorhombic system, space group P212121 with a = 8.353(1), b = 11.299(2), c = 17.764(2)(A), V = 1676.5(4) (A)3, Z = 4, C14H9CuN5O8, Mr = 438.8, Dc = 1.739 g/cm3, F(000) = 884 and ((MoK() = 1.361 mm-1. The final R and wR factors for the observed reflections with I > 2((I) are 0.0353 and 0.0855, respectively. R = 0.0432 and wR = 0.0899 for all data. The structure of the title complex consists of a neutral mononuclear entity. The central Cu (Ⅱ) atom is five-coordinated by two nitrogen donors of one ligand, two unidentate NO3- ions and one CH3CN molecule. The coordination geometry of Cu (Ⅱ) can be considered as a distorted trigonal bipyramidal configuration. The complex ability of the NO3- ion has more effect than that of the ClO4- ion on the structure of the complex.

  2. Synthesis and Crystal Structure of N-Benzyl-N'-(2-pyridyl)urea and Its Mononuclear Cu(II) Complex

    Institute of Scientific and Technical Information of China (English)

    HE Lei; LUO Xiao-Lan; ZHANG Wen-Qin

    2008-01-01

    A new ligand of N-benzyl-N'-(2-pyridyl)urea L and its self-assembly product with CuCl2, [Cu(II)LCl2]∞ 1, have been synthesized and structurally characterized by IR, 1H NMR and single-crystal X-ray diffraction analysis. In the structure of L, the urea groups adopt Z,E conformation to form dimers through intermolecular hydrogen bonds; while in complex 1, it assumes Z,Z conformation to fit for the coordination sphere of the Cu(II) ions. The coordinated units are connected through intermolecular N-H…Cl hydrogen bonds to form an extended 2D framework. Finally, a 3D structure is obtained via π-π stacking interactions between pyridyl rings.

  3. Synthesis,Crystal Structure and DNA-binding Properties of a New Copper(Ⅱ) Schiff Base Complex

    Institute of Scientific and Technical Information of China (English)

    QIN Bei

    2012-01-01

    A new asymmetric bidentate copper(Ⅱ) complex,CuL 2(HL=2-((E)-(4-bromophenylimino)methyl)-6-bromo-4-chlorophenol),has been synthesized and characterized by elemental analyses and single-crystal X-ray diffraction.The complex crystallizes in the monoclinic space group P2 1 /c with a=11.218(3),b=9.355(3),c=13.449(4),β=108.722(4)°,V=1336.8(6)3,Z=2,Dc=2.008 g/cm 3,μ(MoKα)=7.024 mm-1,F(000)=806,S=0.999,the final R=0.0342 and wR=0.0641for2611observed reflections (I〉2σ(I)).The central copper(Ⅱ) is four-coordinate and bonds to two nitrogen and two oxygen atoms from two Schiff base ligands.The complex is linked into a two-dimensional supramolecular structure by weak intermolecular interactions.In addition,DNA-binding properties of the metal complex were investigated using spectrometric titrations and viscosity measurements.The results show that the complex binds with calf-thymus DNA(CT-DNA),presumably via a partial intercalative mode.The intrinsic binding constant of the Cu(Ⅱ) complex with DNA is 7.335×10 3 M-1.

  4. Crystal structure of product-bound complex of UDP-N-acetyl-D-mannosamine dehydrogenase from Pyrococcus horikoshii OT3

    Energy Technology Data Exchange (ETDEWEB)

    Pampa, K.J., E-mail: sagarikakj@gmail.com [Department of Studies in Microbiology, University of Mysore, Mysore 570 006 (India); Lokanath, N.K. [Department of Studies in Physics, University of Mysore, Mysore 570 006 (India); Girish, T.U. [Department of General Surgery, JSS Medical College and Hospital, JSS University, Mysore 570 015 (India); Kunishima, N. [Advanced Protein Crystallography Research Group, RIKEN SPring-8 Center, Harima Institute, Hyogo 679-5148 (Japan); Rai, V.R. [Department of Studies in Microbiology, University of Mysore, Mysore 570 006 (India)

    2014-10-24

    Highlights: • Determined the structure of UDP-D-ManNAcADH to a resolution of 1.55 Å. • First complex structure of PhUDP-D-ManNAcADH with UDP-D-ManMAcA. • The monomeric structure consists of three distinct domains. • Cys258 acting as catalytic nucleophilic and Lys204 acts as acid/base catalyst. • Oligomeric state plays an important role for the catalytic function. - Abstract: UDP-N-acetyl-D-mannosamine dehydrogenase (UDP-D-ManNAcDH) belongs to UDP-glucose/GDP-mannose dehydrogenase family and catalyzes Uridine-diphospho-N-acetyl-D-mannosamine (UDP-D-ManNAc) to Uridine-diphospho-N-acetyl-D-mannosaminuronic acid (UDP-D-ManNAcA) through twofold oxidation of NAD{sup +}. In order to reveal the structural features of the Pyrococcus horikoshii UDP-D-ManNAcADH, we have determined the crystal structure of the product-bound enzyme by X-ray diffraction to resolution of 1.55 Å. The protomer folds into three distinct domains; nucleotide binding domain (NBD), substrate binding domain (SBD) and oligomerization domain (OD, involved in the dimerization). The clear electron density of the UDP-D-ManNAcA is observed and the residues binding are identified for the first time. Crystal structures reveal a tight dimeric polymer chains with product-bound in all the structures. The catalytic residues Cys258 and Lys204 are conserved. The Cys258 acts as catalytic nucleophile and Lys204 as acid/base catalyst. The product is directly interacts with residues Arg211, Thr249, Arg244, Gly255, Arg289, Lys319 and Arg398. In addition, the structural parameters responsible for thermostability and oligomerization of the three dimensional structure are analyzed.

  5. Synthesis, characterization, crystal structure and antimicrobial studies of a novel Cu(II) complex based on itaconic acid and nicotinamide

    Science.gov (United States)

    Tella, Adedibu C.; Owalude, Samson O.; Ajibade, Peter A.; Simon, Nzikahyel; Olatunji, Sunday J.; Abdelbaky, Mohammed S. M.; Garcia-Granda, Santiago

    2016-12-01

    A novel complex was synthesized from Cu(II), nicotinamide and itaconic acid and is formulated as [Cu(C5H4O4)2(C6H6N2O)2(H2O)2·2(H2O)] (1). The compound was characterized by elemental analysis, FTIR spectroscopy, UV-Vis and single crystal X-ray diffraction. The complex crystallizes in the triclinic P-1 space group, with a = 7.5111(2) Å, b = 9.8529(3) Å, c = 10.5118(4) Å, α = 116.244(3)°, β = 90.291(3)°, γ = 103.335(3)°, V = 673.81(4) Å3, Z = 1.The octahedral geometry around the copper(II) ion is of the form CuN2O4 consisting of two molecules of nicotinamide acting as monodentate ligand through the nitrogen atoms, two molecules itaconate ligand and two coordinated water molecules each coordinating through the oxygen atoms. The structure of 1 showed infinite chains build up linking the molecules together via strong Osbnd H⋯O and Nsbnd H⋯O intermolecular hydrogen bonds generating a two dimensional network sheet along c axis. The antimicrobial study of the synthesized complex 1 was investigated and showed higher antibacterial activity against all the organisms comparing with Copper(II) nicotinamide 2 and Copper(II) itaconate 3.

  6. Synthesis, characterization, crystal structure determination and catalytic activity in epoxidation reaction of two new oxidovanadium(IV) Schiff base complexes

    Science.gov (United States)

    Tahmasebi, Vida; Grivani, Gholamhossein; Bruno, Giuseppe

    2016-11-01

    The five coordinated vanadium(IV) Schiff base complexes of VOL1 (1) and VOL2 (2), HL1 = 2-{(E)-[2-bromoethyl)imino]methyl}-2- naphthol, HL2 = 2-{(E)-[2-chloroethyl)imino]methyl}-2- naphthol, have been synthesized and they were characterized by using single-crystal X-ray crystallography, elemental analysis (CHN) and FT-IR spectroscopy. Crystal structure determination of these complexes shows that the Schiff base ligands (L1 and L2) act as bidentate ligands with two phenolato oxygen atoms and two imine nitrogen atoms in the trans geometry. The coordination geometry around the vanadium(IV) is distorted square pyramidal in which vanadium(IV) is coordinated by two nitrogen and two oxygen atoms of two independent ligands in the basal plane and by one oxygen atom in the apical position. The catalytic activity of the Schiff base complexes of 1 and 2 in the epoxidation of alkenes were investigated using different reaction parameters such as solvent effect, oxidant, alkene/oxidant ratio and the catalyst amount. The results showed that in the presence of TBHP as oxidant in 1: 4 and 1:3 ratio of the cyclooctene/oxidant ratio, high epoxide yield was obtained for 1 (76%) and 2 (80%) with TON(= mole of substrate/mole of catalyst) of 27 and 28.5, respectively, in epoxidation of cyclooctene.

  7. Crystal Structure of the FGFR4/LY2874455 Complex Reveals Insights into the Pan-FGFR Selectivity of LY2874455.

    Science.gov (United States)

    Wu, Daichao; Guo, Ming; Philips, Michael A; Qu, Lingzhi; Jiang, Longying; Li, Jun; Chen, Xiaojuan; Chen, Zhuchu; Chen, Lin; Chen, Yongheng

    2016-01-01

    Aberrant FGFR4 signaling has been documented abundantly in various human cancers. The majority of FGFR inhibitors display significantly reduced potency toward FGFR4 compared to FGFR1-3. However, LY2874455 has similar inhibition potency for FGFR1-4 with IC50 less than 6.4 nM. To date, there is no published crystal structure of LY2874455 in complex with any kinase. To better understand the pan-FGFR selectivity of LY2874455, we have determined the crystal structure of the FGFR4 kinase domain bound to LY2874455 at a resolution of 2.35 Å. LY2874455, a type I inhibitor for FGFR4, binds to the ATP-binding pocket of FGFR4 in a DFG-in active conformation with three hydrogen bonds and a number of van der Waals contacts. After alignment of the kinase domain sequence of 4 FGFRs, and superposition of the ATP binding pocket of 4 FGFRs, our structural analyses reveal that the interactions of LY2874455 to FGFR4 are largely conserved in 4 FGFRs, explaining at least partly, the broad inhibitory activity of LY2874455 toward 4 FGFRs. Consequently, our studies reveal new insights into the pan-FGFR selectivity of LY2874455 and provide a structural basis for developing novel FGFR inhibitors that target FGFR1-4 broadly.

  8. Crystal structure of the cytochrome bc{sub 1} complex from bovine heart mitochondria

    Energy Technology Data Exchange (ETDEWEB)

    Xia, Di; Kim, Hoeon; Deisenhofer, J. [Univ. of Texas Southwestern Medical Center, Dallas, TX (United States); Zhang, Li [Oklahoma State Univ., Stillwater, OK (United States)] [and others

    1997-07-04

    On the basis of x-ray diffraction data to a resolution of 2.9 angstroms, atomic models of most protein components of the bovine cytochrome bc{sub 1} complex were built, including core 1, core 2, cytochrome b, subunit 6, and subunit 7, a carboxyl-terminal fragment of cytochrome c{sub 1}, and an amino-terminal fragment of the iron-sulfur protein. The positions of the four iron centers within the bc{sub 1} complex and the binding sites of the two specific respiratory inhibitors antimycin A and myxothiazol were identified. The membrane-spanning region of each bc{sub 1} complex monomer consists of 13 transmembrane helices, eight of which belong to cytochrome b. Closely interacting monomers are arranged as symmetric dimers and form cavities through which the inhibitor binding pockets can be accessed. The proteins core 1 and core 2 are structurally similar to each other and consist of two domains of roughly equal size and identical folding topology. 39 refs., 5 figs., 2 tabs.

  9. Crystal structure of GAP50, the anchor of the invasion machinery in the inner membrane complex of Plasmodium falciparum.

    Science.gov (United States)

    Bosch, Jürgen; Paige, Matthew H; Vaidya, Akhil B; Bergman, Lawrence W; Hol, Wim G J

    2012-04-01

    The glideosome associated protein GAP50 is an essential protein in apicomplexan parasites such as Plasmodium, Toxoplasma and Cryptosporidium, several species of which are important human pathogens. The 44.6kDa protein is part of a multi-protein complex known as the invasion machinery or glideosome, which is required for cell invasion and substrate gliding motility empowered by an actin-myosin motor. GAP50 is anchored through its C-terminal transmembrane helix into the inner membrane complex and interacts via a short six residue C-terminal tail with other proteins of the invasion machinery in the pellicle of the parasite. In this paper we describe the 1.7Å resolution crystal structure of the soluble GAP50 domain from the malaria parasite Plasmodium falciparum. The structure shows an αßßα fold with overall similarity to purple acid phosphatases with, however, little homology regarding the nature of the residues in the active site region of the latter enzyme. While purple acid phosphatases contain a phosphate bridged binuclear Fe-site coordinated by seven side chains with the Fe-ions 3.2Å apart, GAP50 in our crystals contains two cobalt ions each with one protein ligand and a distance between the Co(2+) ions of 18Å. Copyright © 2012 Elsevier Inc. All rights reserved.

  10. Unsaturated Mn complex decorated hybrid thioarsenates: Syntheses, crystal structures and physical properties

    Science.gov (United States)

    Yue, Cheng-Yang; Lei, Xiao-Wu; Tian, Ya-Wei; Xu, Jing; Bai, Yi-Qun; Wang, Fei; Zhou, Peng-Fei; Liu, Xiao-Fan; Yi, Fei-Yan

    2016-03-01

    The incorporation of unsaturated [Mn(1,2-dap)]2+, [Mn(1,2-dap)2]2+, [Mn(2,2-bipy)]2+ (1,2-dap=1,2-diaminopropane) complex cations with thioarsenate anions of [AsIIIS3]3- and [AsVS4]3- led to three new hybrid manganese thioarsenates, namely, [Mn(1,2-dap)]2MnAs2S6 (1), [Mn(1,2-dap)2]{[Mn(1,2-dap)]2As2S8} (2) and (NH4)[Mn(2,2-bipy)2]AsS4 (3). In compound 1, the unsaturated [Mn(1,2-dap)]2+ complexes, [MnS4]6- tetrahedra and [AsIIIS3]3- trigonal-pyramids are condensed to form the 1D [Mn(1,2-dap)]2MnAs2S6 chain, whereas compound 2 features 2D layer composed of [Mn(1,2-dap)]2+ and [Mn(1,2-dap)2]2+ complexes as well as [AsVS4]3- tetrahedral units. For compound 3, two [AsVS4]3- anions bridge two [Mn(2,2-bipy)]2+ complex cations into a butterfly like {[Mn(2,2-bipy)]2As2S8}2- anionic unit. Magnetic measurements indicate the ferrimagnetic behavior for compound 1 and antiferromagnetic (AF) behaviors for compounds 2-3. The UV-vis diffuse-reflectance measurements and electronic structural calculations based on density functional theory (DFT) revealed the title compounds belong to semiconductors with band gaps of 2.63, 2.21, and 1.97 eV, respectively. The narrow band-gap of compound 3 led to the efficient and stable photocatalytic degradation activity over organic pollutant than N-doped P25 under visible light irradiation.

  11. Synthesis, Crystal Structure and Electrochemical Studies of Two Novel Zn(Ⅱ) Complexes of Phthalic Acid and Imidazole Derivatives

    Institute of Scientific and Technical Information of China (English)

    LI Wei-Hua; ZHAO Guang-Fa; HUANG Zhao-Ge; LIU Fa-Qian; DING Nai-Xiu; LIU Guang-Ye

    2008-01-01

    Two novel coordination polymers [Zn(pa)(vim)2]n (1) and [Zn(pa)(eim)2]n (2) (pa=phthalic acid dianion,vim=1-vinyl-1H-imidazole,eim=1-ethyl-1H-imidazole) have been synthesized and their structures characterized by X-ray single crystal diffractometry and elemental analysis.Both of the complexes consist of [Zn(L)2](L=vim for 1;eim for 2) entities linked into polymeric zigzag chains along the crystallographic c-axis by bridging phthalate anions in the μ2-1,2 coordination mode.The coordination around each Zn(II) atom is tetrahedral.There are only van der Waals interactions between the chains in 1,while the three-dimensional network in 2 is assembled by C--H'--O contacts.The electrochemical studies reveal that redoxes of Zn2+/Zn in complexes 1 and 2 are irreversible processes.

  12. Iron(II) tris(3-bromo-1,10-phenanthroline) complex:synthesis, crystal structure and electropolymerization

    CERN Document Server

    Lee, K J; Lee, S S; Lee, B Y

    2002-01-01

    The complex of iron(II) tris(3-Br-phen)(3-Br-phen; 3-bromo-1,10-phenanthroline) was prepared as a precursor of electropolymerization and the crystal structure of [Fe(3-Br-phen) sub 3](PF sub 6) sub 2 centre dot CH sub 3 CN with a distorted octahedral geometry has been investigated. The reductive electropolymerization of [Fe(3-Br-phen) sub 3] sup 2 sup + complex onto the surface of a glassy carbon electrode and indium tin oxide (ITO) optically transparent electrode were performed in acetonitrile at room temperature. Thin film of poly-[Fe(3-Br-phen) sub 3] sup 2 sup + formed was adherent, electroactive and stably deposited on a glassy carbon disk electrode. The thin metallopolymeric film formed was also confirmed by absorption spectroscopy.

  13. A Novel Mechanism for Adenylyl Cyclase Inhibition from the Crystal Structure of its Complex with Catechol Estrogen

    Energy Technology Data Exchange (ETDEWEB)

    Steegborn,C.; Litvin, T.; Hess, K.; Capper, A.; Taussig, R.; Buck, J.; Levin, L.; Wu, H.

    2005-01-01

    Catechol estrogens are steroid metabolites that elicit physiological responses through binding to a variety of cellular targets. We show here that catechol estrogens directly inhibit soluble adenylyl cyclases and the abundant trans-membrane adenylyl cyclases. Catechol estrogen inhibition is non-competitive with respect to the substrate ATP, and we solved the crystal structure of a catechol estrogen bound to a soluble adenylyl cyclase from Spirulina platensis in complex with a substrate analog. The catechol estrogen is bound to a newly identified, conserved hydrophobic patch near the active center but distinct from the ATP-binding cleft. Inhibitor binding leads to a chelating interaction between the catechol estrogen hydroxyl groups and the catalytic magnesium ion, distorting the active site and trapping the enzyme substrate complex in a non-productive conformation. This novel inhibition mechanism likely applies to other adenylyl cyclase inhibitors, and the identified ligand-binding site has important implications for the development of specific adenylyl cyclase inhibitors.

  14. Crystal Structure of 12-Lipoxygenase Catalytic-Domain-Inhibitor Complex Identifies a Substrate-Binding Channel for Catalysis

    Energy Technology Data Exchange (ETDEWEB)

    Xu, Shu; Mueser, Timothy C.; Marnett, Lawrence J.; Funk, Jr., Max O. (Toledo); (Vanderbilt)

    2014-10-02

    Lipoxygenases are critical enzymes in the biosynthesis of families of bioactive lipids including compounds with important roles in the initiation and resolution of inflammation and in associated diseases such as diabetes, cardiovascular disease, and cancer. Crystals diffracting to high resolution (1.9 {angstrom}) were obtained for a complex between the catalytic domain of leukocyte 12-lipoxygenase and the isoform-specific inhibitor, 4-(2-oxapentadeca-4-yne)phenylpropanoic acid (OPP). In the three-dimensional structure of the complex, the inhibitor occupied a new U-shaped channel open at one end to the surface of the protein and extending past the redox-active iron site that is essential for catalysis. In models, the channel accommodated arachidonic acid, defining the binding site for the substrate of the catalyzed reaction. There was a void adjacent to the OPP binding site connecting to the surface of the enzyme and providing a plausible access channel for the other substrate, oxygen.

  15. Synthesis, Characterization and Crystal Structure Determination of a Thiocyanato Bridged One-dimensional Polymeric Complex of Cadmium(Ⅱ)

    Institute of Scientific and Technical Information of China (English)

    BAI Yan; PAN Xiao-Jing; DANG Dong-Bin; SHANG Wei-Li; WANG Jing-Ping

    2008-01-01

    A new one-dimensional polymeric complex [Cd(SCN)2(H2O)]L (L = N,N'-bis(furan-2-ylmethylene)hydrazine) has been synthesized and characterized by IR, UV spectra, TG-DTA technique and single-crystal X-ray diffraction analysis. It crystallizes in triclinic, pace group P1 with a = 5.9268(8), b = 10.8678(15), c = 13.3671(19) A, α = 109.295(2), β = 95.092(2), γ =97.8580(10)°, V - 796.70(19) A3, Z = 2, C12H10CdN4O3S2, Mr = 434.76, μ = 1.648 mm-1, Dc = 1.812 g/cm3, F(000) = 428, R = 0.0308 and wR = 0.0769. The crystal structure reveals that the structure of [Cd(SCN)E(H2O)]n features di-μ-1,3-thiocyante bridges and 1D chains. The octahedrally coordinated Cd atom is surrounded by one oxygen atom from water molecule, three S atoms and two N atoms from five di-μ-1,3 thiocyanato bridges. The Cd atoms are connected by two di-μ-1,3 thiocyanato bridges with the Cd(1)…Cd(1A) separation of 4.239(1) (A) and Cd(1)…Cd(1B) of 5.852(1)(A). In addition, the one-dimensional straight chain structure is further connected by multiform intermolicular N-H…O hydrogen bonds and π…π interactions to form a three-dimensional supramolecular structure.

  16. Unsaturated Mn complex decorated hybrid thioarsenates: Syntheses, crystal structures and physical properties

    Energy Technology Data Exchange (ETDEWEB)

    Yue, Cheng-Yang [Key Laboratory of Inorganic Chemistry in Universities of Shandong, Department of Chemistry and Chemical Engineering, Jining University, Qufu, Shandong 273155 (China); State Key Laboratory of Structural Chemistry, Fujian Institute of Research on the Structure of Matter, Chinese Academy of Sciences, Fuzhou 350002 (China); Lei, Xiao-Wu, E-mail: xwlei_jnu@163.com [Key Laboratory of Inorganic Chemistry in Universities of Shandong, Department of Chemistry and Chemical Engineering, Jining University, Qufu, Shandong 273155 (China); Tian, Ya-Wei; Xu, Jing; Bai, Yi-Qun; Wang, Fei; Zhou, Peng-Fei; Liu, Xiao-Fan [Key Laboratory of Inorganic Chemistry in Universities of Shandong, Department of Chemistry and Chemical Engineering, Jining University, Qufu, Shandong 273155 (China); Yi, Fei-Yan, E-mail: yifeiyan@nbu.edu.cn [Faculty of Materials Science & Chemical Engineering, Ningbo University, Ningbo, Zhejiang 315211 (China)

    2016-03-15

    The incorporation of unsaturated [Mn(1,2-dap)]{sup 2+}, [Mn(1,2-dap){sub 2}]{sup 2+}, [Mn(2,2-bipy)]{sup 2+} (1,2-dap=1,2-diaminopropane) complex cations with thioarsenate anions of [As{sup III}S{sub 3}]{sup 3−} and [As{sup V}S{sub 4}]{sup 3−} led to three new hybrid manganese thioarsenates, namely, [Mn(1,2-dap)]{sub 2}MnAs{sub 2}S{sub 6} (1), [Mn(1,2-dap){sub 2}]{[Mn(1,2-dap)]_2As_2S_8} (2) and (NH{sub 4})[Mn(2,2-bipy){sub 2}]AsS{sub 4} (3). In compound 1, the unsaturated [Mn(1,2-dap)]{sup 2+} complexes, [MnS{sub 4}]{sup 6−} tetrahedra and [As{sup III}S{sub 3}]{sup 3−} trigonal-pyramids are condensed to form the 1D [Mn(1,2-dap)]{sub 2}MnAs{sub 2}S{sub 6} chain, whereas compound 2 features 2D layer composed of [Mn(1,2-dap)]{sup 2+} and [Mn(1,2-dap){sub 2}]{sup 2+} complexes as well as [As{sup V}S{sub 4}]{sup 3−} tetrahedral units. For compound 3, two [As{sup V}S{sub 4}]{sup 3−} anions bridge two [Mn(2,2-bipy)]{sup 2+} complex cations into a butterfly like {[Mn(2,2-bipy)]_2As_2S_8}{sup 2−} anionic unit. Magnetic measurements indicate the ferrimagnetic behavior for compound 1 and antiferromagnetic (AF) behaviors for compounds 2–3. The UV–vis diffuse-reflectance measurements and electronic structural calculations based on density functional theory (DFT) revealed the title compounds belong to semiconductors with band gaps of 2.63, 2.21, and 1.97 eV, respectively. The narrow band-gap of compound 3 led to the efficient and stable photocatalytic degradation activity over organic pollutant than N-doped P25 under visible light irradiation. - Highlights: Three new hybrid manganese thioarsenates have been prepared and structurally characterized. These hybrid phases feature interesting magnetic and visible light responding photocatalytic properties.

  17. Synthesis,Crystal Structure of Cis—dioxo—catecholatotungsten(VI) Complex and Its NMR Studies on the Interaction with ATP

    Institute of Scientific and Technical Information of China (English)

    鲁晓明; 刘顺成; 姜凌; 毛希安; 叶朝晖

    2003-01-01

    Cis-dioxo-catecholatotungsten(VI) complex anion[W(VI)O2-(OC6H4O)2]2- was obtained with discrete protonated ethylenediamine (NH2CH2CH2NH3)+ cations by the reaction of tetrabutyl ammonium decatungstate with catechol in the mixed solvent of CH3OH,CH3CN and ethylenediamine,and compared with its molybdenum anaogue [Mo(V) O2(OC6H4O)2]3- by crystal structure,UV,EPR,The results of the UV and EPR spectra show that tungsten is less redox active than molybdenum since the molybdenum is reduced from Mo(VI) to Mo(V) but tungsten stays in the original highest oxidized state Mo(VI) when they are crystallized from the solution above.It is worthy to note that [W(VI)O2(OC6H4O)]2- shows the same coordination structure as its molybdenum analogue in which the metal center exhibits distorted octahedral coordination geometry with two cis-dioxocatecholate ligands and might have the related coordination structure feature with the cofactor of flavoenzyme because [Mo(V)O2(OC6H4O)2]3- presented essentially the same EPR spectra as flavoenzyme.The NMR studies on the interaction of the title complex with ATP reveal that the reduction of W(VI) to W(V) occurs when the title complex is dissolved in D2O and the W(V) is oxidized again when ATP solution is mixed with original solution and the hydrolysis of the catecholato ligand take places at mean time being monitored by 1H NMR and 13C NMR spectra.

  18. hβ2R-Gαs complex: prediction versus crystal structure--how valuable are predictions based on molecular modeling studies?

    Science.gov (United States)

    Straßer, Andrea; Wittmann, Hans-Joachim

    2012-07-01

    In 2010, we predicted two models for the hβ(2)R-Gα(s) complex by combining the technique of homology modeling with a potential energy surface scan, since a complete crystal structure of the hβ(2)R-Gα(s) complex was not available. The crystal structure of opsin co-crystallized with part of the C-terminus of Gα (3DQB) was used as a template to model the hβ(2)R, whereas the crystal structure of Gα (1AZT) was used as a template to model Gα(s). Utilizing a potential energy surface scan between hβ(2)R and Gα(s), a six-dimensional potential energy surface was obtained. Two significant minimum regions were located on this surface, and each was associated with a distinct hβ(2)R-Gα(s) complex, namely model I and model II [Straßer A, Wittmann H-J (2010) J Mol Model 16:1307-1318]. The crystal structure of the hβ(2)R-Gα(s)βγ complex has recently been published. Thus, the aim of the current study was, on the one hand, to compare our predicted structures with the true crystal structure, and on the other to discuss the question: how valuable are predictions based on molecular modeling studies?

  19. Crystal structure of a heterodimer of editosome interaction proteins in complex with two copies of a cross-reacting nanobody.

    Science.gov (United States)

    Park, Young-Jun; Pardon, Els; Wu, Meiting; Steyaert, Jan; Hol, Wim G J

    2012-02-01

    The parasite Trypanosoma brucei, the causative agent of sleeping sickness across sub-Saharan Africa, depends on a remarkable U-insertion/deletion RNA editing process in its mitochondrion. A approximately 20 S multi-protein complex, called the editosome, is an essential machinery for editing pre-mRNA molecules encoding the majority of mitochondrial proteins. Editosomes contain a common core of twelve proteins where six OB-fold interaction proteins, called A1-A6, play a crucial role. Here, we report the structure of two single-strand nucleic acid-binding OB-folds from interaction proteins A3 and A6 that surprisingly, form a heterodimer. Crystal growth required the assistance of an anti-A3 nanobody as a crystallization chaperone. Unexpectedly, this anti-A3 nanobody binds to both A3(OB) and A6, despite only ~40% amino acid sequence identity between the OB-folds of A3 and A6. The A3(OB)-A6 heterodimer buries 35% more surface area than the A6 homodimer. This is attributed mainly to the presence of a conserved Pro-rich loop in A3(OB). The implications of the A3(OB)-A6 heterodimer, and of a dimer of heterodimers observed in the crystals, for the architecture of the editosome are profound, resulting in a proposal of a 'five OB-fold center' in the core of the editosome.

  20. Crystal structure, DNA interaction and thermal analysis data of two new antimicrobial active binuclear cadmium and mercury complexes

    Science.gov (United States)

    Musavi, S. A.; Montazerozohori, M.; Masoudiasl, A.; Naghiha, R.; Joohari, S.; Assoud, A.

    2017-10-01

    Two new binuclear Schiff base complexes with the general formula [CdLBr(μ-Br)]2 (1) and [Hg2L(μ-I)2I2] (2) were prepared by the reaction of 2,2-dimethyl-N,N'- bis-(3-phenyl-allylidene)-propane-1,3-diamine (L), CdBr2 and HgI2. The crystal structure of two complexes was determined by X-ray crystallography. The common structures for four-coordinated compounds are square planar or the tetrahedral geometries, which is evaluated by the Houser angular index (τ4). In [CdLBr(μ-Br)]2 (1), each cadmium center is five-coordinated by two iminic nitrogen atoms from Schiff base ligand, two μ2-bridging bromide anions and one terminal coordinating bromide anion. The metal center in this centrosymmetric dimer has a distorted square-pyramidal geometry. [Hg2L(μ-I)2I2] (2) consists of two four-coordinated mercury centers with different coordination spheres (HgN2I2 for Hg1 and HgI4 for Hg2). The TG/DTG diagrams showed that both complexes were completely decomposed under a nitrogen atmosphere. Furthermore, antibacterial activities of compounds have been screened against various bacteria and fungi by Disk diffusion method. Mercury complex inhibited the growth of the microorganisms more efficient than cadmium complex. DNA cleavage potential of compounds was evaluated by agarose gel electrophoresis method. Finally, nano-structure cadmium complex was sono-chemically synthesized and applied as precursor for preparation of cadmium oxide nanoparticles.

  1. Crystal structures of multidrug-resistant HIV-1 protease in complex with two potent anti-malarial compounds

    Energy Technology Data Exchange (ETDEWEB)

    Yedidi, Ravikiran S.; Liu, Zhigang; Wang, Yong; Brunzelle, Joseph S.; Kovari, Iulia A.; Woster, Patrick M.; Kovari, Ladislau C.; Gupta, Deepak (LECOM); (WSI); (NWU); (MUSC); (WSU)

    2012-06-19

    Two potent inhibitors (compounds 1 and 2) of malarial aspartyl protease, plasmepsin-II, were evaluated against wild type (NL4-3) and multidrug-resistant clinical isolate 769 (MDR) variants of human immunodeficiency virus type-1 (HIV-1) aspartyl protease. Enzyme inhibition assays showed that both 1 and 2 have better potency against NL4-3 than against MDR protease. Crystal structures of MDR protease in complex with 1 and 2 were solved and analyzed. Crystallographic analysis revealed that the MDR protease exhibits a typical wide-open conformation of the flaps (Gly48 to Gly52) causing an overall expansion in the active site cavity, which, in turn caused unstable binding of the inhibitors. Due to the expansion of the active site cavity, both compounds showed loss of direct contacts with the MDR protease compared to the docking models of NL4-3. Multiple water molecules showed a rich network of hydrogen bonds contributing to the stability of the ligand binding in the distorted binding pockets of the MDR protease in both crystal structures. Docking analysis of 1 and 2 showed a decrease in the binding affinity for both compounds against MDR supporting our structure-function studies. Thus, compounds 1 and 2 show promising inhibitory activity against HIV-1 protease variants and hence are good candidates for further development to enhance their potency against NL4-3 as well as MDR HIV-1 protease variants.

  2. Molecular basis for TANK recognition by TRAF1 revealed by the crystal structure of TRAF1/TANK complex.

    Science.gov (United States)

    Kim, Chang Min; Jeong, Jae-Hee; Son, Young-Jin; Choi, Jun-Hyuk; Kim, Sunghwan; Park, Hyun Ho

    2017-02-02

    Tumor necrosis factor receptor-associated factor 1 (TRAF1) is a multifunctional adaptor protein involved in important processes of cellular signaling, including innate immunity and apoptosis. TRAF family member-associated NF-kappaB activator (TANK) has been identified as a competitive intracellular inhibitor of TRAF2 function. Although TRAF recognition by various receptors has been studied extensively in the field of TRAF-mediated biology, molecular and functional details of TANK recognition and interaction with TRAF1 have not been studied. In this study, we report the crystal structure of the TRAF1/TANK peptide complex. Quantitative interaction experiments showed that TANK peptide interacts with both TRAF1 and TRAF2 with similar affinity in a micromolar range. Our structural study also reveals that TANK binds TRAF1 using a minor minimal consensus motif for TRAF binding, Px(Q/E)xT.

  3. Crystal structures of PRK1 in complex with the clinical compounds lestaurtinib and tofacitinib reveal ligand induced conformational changes.

    Science.gov (United States)

    Chamberlain, Philip; Delker, Silvia; Pagarigan, Barbra; Mahmoudi, Afshin; Jackson, Pilgrim; Abbasian, Mahan; Muir, Jeff; Raheja, Neil; Cathers, Brian

    2014-01-01

    Protein kinase C related kinase 1 (PRK1) is a component of Rho-GTPase, androgen receptor, histone demethylase and histone deacetylase signaling pathways implicated in prostate and ovarian cancer. Herein we describe the crystal structure of PRK1 in apo form, and also in complex with a panel of literature inhibitors including the clinical candidates lestaurtinib and tofacitinib, as well as the staurosporine analog Ro-31-8220. PRK1 is a member of the AGC-kinase class, and as such exhibits the characteristic regulatory sequence at the C-terminus of the catalytic domain--the 'C-tail'. The C-tail fully encircles the catalytic domain placing a phenylalanine in the ATP-binding site. Our inhibitor structures include examples of molecules which both interact with, and displace the C-tail from the active site. This information may assist in the design of inhibitors targeting both PRK and other members of the AGC kinase family.

  4. Molecular, crystal, and electronic structure of the cobalt(II) complex with 10-(2-benzothiazolylazo)-9-phenanthrol

    Energy Technology Data Exchange (ETDEWEB)

    Linko, R. V., E-mail: rlinko@mail.ru [Peoples' Friendship University of Russia (Russian Federation); Sokol, V. I. [Russian Academy of Sciences, Kurnakov Institute of General and Inorganic Chemistry (Russian Federation); Polyanskaya, N. A.; Ryabov, M. A.; Strashnov, P. V.; Davydov, V. V. [Peoples' Friendship University of Russia (Russian Federation); Sergienko, V. S. [Russian Academy of Sciences, Kurnakov Institute of General and Inorganic Chemistry (Russian Federation)

    2013-05-15

    The reaction of 10-(2-benzothiazolylazo)-9-phenanthrol (HL) with cobalt(II) acetate gives the coordination compound [CoL{sub 2}] {center_dot} CHCl{sub 3} (I). The molecular and crystal structure of I is determined by X-ray diffraction. The coordination polyhedron of the Co atom in complex I is an octahedron. The anion L acts as a tridentate chelating ligand and is coordinated to the Co atom through the phenanthrenequinone O1 atom and the benzothiazole N1 atom of the moieties L and the N3 atom of the azo group to form two five-membered metallocycles. The molecular and electronic structures of the compounds HL, L, and CoL{sub 2} are studied at the density functional theory level. The results of the quantum-chemical calculations are in good agreement with the values determined by X-ray diffraction.

  5. Effect of second ligand on the luminescence of Samarium (III) dibenzoylmethane complexes: Syntheses, crystal structures, thermal analysis and luminescence study

    Indian Academy of Sciences (India)

    Muhammad Idiris Saleh; Min Yee Choo; Tai Wei Chan; Mohd R Razali

    2015-12-01

    The ternary complexes of Sm(III) with dibenzoylmethane (dbm) were synthesized by introducing 1,10-phenanthroline (phen), 4,7-dimethyl-1,10-phenanthroline (dmphen), 3,4,7,8-tetramethyl-1,10-phenanthroline (tmphen), 4,7-diphenyl-1,10-phenanthroline (dpphen), 2,2-bipyridyl (bpy), 4,4’-dimethyl-2,2-bipyridyl (4,4-dmbpy), 5,5’-dimethyl-2,2-bipyridyl (5,5-dmbpy) and 4,4’-di-tert-butyl-2,2-bipyridyl (4,4-dtbbpy) as a second ligand. The complexes were isolated and characterized by elemental analysis (CHN), thermogravimetric analysis (TGA), IR spectroscopy, luminescence spectroscopy and single crystal X-ray diffraction. Structural study shows that in all complexes Sm(III) is in square antiprism geometry. All complexes emit strong luminescence under ultraviolet excitation. The strongest emission is at 643 nm which can be assigned for 4G5/2 to 6H9/2 transition, equivalent to energy of 15550 cm−1. The addition of the second ligand has increased the emission intensity of the complexes while the transition is maintained.

  6. Monocationic gold(III) Gly-L-His and L-Ala-L-His dipeptide complexes: crystal structures arising from solvent free and solvent-containing crystal formation and structural modifications tuned by counter-anions.

    Science.gov (United States)

    Rychlewska, Urszula; Warzajtis, Beata; Glisić, Biljana D; Zivković, Marija D; Rajković, Snezana; Djuran, Milos I

    2010-10-14

    Monocationic gold(III) complexes with histidine-containing peptides, glycyl-L-histidine (Gly-L-His) and L-alanyl-L-histidine (L-Ala-L-His) have been synthesized and characterized by (1)H NMR spectroscopy and X-ray crystallography. The crystallized Au(III) complexes, [Au(Gly-L-His-N,N',N'')Cl]NO(3)·1.25H(2)O and [Au(L-Ala-L-His-N,N',N'')Cl]NO(3)·2.5H(2)O, were obtained from water solution at pH complexes were compared with those for the corresponding Pd(II) complexes and for Pd(II) and Au(III) complexes with Gly-Gly-L-His tripeptide. Crystal data for the hydrated [Au(Gly-L-His-N,N',N'')Cl]NO(3)·1.25H(2)O complex and its serendipitously obtained unhydrated form were compared with previously reported X-ray data for the hydrated chloride complex [Au(Gly-L-His-N,N',N'')Cl]Cl·3H(2)O and with the analogous, though uncharged, Pd(II) and Pt(II) complexes. Furthermore, in the present study the crystal structure of the nitrate salt of Au(III) complex with L-Ala-L-His dipeptide, [Au(L-Ala-L-His-N,N',N'')Cl]NO(3)·2.5H(2)O has been determined.

  7. Crystal structures of human RIP2 kinase catalytic domain complexed with ATP-competitive inhibitors: Foundations for understanding inhibitor selectivity.

    Science.gov (United States)

    Charnley, Adam K; Convery, Máire A; Lakdawala Shah, Ami; Jones, Emma; Hardwicke, Philip; Bridges, Angela; Ouellette, Michael; Totoritis, Rachel; Schwartz, Benjamin; King, Bryan W; Wisnoski, David D; Kang, James; Eidam, Patrick M; Votta, Bartholomew J; Gough, Peter J; Marquis, Robert W; Bertin, John; Casillas, Linda

    2015-11-01

    Receptor interacting protein 2 (RIP2) is an intracellular kinase and key signaling partner for the pattern recognition receptors NOD1 and NOD2 (nucleotide-binding oligomerization domain-containing proteins 1 and 2). As such, RIP2 represents an attractive target to probe the role of these pathways in disease. In an effort to design potent and selective inhibitors of RIP2 we established a crystallographic system and determined the structure of the RIP2 kinase domain in an apo form and also in complex with multiple inhibitors including AMP-PCP (β,γ-Methyleneadenosine 5'-triphosphate, a non-hydrolysable adenosine triphosphate mimic) and structurally diverse ATP competitive chemotypes identified via a high-throughput screening campaign. These structures represent the first set of diverse RIP2-inhibitor co-crystal structures and demonstrate that the protein possesses the ability to adopt multiple DFG-in as well as DFG-out and C-helix out conformations. These structures reveal key protein-inhibitor structural insights and serve as the foundation for establishing a robust structure-based drug design effort to identify both potent and highly selective inhibitors of RIP2 kinase.

  8. The crystal structure of the secreted aspartic protease 1 from Candida parapsilosis in complex with pepstatin A

    Energy Technology Data Exchange (ETDEWEB)

    Dostál, Ji& #345; í; Brynda, Ji& #345; í; Hrušková-Heidingsfeldová, Olga; Sieglová, Irena; Pichová, Iva; & #344; ezá& #269; ová, Pavlína; (ASCR-ICP)

    2010-09-01

    Opportunistic pathogens of the genus Candida cause infections representing a major threat to long-term survival of immunocompromised patients. Virulence of the Candida pathogens is enhanced by production of extracellular proteolytic enzymes and secreted aspartic proteases (Saps) are therefore studied as potential virulence factors and possible targets for therapeutic drug design. Candida parapsilosis is less invasive than C. albicans, however, it is one of the leading causative agents of yeast infections. We report three-dimensional crystal structure of Sapp1p from C. parapsilosis in complex with pepstatin A, the classical inhibitor of aspartic proteases. The structure of Sapp1p was determined from protein isolated from its natural source and represents the first structure of Sap from C. parapsilosis. Overall fold and topology of Sapp1p is very similar to the archetypic fold of monomeric aspartic protease family and known structures of Sap isoenzymes from C. albicans and Sapt1p from C. tropicalis. Structural comparison revealed noticeable differences in the structure of loops surrounding the active site. This resulted in differential character, shape, and size of the substrate binding site explaining divergent substrate specificities and inhibitor affinities. Determination of structures of Sap isoenzymes from various species might contribute to the development of new Sap-specific inhibitors.

  9. Crystal structures of cyclohexanone monooxygenase reveal complex domain movements and a sliding cofactor.

    Science.gov (United States)

    Mirza, I Ahmad; Yachnin, Brahm J; Wang, Shaozhao; Grosse, Stephan; Bergeron, Hélène; Imura, Akihiro; Iwaki, Hiroaki; Hasegawa, Yoshie; Lau, Peter C K; Berghuis, Albert M

    2009-07-01

    Cyclohexanone monooxygenase (CHMO) is a flavoprotein that carries out the archetypical Baeyer-Villiger oxidation of a variety of cyclic ketones into lactones. Using NADPH and O(2) as cosubstrates, the enzyme inserts one atom of oxygen into the substrate in a complex catalytic mechanism that involves the formation of a flavin-peroxide and Criegee intermediate. We present here the atomic structures of CHMO from an environmental Rhodococcus strain bound with FAD and NADP(+) in two distinct states, to resolutions of 2.3 and 2.2 A. The two conformations reveal domain shifts around multiple linkers and loop movements, involving conserved arginine 329 and tryptophan 492, which effect a translation of the nicotinamide resulting in a sliding cofactor. Consequently, the cofactor is ideally situated and subsequently repositioned during the catalytic cycle to first reduce the flavin and later stabilize formation of the Criegee intermediate. Concurrent movements of a loop adjacent to the active site demonstrate how this protein can effect large changes in the size and shape of the substrate binding pocket to accommodate a diverse range of substrates. Finally, the previously identified BVMO signature sequence is highlighted for its role in coordinating domain movements. Taken together, these structures provide mechanistic insights into CHMO-catalyzed Baeyer-Villiger oxidation.

  10. Anion complexation with cyanobenzoyl substituted first and second generation tripodal amide receptors: crystal structure and solution studies.

    Science.gov (United States)

    Hoque, Md Najbul; Gogoi, Abhijit; Das, Gopal

    2015-09-14

    Anion complexation properties of two new tripodal amide receptors have been extensively studied here. Two tripodal receptors have been synthesized from the reaction of cyanobenzoyl acid chloride with two tri-amine building blocks such as (i) tris(2-aminoethyl)amine and (ii) tris(2-(4-aminophenoxy)ethyl)amine, which resulted in the first (L1) and second (L2) generation tripodal amides respectively. A detailed comparison of their coordination behavior with anions is also described by crystallographic and solution state experiments. The crystal structure demonstrates various types of spatial orientations of tripodal arms in two receptors and concomitantly interacts with anions distinctively. Intramolecular H-bonding between amide N–H and CO prevents opening of the receptor cavity in the crystal, which leads to a locked conformation of L1 having C(3v) symmetry and makes amide hydrogen unavailable for the anion which results in side cleft anion binding. However, in L2 we conveniently shift the anion binding sites to a distant position which increases cavity size as well as rules out any intramolecular H-bonding between amide N–H and CO. The crystal structure shows a different orientation of the arms in L2; it adopts a quasi-planar arrangement with C(2v) symmetry. In the crystal structure two arms are pointed in the same direction and while extending the contact the third arm is H-bonded with the apical N-atom through a –CN group, making a pseudo capsular cavity where the anion interacts. Most importantly spatial reorientation of the receptor L2 from a C(2v) symmetry to a folded conformation with a C(3v) symmetry was observed only in the presence of an octahedral SiF6(2-) anion and forms a sandwich type complex. Receptors L1 and L2 are explored for their solution state anion binding abilities. The substantial changes in chemical shifts were observed for the amide (-NH) and aromatic hydrogen (-CH) (especially for F(-)), indicating the role of these hydrogens in

  11. Crystal structure of importin-{alpha} complexed with a classic nuclear localization sequence obtained by oriented peptide library screening

    Energy Technology Data Exchange (ETDEWEB)

    Takeda, A.A.S.; Fontes, M.R.M. [UNESP, Universidade Estadual Paulista, Botucatu, SP (Brazil); Yang, S.N.Y. [University of Melbourne, Melbourne (Australia); Harris, J.M. [Queensland University of Technology, Brisbane (Australia); Jans, D.A. [Monash University, Clayton (Australia); Kobe, B. [University of Queensland, Brisbane, QU (Australia)

    2012-07-01

    Full text: Importin-{alpha} (Imp{alpha}) plays a role in the classical nuclear import pathway, binding to cargo proteins with activities in the nucleus. Different Imp{alpha} paralogs responsible for specific cargos can be found in a single organism. The cargos contain nuclear localization sequences (NLSs), which are characterized by one or two clusters of basic amino acids (monopartite and bipartite NLSs, respectively). In this work we present the crystal structure of Imp{alpha} from M. musculus (residues 70-529, lacking the auto inhibitory domain) bound to a NLS peptide (pepTM). The peptide corresponds to the optimal sequence obtained by an oriented peptide library experiment designed to probe the specificity of the major NLS binding site. The peptide library used five degenerate positions and identified the sequence KKKRR as the optimal sequence for binding to this site for mouse Imp{alpha} (70-529). The protein was obtained using an E. coli expression system and purified by affinity chromatography followed by an ion exchange chromatography. A single crystal of Imp{alpha} -pepTM complex was grown by the hanging drop method. The data were collected using the Synchrotron Radiation Source LNLS, Brazil and processed to 2.3. Molecular replacement techniques were used to determine the crystal structure. Electron density corresponding to the peptide was present in both major and minor binding sites The peptide is bound to Imp{alpha} similar as the simian virus 40 (SV40) large tumour (T)-antigen NLS. Binding assays confirmed that the peptide bound to Imp{alpha} with low nM affinities. This is the first time that structural information has been linked to an oriented peptide library screening approach for importin-{alpha}; the results will contribute to understanding of the sequence determinants of classical NLSs, and may help identify as yet unidentified classical NLSs in novel proteins. (author)

  12. Synthesis and Crystal Structures of Ni(II)/(III) and Zn(II) Complexes with Schiff Base Ligands

    Energy Technology Data Exchange (ETDEWEB)

    Koo, Bon Kweon [Catholic Univ., of Daegu, Daegu (Korea, Republic of)

    2013-12-15

    Coordination polymers are of great interest due to their intriguing structural motifs and potential applications in optical, electronic, magnetic, and porous materials. The most commonly used strategy for designing such materials relies on the utilization of multidentate N- or Odonor ligands which have the capacity to bridge between metal centers to form polymeric structures. The Schiff bases with N,O,S donor atoms are an useful source as they are readily available and easily form stable complexes with most transition metal ions. Schiff bases are also important intermediates in synthesis of some bioactive compounds and are potent anti-bacterial, anti-fungal, anticancer and antiviral compounds. In this work, the Schiff bases, Hapb and Hbpb, derived from 2-acetylpyridene or 2-benzoylpyridine and benzhydrazide were taken as trifunctional (N,N,O) monobasic ligand (Scheme 1). This ligand is of important because the π-delocalization of charge and the configurational flexibility of their molecular chain can give rise to a great variety of coordination modes. Although many metal.Schiff base complexes have been reported, the 1D, 2D, and 3D networks of coordination polymers linked through the bridging of ligands such as dicyanamide, N(CN){sub 2}{sup -} as coligand have been little published. In the process of working to extend the dimensionality of the metal-Schiff base complexes using benzilic acid as a bridging ligand, we obtained three simple metal (II)/(III) complexes of acetylpyridine/2-benzoyl pyridine based benzhydrazide ligand. Therefore, we report here the synthesis and crystal structures of the complexes.

  13. Crystal structures of two mixed-valence copper cyanide complexes with N-methyl-ethylenedi-amine.

    Science.gov (United States)

    Corfield, Peter W R; Sabatino, Alexander

    2017-02-01

    The crystal structures of two mixed-valence copper cyanide compounds involving N-methyl-ethylenedi-amine (meen), are described. In compound (I), poly[bis(μ3-cyanido-κ3C:C:N)tris(μ2-cyanido-κ2C:N)bis(N-methylethane-1,2-di-amine-κ2N,N')tricopper(I)copper(II)], [Cu4(CN)5(C3H10N2)2] or Cu4(CN)5meen2, cyanide groups link Cu(I) atoms into a three-dimensional network containing open channels parallel to the b axis. In the network, two tetra-hedrally bound Cu(I) atoms are bonded by the C atoms of two end-on bridging CN groups to form Cu2(CN)6 moieties with the Cu atoms in close contact at 2.560 (1) Å. Other trigonally bound Cu(I) atoms link these units together to form the network. The Cu(II) atoms, coordinated by two meen units, are covalently linked to the network via a cyanide bridge, and project into the open network channels. In the mol-ecular compound (II), [(N-methylethylenediamine-κ(2)N,N')copper(II)]-μ(2)-cyanido-κ(2)C:N-[bis(cyanido-κC)copper(I)] monohydrate, [Cu2(CN)3(C3H10N2)2]·H2O or Cu2(CN)3meen2·H2O, a CN group connects a Cu(II) atom coordinated by two meen groups with a trigonal-planar Cu(I) atom coordinated by CN groups. The mol-ecules are linked into centrosymmetric dimers via hydrogen bonds to two water mol-ecules. In both compounds, the bridging cyanide between the Cu(II) and Cu(I) atoms has the N atom bonded to Cu(II) and the C atom bonded to Cu(I), and the Cu(II) atoms are in a square-pyramidal coordination.

  14. The crystal structure of Sporosarcina pasteurii urease in a complex with citrate provides new hints for inhibitor design.

    Science.gov (United States)

    Benini, Stefano; Kosikowska, Paulina; Cianci, Michele; Mazzei, Luca; Vara, Antonio Gonzalez; Berlicki, Łukasz; Ciurli, Stefano

    2013-03-01

    Urease, the enzyme that catalyses the hydrolysis of urea, is a virulence factor for a large number of ureolytic bacterial human pathogens. The increasing resistance of these pathogens to common antibiotics as well as the need to control urease activity to improve the yield of soil nitrogen fertilization in agricultural applications has stimulated the development of novel classes of molecules that target urease as enzyme inhibitors. We report on the crystal structure at 1.50-Å resolution of a complex formed between citrate and urease from Sporosarcina pasteurii, a widespread and highly ureolytic soil bacterium. The fit of the ligand to the active site involves stabilizing interactions, such as a carboxylate group that binds the nickel ions at the active site and several hydrogen bonds with the surrounding residues. The citrate ligand has a significantly extended structure compared with previously reported ligands co-crystallized with urease and thus represents a unique and promising scaffold for the design of new, highly active, stable, selective inhibitors.

  15. A Novel Catenarian Cyano(triphenyl phosphite) Copper(Ⅰ) Complex: Synthesis, Crystal Structure, Thermal, Voltammetric and Spectral Properties

    Institute of Scientific and Technical Information of China (English)

    QIAO,Yuan-Biao; WANG,Ke-Fei; HU,Li-Hong; JIAN,Fang-Fang

    2006-01-01

    Quantitative reaction between copper(Ⅰ) cyanide and triphenyl phosphite forms copper(Ⅰ) complex [(P(OPh)3)4Cu4(CN)4] (1). X-Ray crystal structure shows a catenarian polymer of tandem interconnected copper cyanide, with C and N connecting to proximal Cu atoms. The Cu atoms adopt two different conformations: one exhibits linear construction, while the other exhibits distorted tetrahedral geometry through coordinating to two cyano groups and the P donors of triphenyl phosphite molecules. The feature of 1 is the propagation pattern of two- and four-coordination along with the chain. IR and electronic absorption spectra also confirm the established single crystal structure. Thermal analysis indicates that 1 has a high thermal stability. 3-D fluorescence result shows the middle absorption peaks with the maximum excitement and emission wavelength 342 and 350 nm, respectively.Cyclic voltammogram in DMSO, DMF and MeCN gives a midpoint voltage of -0.003, 0.061 and 0.137 V versus SCE, respectively, showing the different solvent virtue on reduction potential.

  16. Synthesis and Crystal Structure of a New Dinuclear Manganese(Ⅱ) Manganese(Ⅲ) Complex of a Macrocyclic Ligand

    Institute of Scientific and Technical Information of China (English)

    JIAN Fang-fang; XIAO Hai-lian; XU Liang-zhong; PANG Lei

    2004-01-01

    A mixed-valence dinuclear manganese complex, [MnⅡMnⅢL](ClO4)·1/2MeOH, where L is a macrocyclic ligand derived from the cyclocondensation of sodium 2,6-diformyl-4-methylphenolate with N,N-bis(2-aminoethyl)-2-hydroxybenzyl amine, was obtained and its structure was determined by X-ray diffraction. The orange crystal is a monoclinic system with space group P21/c and lattice parameters a=1.1617(4), b=1.4005(3), c=1.4641(3) nm, β=113.03(2)°, and Z=2. The crystal structure shows that each pendant-arm is bonded in a bidentate fashion to the adjacent metal atom and that both the arms are on the same side of the macrocycle. The two Mn atoms are bridged by two μ2-phenoxy oxygen atoms of the tetra-imine macrocycle, and each Mn atom, locating in a trigonal prismatic coordination environment(N3O3), is six-coordinated by the two imine nitrogen atoms, one tertiary nitrogen atom and a pendant phenol moiety apart from the two oxygen atoms.

  17. Synthesis and Crystal Structure of Copper(II) Complex with Mixed Bipyridine and 2-Hydroxy-1-naphthaldehyde Ligands

    Institute of Scientific and Technical Information of China (English)

    卜平宇; 程鹏; 赵斌; 阎世平; 瘳代正; 姜宗慧; 刘松岩; 姚心侃; 王宏根

    2002-01-01

    A mononuclear copper(II) complex, [Cu(bipy)(naph)(ClO4)] (where bipy is bipyridine and naph is 2-hydroxy-1-naphthaldehyde), was synthesized and characterized by X-ray single-crystal structure analysis. The crystal is triclinic, space group P ī with a = 9.245(4), b = 9.962(4), c = 10.809(7) A, α = 84.83(5), β =82.35(4), γ = 81.02(4)°, V = 972.1 >3, C21H15ClCuN2O6 Mr = 490.36, Z = 2, F(000) = 498, Dx = 1.68 g/cm3, μ = 13.05 cm-1, R = 0.078, Rw = 0.081 for 2295 observed reflections with I > 3σ(I). The copper(II) ion is coordinated by two nitrogen atoms of bipy and two oxygen atoms of naph in the equatorial plane, with an axial perchlorate oxygen-copper(II) bond to copper(II) ion to form square-pyramidal coordination geometry. The coordination environment of copper(II) is similar to the active site of galactose oxidase and this compound may also be considered as the structural model of galactose oxidase.

  18. Synthesis and Crystal Structure of a New Three-dimensional Supramolecule of Copper(Ⅱ)Schiff Base Complex

    Institute of Scientific and Technical Information of China (English)

    LI Chun-Hong; WANG Qiang; XU Yan-Qing; HU Chang-Wen

    2008-01-01

    A new three-dimensional supramolecule composed of copper-Schiff base complex,[Cu(naphdien)]Cl·H2O,where naphdien is Schiff base of 2-hydroxy-1-naphthaldehyde and diethyle-netriamine,has been synthesized and determined by single-crystal X-ray diffraction.It belongs to the monoclinic system,space group P21/c,with a=7.3490(15),b=7.0847(16),c=30.845(3)(A),β=95.33(3)°,V=1599.O(5)(A)3,Z=4,C15H20ClCuN3O2,Mr=373.33,Dc=1.551 g/cm3,μ=1.543mm-1,F(000)=772,R=0.0536 and wR=0.0927 for 2788 unique reflections with 1659 observed ones(I>2σ(I)).In the crystal structure,mononuclear units[Cu(naphdien)]Cl·H2O are linked into a two-dimensional framework via strong hydrogen bonds,and extended into a three-dimensional supramolecular structure through π-π stacking interactions.

  19. Synthesis of antipodal -trisubstituted meso-tetraphenylporphyrins and the crystal structure of hexaphenylporphinatozinc(II) bispyridinate complex

    Indian Academy of Sciences (India)

    Bhyrappa Puttaiah; Velkannan Veerapandian

    2015-04-01

    series of antipodal -trisubstituted meso-tetraphenylporphyrins, H2TPP(R)3 (R = CH3, Ph, PE, and 2′-thienyl) derivatives and their metal (Cu(II) and Zn(II)) complexes were synthesised and characterised by electronic absorption, 1H NMR spectroscopy and mass spectrometry. The magnitude of the red-shift in absorption bands in these free-base porphyrins depend on the nature of the substituent and follow the general trend: PE > 2′ > Ph > CH3. Synthesis, characterisation and crystal structure of 2,5,10,12,15,20-hexaphenylporphinato zinc(II) bispyridinate, ZnTPP(Ph)2(Py)2 complex is also reported. It shows planar geometry of the porphyrin ring with two -phenyls located at the antipodal 2,12-pyrrole positions. The two axially coordinated pyridine ring planes are oriented almost parallel to each other and they are in staggered conformation relative to opposite pyrrolic nitrogens. The normal-coordinate structural decomposition analysis of the ZnTPP(Ph)2(Py)2 complex revealed slight wave distortion of the macrocycle.

  20. Three green luminescent cadmium complexes containing 8-aminoquinoline ligands: Syntheses, crystal structures, emission spectra and DFT calculations

    Energy Technology Data Exchange (ETDEWEB)

    Xu Heng; Huang Liangfang; Guo Limin; Zhang Yuanguang [Anhui Key Laboratory for Functional Coordination Compounds, Anqing Normal College, Anqing 246011 (China); Ren Xiaoming [Anhui Key Laboratory for Functional Coordination Compounds, Anqing Normal College, Anqing 246011 (China); Department of Applied Chemistry, Science College, Nanjing University of Technology, 5 Xin Mo Fan Road, Nanjing 210009 (China)], E-mail: xmren@njut.edu.cn; Song You [Coordination Chemistry Institute and State Key Laboratory, Nanjing University, Nanjing 210093 (China); Xie Jingli [School of Chemistry and Bio21 Institute, The University of Melbourne, Parkville, VIC 3010 (Australia)

    2008-10-15

    Three complexes, Cd(8-aminoql){sub 2}x{sub 2} (8-aminoql=8-aminoquinoline; X{sup -}=ClO{sub 4}{sup -}, SCN{sup -}, 1 and 2, respectively) and Cd(8-aminoql)(N{sub 3}){sub 2} (3), were synthesized and structurally characterized. For each complex, the Cd{sup 2+} ion exhibits distorted octahedral coordination geometry. Two 8-aminoquinoline molecules and two counter-anions are coordinated to the Cd{sup 2+} center to form a mononuclear species with two trans-ClO{sub 4}{sup -} anions for 1, while two SCN{sup -} anions adopt a cis-configuration for 2. The intermolecular H-bonding interactions between the -NH{sub 2} groups and the O atom (1) and the S atom (2) result in the formation of a 2-D layered structure. In the crystal of 3, the N{sub 3}{sup -} anions bridging the neighboring Cd(8-aminoql){sup 2+} units form a 1-D coordination polymer. The three complexes emit green luminescence. The emission bands possess a broad asymmetric feature, which can be assigned to L'LCT transitions based on DFT and TDDFT calculations.

  1. Low-dimensional compounds containing cyanido groups. XXVIII. Crystal structure, spectroscopic and magnetic properties of two copper(II) tetracyanidoplatinate complexes with 1,2-diaminopropane

    Science.gov (United States)

    Vavra, Martin; Potočňák, Ivan; Dušek, Michal; Čižmár, Erik; Ozerov, Mykhaylo; Zvyagin, Sergei A.

    2015-05-01

    Violet crystals of {[Cu(pn)2]2[Pt(CN)4]}[Pt(CN)4]·2H2O (1, pn=1,2-diaminopropane) and blue crystals of [Cu(pn)Pt(CN)4]n·nH2O (2) were prepared under hydrothermal conditions and characterized using elemental analysis, IR and UV-vis spectroscopy and by X-ray crystal structure analysis. Different number of ν(C≡N) absorption bands of these two compounds reflects their different structures. An X-ray crystal structure analysis has shown that complex 1 is of ionic character and is formed from trinuclear [Cu(pn)2-Pt(CN)4-Cu(pn)2]2+ complex cation and discrete [Pt(CN)4]2- anion together with two molecules of crystal water. On the other hand, complex 2 is of polymeric character and is formed by 2D networks of [Cu(pn)Pt(CN)4]n composition and completed by n molecules of crystal water. Magnetic measurements show the presence of a weak antiferromagnetic exchange interaction in complex 1 (Θ=-0.2 K), while the magnetic susceptibility of complex 2 is well described by the model of uniform S=1/2 spin chain with exchange interaction J/kB=-1.64 K.

  2. Crystal structure of an affinity-matured prolactin complexed to its dimerized receptor reveals the topology of hormone binding site 2

    DEFF Research Database (Denmark)

    Broutin, Isabelle; Jomain, Jean-Baptiste; Tallet, Estelle;

    2010-01-01

    We report the first crystal structure of a 1:2 hormone.receptor complex that involves prolactin (PRL) as the ligand, at 3.8-A resolution. Stable ternary complexes were obtained by generating affinity-matured PRL variants harboring an N-terminal tail from ovine placental lactogen, a closely relate...

  3. Synthesis and X-ray crystal structure of a novel organometallic (µ(3)-oxido)(µ(3)-imido) trinuclear iridium complex

    DEFF Research Database (Denmark)

    Schau-Magnussen, Magnus; Malcho, Phillip; Herbst, Konrad

    2011-01-01

    Reaction of the organometallic aqua ion [Cp*Ir(H(2)O)(3)](2+) with tert-butyl(trimethylsilyl)amine in acetone yielded a novel trinuclear (µ(3)-oxido)(µ(3)-imido)pentamethylcyclopentadienyliridium(iii) complex, [(Cp*Ir)(3)(O)(N(t)Bu)](2+). Single crystal structure analyses show the complex can...

  4. Synthesis, Crystal Structure and Thermochemical Properties of a One-Dimensional Chain Complex [Cd(succ)PIP]n

    Institute of Scientific and Technical Information of China (English)

    李霞; 赵文杰; 刘飞; 谭金婷; 冯星; 卢颖莉; 杨旭武

    2012-01-01

    A new complex, [Cd(succ)PIP], (PIP=2-phenyl-imidazo[4,5-J]l,10-phenanthroline, H2-succ=succinate), was synthesized and characterized by X-ray crystallography, elemental analysis, and TG-DTG. The results show that the complex crystallizes in an orthorhombic space group Pcca; a=14.065(2) A, b=9.901(8) A, c=28.933(2) A and Z=8. The structure of the complex is one-dimensional chain [Cd(succ)PIP],, and each Cd2+ is five-coordinated by two chelating nitrogen atoms from one PIP ligand, three oxygen atoms from three different succ dianionic ligands to form a distorted trigonal-bipyramida geometry. The constant-volume combustion energy of the complex, AoU, was determined by an intelligent micro-rotating-bomb calorimeter (IMRBC-type I) at 298.15 K. Then the standard mo- lar enthalpy of combustion, AcHm, and the standard molar enthalpy of formation, △fHm have been calculated.

  5. New five coordinated supramolecular structured cadmium complex as precursor for CdO nanoparticles: Synthesis, crystal structure, theoretical and 3D Hirshfeld surface analyses

    Science.gov (United States)

    Ghanbari Niyaky, S.; Montazerozohori, M.; Masoudiasl, A.; White, J. M.

    2017-03-01

    In this paper, a combined experimental and theoretical study on a new CdLBr2 complex (L = N1-(2-bromobenzylidene)-N2-(2-((E)-(2-bromobenzylidene) amino)ethyl) ethane-1,2-diamine) synthesized via template method, is described. The crystal structure analysis of the complex indicates that, the Cd(II) ion is centered in a distorted square pyramidal space constructed by three iminic nitrogens of the ligand as well as two bromide anions. More analysis of crystal packing proposed a supramolecular structure stabilized by some non-covalent interactions such as Br⋯Br and Xsbnd H⋯Br (X = N and C) in solid state. Furthermore, 3D Hirshfeld surface analyses and DFT studies were applied for theoretical investigation of the complexes. Theoretical achievements were found in a good agreement with respect to the experimental data. To evaluate the nature of bonding and the strength of the intra and inter-molecular interactions a natural bond orbital (NBO) analysis on the complex structure was performed. Time dependent density functional theory (TD-DFT) was also applied to predict the electronic spectral data of the complex as compared with the experimental ones. CdLBr2 complex as nano-structure compound was also prepared under ultrasonic conditions and characterized by scanning electron microscopy (SEM) and X-ray powder diffraction (XRPD). Finally, it was found that the cadmium complex can be used as a suitable precursor for preparation of CdO nanoparticles via calcination process at 600 °C under air atmosphere.

  6. Crystal structure of the Epstein-Barr virus (EBV) glycoprotein H/glycoprotein L (gH/gL) complex.

    Science.gov (United States)

    Matsuura, Hisae; Kirschner, Austin N; Longnecker, Richard; Jardetzky, Theodore S

    2010-12-28

    The Epstein-Barr virus (EBV) is a γ-herpesvirus that infects B cells and epithelial cells and that has been linked to malignancies in both cell types in vivo. EBV, like other herpesviruses, has three glycoproteins, glycoprotein B (gB), gH, and gL, that form the core membrane fusion machinery mediating viral penetration into the cell. The gH and gL proteins associate to form a heterodimeric complex, which is necessary for efficient membrane fusion and also implicated in direct binding to epithelial cell receptors required for viral entry. To gain insight into the mechanistic role of gH/gL, we determined the crystal structure of the EBV gH/gL complex. The structure is comprised of four domains organized along the longest axis of the molecule. Comparisons with homologous HSV-2 gH/gL and partial pseudorabies virus gH structures support the domain boundaries determined for the EBV gH/gL structure and illustrate significant differences in interdomain packing angles. The gL subunit and N-terminal residues of gH form a globular domain at one end of the structure, implicated in interactions with gB and activation of membrane fusion. The C-terminal domain of gH, proximal to the viral membrane, is also implicated in membrane fusion. The gH/gL structure locates an integrin binding motif, implicated in epithelial cell entry, on a prominent loop in the central region of the structure. Multiple regions of gH/gL, including its two extreme ends, are functionally important, consistent with the multiple roles of gH/gL in EBV entry.

  7. Crystal Structures of RMI1 and RMI2, Two OB-Fold Regulatory Subunits of the BLM Complex

    Energy Technology Data Exchange (ETDEWEB)

    Wang, Feng; Yang, Yuting; Singh, Thiyam Ramsing; Busygina, Valeria; Guo, Rong; Wan, Ke; Wang, Weidong; Sung, Patrick; Meetei, Amom Ruhikanta; Lei, Ming (Yale-MED); (NIH); (Michigan-Med); (UCIN-MED)

    2010-11-05

    Mutations in BLM, a RecQ-like helicase, are linked to the autosomal recessive cancer-prone disorder Bloom's syndrome. BLM associates with topoisomerase (Topo) III{alpha}, RMI1, and RMI2 to form the BLM complex that is essential for genome stability. The RMI1-RMI2 heterodimer stimulates the dissolution of double Holliday junction into non-crossover recombinants mediated by BLM-Topo III{alpha} and is essential for stabilizing the BLM complex. However, the molecular basis of these functions of RMI1 and RMI2 remains unclear. Here we report the crystal structures of multiple domains of RMI1-RMI2, providing direct confirmation of the existence of three oligonucleotide/oligosaccharide binding (OB)-folds in RMI1-RMI2. Our structural and biochemical analyses revealed an unexpected insertion motif in RMI1N-OB, which is important for stimulating the dHJ dissolution. We also revealed the structural basis of the interaction between RMI1C-OB and RMI2-OB and demonstrated the functional importance of the RMI1-RMI2 interaction in genome stability maintenance.

  8. The crystal structure of the Leishmania major deoxyuridine triphosphate nucleotidohydrolase in complex with nucleotide analogues, dUMP, and deoxyuridine.

    Science.gov (United States)

    Hemsworth, Glyn R; Moroz, Olga V; Fogg, Mark J; Scott, Benjamin; Bosch-Navarrete, Cristina; González-Pacanowska, Dolores; Wilson, Keith S

    2011-05-06

    Members of the Leishmania genus are the causative agents of the life-threatening disease leishmaniasis. New drugs are being sought due to increasing resistance and adverse side effects with current treatments. The knowledge that dUTPase is an essential enzyme and that the all α-helical dimeric kinetoplastid dUTPases have completely different structures compared with the trimeric β-sheet type dUTPase possessed by most organisms, including humans, make the dimeric enzymes attractive drug targets. Here, we present crystal structures of the Leishmania major dUTPase in complex with substrate analogues, the product dUMP and a substrate fragment, and of the homologous Campylobacter jejuni dUTPase in complex with a triphosphate substrate analogue. The metal-binding properties of both enzymes are shown to be dependent upon the ligand identity, a previously unseen characteristic of this family. Furthermore, structures of the Leishmania enzyme in the presence of dUMP and deoxyuridine coupled with tryptophan fluorescence quenching indicate that occupation of the phosphate binding region is essential for induction of the closed conformation and hence for substrate binding. These findings will aid in the development of dUTPase inhibitors as potential new lead anti-trypanosomal compounds.

  9. Crystal structures of Leishmania mexicana arginase complexed with α,α-disubstituted boronic amino-acid inhibitors.

    Science.gov (United States)

    Hai, Yang; Christianson, David W

    2016-04-01

    Leishmania arginase is a potential drug target for the treatment of leishmaniasis because this binuclear manganese metalloenzyme initiates de novo polyamine biosynthesis by catalyzing the hydrolysis of L-arginine to generate L-ornithine and urea. The product L-ornithine subsequently undergoes decarboxylation to yield putrescine, which in turn is utilized for spermidine biosynthesis. Polyamines such as spermidine are essential for the growth and survival of the parasite, so inhibition of enzymes in the polyamine-biosynthetic pathway comprises an effective strategy for treating parasitic infections. To this end, two X-ray crystal structures of L. mexicana arginase complexed with α,α-disubstituted boronic amino-acid inhibitors based on the molecular scaffold of 2-(S)-amino-6-boronohexanoic acid are now reported. Structural comparisons with human and parasitic arginase complexes reveal interesting differences in the binding modes of the additional α-substituents, i.e. the D side chains, of these inhibitors. Subtle differences in the three-dimensional contours of the outer active-site rims among arginases from different species lead to different conformations of the D side chains and thus different inhibitor-affinity trends. The structures suggest that it is possible to maintain affinity while fine-tuning intermolecular interactions of the D side chain of α,α-disubstituted boronic amino-acid inhibitors in the search for isozyme-specific and species-specific arginase inhibitors.

  10. Pattern information extraction from crystal structures

    OpenAIRE

    Okuyan, Erhan

    2005-01-01

    Cataloged from PDF version of article. Determining crystal structure parameters of a material is a quite important issue in crystallography. Knowing the crystal structure parameters helps to understand physical behavior of material. For complex structures, particularly for materials which also contain local symmetry as well as global symmetry, obtaining crystal parameters can be quite hard. This work provides a tool that will extract crystal parameters such as primitive vect...

  11. Crystal Structure of the Complex of Human FasL and Its Decoy Receptor DcR3.

    Science.gov (United States)

    Liu, Weifeng; Ramagopal, Udupi; Cheng, Huiyong; Bonanno, Jeffrey B; Toro, Rafael; Bhosle, Rahul; Zhan, Chenyang; Almo, Steven C

    2016-11-01

    The apoptotic effect of FasL:Fas signaling is disrupted by DcR3, a unique secreted member of the tumor necrosis factor receptor superfamily, which also binds and neutralizes TL1A and LIGHT. DcR3 is highly elevated in patients with various tumors and contributes to mechanisms by which tumor cells to evade host immune surveillance. Here we report the crystal structure of FasL in complex with DcR3. Comparison of FasL:DcR3 structure with our earlier TL1A:DcR3 and LIGHT:DcR3 structures supports a paradigm involving the recognition of invariant main-chain and conserved side-chain functionalities, which is responsible for the recognition of multiple TNF ligands exhibited by DcR3. The FasL:DcR3 structure also provides insight into the FasL:Fas recognition surface. We demonstrate that the ability of recombinant FasL to induce Jurkat cell apoptosis is significantly enhanced by native glycosylation or by structure-inspired mutations, both of which result in reduced tendency to aggregate. All of these activities are efficiently inhibited by recombinant DcR3.

  12. Low-dimensional compounds containing cyanido groups. XXVIII. Crystal structure, spectroscopic and magnetic properties of two copper(II) tetracyanidoplatinate complexes with 1,2-diaminopropane

    Energy Technology Data Exchange (ETDEWEB)

    Vavra, Martin, E-mail: martin.vavra@upjs.sk [Institute of Chemistry, Faculty of Science, P.J. Šafárik University, Moyzesova 11, SK-04154 Košice (Slovakia); Potočňák, Ivan [Institute of Chemistry, Faculty of Science, P.J. Šafárik University, Moyzesova 11, SK-04154 Košice (Slovakia); Dušek, Michal [Institute of Physics, Na Slovance 2, CZ-182 21 Praha 8 (Czech Republic); Čižmár, Erik [Institute of Physics, Faculty of Science, P.J. Šafárik University, Park Angelinum 9, SK-04154 Košice (Slovakia); Ozerov, Mykhaylo; Zvyagin, Sergei A. [Dresden High Magnetic Field Laboratory, Helmholtz-Zentrum Dresden-Rossendorf, D-01314 Dresden (Germany)

    2015-05-15

    Violet crystals of ([Cu(pn){sub 2}]{sub 2}[Pt(CN){sub 4}])[Pt(CN){sub 4}]·2H{sub 2}O (1, pn=1,2-diaminopropane) and blue crystals of [Cu(pn)Pt(CN){sub 4}]{sub n}·nH{sub 2}O (2) were prepared under hydrothermal conditions and characterized using elemental analysis, IR and UV–vis spectroscopy and by X-ray crystal structure analysis. Different number of ν(C≡N) absorption bands of these two compounds reflects their different structures. An X-ray crystal structure analysis has shown that complex 1 is of ionic character and is formed from trinuclear [Cu(pn){sub 2}–Pt(CN){sub 4}–Cu(pn){sub 2}]{sup 2+} complex cation and discrete [Pt(CN){sub 4}]{sup 2–} anion together with two molecules of crystal water. On the other hand, complex 2 is of polymeric character and is formed by 2D networks of [Cu(pn)Pt(CN){sub 4}]{sub n} composition and completed by n molecules of crystal water. Magnetic measurements show the presence of a weak antiferromagnetic exchange interaction in complex 1 (Θ=–0.2 K), while the magnetic susceptibility of complex 2 is well described by the model of uniform S=1/2 spin chain with exchange interaction J/k{sub B}=–1.64 K. - Graphical abstract: Two complexes of different structural types from the system Cu(II) – 1,2–diaminopropane – [Pt(CN){sub 4}]{sup 2–} have been isolated. These were characterized by IR and UV–VIS spectroscopy, X–ray crystal structure analysis together with the magnetic measurements. On one hand ([Cu(pn){sub 2}]{sub 2}[Pt(CN){sub 4}])[Pt(CN){sub 4}]∙2H{sub 2}O is of ionic character and is formed from trinuclear complex cation and discrete anion together with two molecules of crystal water. On the other hand, [Cu(pn)Pt(CN){sub 4}]{sub n}∙nH{sub 2}O is of polymeric character and is formed by 2D networks of [Cu(pn)Pt(CN){sub 4}]{sub n} composition and completed by n molecules of crystal water. - Highlights: • Two complexes of different compositions from one system have been isolated. • First complex is of

  13. Crystal structure of a KSHV-SOX-DNA complex: insights into the molecular mechanisms underlying DNase activity and host shutoff.

    Science.gov (United States)

    Bagnéris, Claire; Briggs, Louise C; Savva, Renos; Ebrahimi, Bahram; Barrett, Tracey E

    2011-07-01

    The early lytic phase of Kaposi's sarcoma herpesvirus infection is characterized by viral replication and the global degradation (shutoff) of host mRNA. Key to both activities is the virally encoded alkaline exonuclease KSHV SOX. While the DNase activity of KSHV SOX is required for the resolution of viral genomic DNA as a precursor to encapsidation, its exact involvement in host shutoff remains to be determined. We present the first crystal structure of a KSHV SOX-DNA complex that has illuminated the catalytic mechanism underpinning both its endo and exonuclease activities. We further illustrate that KSHV SOX, similar to its Epstein-Barr virus homologue, has an intrinsic RNase activity in vitro that although an element of host shutoff, cannot solely account for the phenomenon.

  14. A pyrrolo-tetrathiafulvalene belt and its TCNQ complex: Syntheses and X-ray crystal structures

    DEFF Research Database (Denmark)

    Nielsen, Kent; Jeppesen, Jan O.; Thorup, Niels;

    2002-01-01

    A general and efficient four-step synthesis of a tetrathiafulvalene-belt 6, starting from the monopyrrolo-tetrathiafulvalene building block 1, is described, together with its 7,7,8,8-tetracyano-p-quinodimethane charge transfer complex. The complexation of the electron acceptor 7,7,8,8-tetracyano-...

  15. Tridentate Schiff base (ONO) transition metal complexes: Synthesis, crystal structure, spectroscopic and larvicidal studies

    Indian Academy of Sciences (India)

    SUNDARAMURTHY SANTHA LAKSHMI; KANNAPPAN GEETHA; P MAHADEVI

    2016-07-01

    A series of four new Schiff base transition metal complexes [Co(II), Ni(II), Cu(II) and Zn(II)] derived from N-(salicylidene)-L-alanine and N,N,N',N'-tetramethylethylene-1,2-diamine (tmen) were designed, synthesized and tested for larvicidal activity against Culex quinquefasciatus, the southern house mosquito, which is the primary vector of St. Louis encephalitis virus and West Nile virus. All the complexes were characterized by physicochemical and spectral studies such as UV-Visible, FTIR, and EPR. The X-ray crystallographic analysis of Ni(II) complex revealed that, Ni(II) cation is surrounded by nitrogen and oxygen atoms from the Schiff base ligand, the oxygen atom of a water molecule, and two nitrogen atoms from tmen. Intermolecularhydrogen bonding stabilizes the Ni(II) complex. Results indicated that all the complexes exhibited higher mosquito larvicidal activity against C. quinquefasciatus.

  16. The impact of crystallization conditions on structure-based drug design: A case study on the methylene blue/acetylcholinesterase complex.

    Science.gov (United States)

    Dym, Orly; Song, Wanling; Felder, Clifford; Roth, Esther; Shnyrov, Valery; Ashani, Yacov; Xu, Yechun; Joosten, Robbie P; Weiner, Lev; Sussman, Joel L; Silman, Israel

    2016-06-01

    Structure-based drug design utilizes apoprotein or complex structures retrieved from the PDB. >57% of crystallographic PDB entries were obtained with polyethylene glycols (PEGs) as precipitant and/or as cryoprotectant, but methylene blue and decamethonium in acetylcholinesterase complexes obtained using isomorphous crystals precipitated with PEG200 or ammonium sulfate. The ligands' positions within the active-site gorge in complexes obtained using PEG200 are influenced by presence of ethyleneglycol oligomers in both cases bound to W84 at the gorge's bottom, preventing interaction of the ligand's proximal quaternary group with its indole. Consequently, both ligands are ∼3.0Å further up the gorge than in complexes obtained using crystals precipitated with ammonium sulfate, in which the quaternary groups make direct π-cation interactions with the indole. These findings have implications for structure-based drug design, since data for ligand-protein complexes with polyethylene glycol as precipitant may not reflect the ligand's position in its absence, and could result in selecting incorrect drug discovery leads. Docking methylene blue into the structure obtained with PEG200, but omitting the ethyleneglycols, yields results agreeing poorly with the crystal structure; excellent agreement is obtained if they are included. Many proteins display features in which precipitants might lodge. It will be important to investigate presence of precipitants in published crystal structures, and whether it has resulted in misinterpreting electron density maps, adversely affecting drug design. © 2016 The Protein Society.

  17. DFT study and crystal structure analysis of a new nano-structure five coordinated Hg(II) complex involving C-H⋯O, N⋯O and π⋯π interactions in a supra-molecular structure.

    Science.gov (United States)

    Montazerozohori, M; Musavi, S A; Masoudiasl, A; Hojjati, A; Assoud, A

    2015-08-05

    In this research, template synthesis and crystal structure of a new HgLI₂ complex are presented (L=N(1)-(4-nitrobenzylidene)-N(2)-(2-((E)-(4-nitrobenzylidene)amino)ethyl)ethane-1,2-diamine). The mercury complex crystallizes in the triclinic system with space group of P1¯. The crystal structure of the complex shows a distorted trigonal bipyramidal geometry around the mercury(II) center; including two I and an N atoms of Schiff base ligand in equatorial plane and two iminic N atoms in axial positions. Two five membered mercury containing rings [Hg(-N-C-C-N-)] are found in the structure. Some C-H⋯O, N⋯O and π⋯π intermolecular interactions causes a supra-molecular network in the solid-state. In addition to crystal structure analysis, density functional theory (DFT) study at the B3LYP/LanL2DZ level of theory has been also performed on the structure. Thereafter some theoretical structural and spectral data were compared with experimental results. Furthermore, total energy levels of HOMO and LUMO orbitals, molecular electrostatic potential, Mullikan atomic charges, thermodynamic and polarizability properties of the complex were calculated. Finally the mercury complex was prepared in nano-structure size confirmed by SEM and XRD analyses. The particles size of the titled complex was evaluated under 40 nm based on Sherrer's formula.

  18. Crystal structure and luminescence spectra of Eu(DBM)3 4,4’-BIPY complex

    Institute of Scientific and Technical Information of China (English)

    王明昭; 金林培; 王哲民; 蔡冠梁; 张家骅

    1995-01-01

    The title complex,C55H41O6N2Eu,Mr=979.91,crystallizes in the monoclinic space group C2/cwith a=2.0413(4),b=2.5556(5),c=0.8926(3)nm,β=104.64(2)°,μ=14.44cm-1,T=295K and the finalR=0.043.The structure was solved by the heavy-atom method and refined by the full-matrix least-squarestechnique for 64 non-hydrogen atoms anisotropicaUy for 2180 reflections with I≥3σ(I).The title complexforms one-dimensional chains through C-C bonds between pyridine rings of 4,4’-bipyridine.The centralEu(Ⅲ)ion is coordinated to six oxygen atoms and two nitrogen atoms and its polyhedron is a distorted squareantiprism.The high resolution laser excited excitation and luminescence spectra show that the complex pos-sesses two Eu(Ⅲ)sites with the energy difference 39 cm-1of 5D0 levels in excited state.The radiationless energytransfer to a great extent between the two Eu(Ⅲ)sites and the dominant luminescence of Eu(Ⅲ)site withlower energy as the complex was excited have been supported by the selectively excited luminescence spectra,time-resolved luminescence spectra and selectively excited luminescence decay curves.

  19. Hydrothermal Synthesis, Crystal Structure and Electrochemical Properties of Complex Zn(phen)(m-CBA)2(H2O)

    Institute of Scientific and Technical Information of China (English)

    LUO Bing-Chu; LI Chang-Hong; PENG Yun-Lin; KUANG Yun-Fei

    2007-01-01

    A novel complex Zn(phen)(m-CBA)2(H2O) with m-chlorobenzoic acid (m-CBA), 1,10-phenanthroline (phen) and zinc chloride has been hydrothermally synthesized and characterized. Crystal data for this complex: triclinic, space group P-1, a = 0.8361(5), b = 1.2455(7), c = 1.3107(7) nm, α = 115.637(8), β = 91.014(9), γ = 104.857(8)°, V = 1.1763(11) nm3, Dc = 1.623 g/cm3, Z = 2, F(000) = 584, GOOF = 1.078, the final R = 0.0453 and wR = 0.1192. Structure analysis shows that the zinc ion coordinates with two nitrogen atoms of one 1,10-phenanthroline molecule, three oxygen atoms from two m-chlorobenzoic acid molecules and one water molecule, giving a distorted square-pyramidal coordination geometry. The cyclic voltametric behavior of the complex was also investigated.

  20. Preparation, Crystal Structure and Properties of a Pentametallic 3-Ferrocenyl-2-crotonic acid-Bridged Copper(Ⅱ) Complex

    Institute of Scientific and Technical Information of China (English)

    杨家祥; 张泽; 吴杰颖; 田玉鹏; 刘清亮; FUN,HoongKun; USMAN,Anwar; 许志强; LAURENCE,K.Thompson

    2003-01-01

    The synthesis and characterization of the copper(ll) complex[ Cu2 ( OOCCH = C (CH3) Fc )3 ( phen ) 2 ] ClO4·2H2O ( 1 ) are reported. The structure of the complex was determined by singlecrystal X-ray analysis. The compound crystallizes in the monoclinic system, space group Pc, with Z = 2, a = 1.2799(4) nm,b =0.9969(4) nm, c = 2.5228 nm, and β = 91.576(1)°. The cationic part of 1 indicates a penametallic core in which three 3-ferrocenyl-2-crotonic acid salt (FCA) groups act as (O, O'') bridging ligands between two copper(II) ions with a squarepyramidal environment. Cyclic voltammetric experiments in acetonitrile have been performed mainly to examine the Fe(Ⅱ)→Fe(Ⅲ) one-electron oxidation in FCA and its complex. The variable-temperature magnetic susceptibility measurements re-vealed very weak intramolecular anti-ferromagnetic coupling.Fitting parameters are 2J = -0.2 cm-1, g = 2.114, and θ=0 K.

  1. Crystal structures of two peptide-HLA-B*1501 complexes; structural characterization of the HLA-B62 supertype

    DEFF Research Database (Denmark)

    Roder, G; Blicher, Thomas; Justesen, Sune Frederik Lamdahl

    2006-01-01

    -Barr virus nuclear antigen-3A) was determined to 2.3 A resolution. The structure of HLA-B*1501 in complex with a peptide (ILGPPGSVY) derived from human ubiquitin-conjugating enzyme-E2 corresponding to positions 91-99 was solved to 1.8 A resolution. Mutual comparisons of these two structures with structures......-pocket in HLA-B*1501. The residues most important for the specificity of this pocket are Tyr74, Leu81, Leu95, Tyr123 and Trp147. These residues create a hydrophobic interior in the F-pocket and their spatial arrangement makes the pocket capable of containing large, bulky peptide side chains. Ser116 is located...

  2. Crystal structure of human TWEAK in complex with the Fab fragment of a neutralizing antibody reveals insights into receptor binding.

    Directory of Open Access Journals (Sweden)

    Alfred Lammens

    Full Text Available The tumor necrosis factor-like weak inducer of apoptosis (TWEAK is a multifunctional cytokine playing a key role in tissue regeneration and remodeling. Dysregulation of TWEAK signaling is involved in various pathological processes like autoimmune diseases and cancer. The unique interaction with its cognate receptor Fn14 makes both ligand and receptor promising targets for novel therapeutics. To gain insights into this important signaling pathway, we determined the structure of soluble human TWEAK in complex with the Fab fragment of an antibody selected for inhibition of receptor binding. In the crystallized complex TWEAK is bound by three Fab fragments of the neutralizing antibody. Homology modeling shows that Fab binding overlaps with the putative Fn14 binding site of TWEAK. Docking of the Fn14 cysteine rich domain (CRD to that site generates a highly complementary interface with perfectly opposing charged and hydrophobic residues. Taken together the presented structure provides new insights into the biology of TWEAK and the TWEAK/Fn14 pathway, which will help to optimize the therapeutic strategy for treatment of related cancer types and autoimmune diseases.

  3. Synthesis and Crystal Structure of a Dinuclear Cu(II) Complex with Tridentate Schiff Base and Azido Bridge

    Institute of Scientific and Technical Information of China (English)

    LIN Hong; FENG Yun Long; GAO Shan

    2005-01-01

    A new dinuclear copper(II) complex ([Cu(C12H17N2O)(N3)]2, C24H34Cu2N10O2) has been synthesized and characterized by X-ray structure determination. It crystallizes in the monoclinic system, space group P21/c with a = 18.529(4), b = 10.933(2), c = 14.534(3)(A),β = 111.07(3)(A), V = 2748(1)(A)3, Z = 4, Mr = 621.69, F(000) = 1288, Dc = 1.503 g/cm3 and μ(MoKα) = 1.590 mm(1. The structure was refined to R = 0.0647 and wR = 0.1846 for 4406 observed reflections (I > 2σ(I)). The asymmetric unit comprises two halfmolecules. The complex is a centrosymmetric dimmer in which the copper atoms are penta-coordinated by three coordination atoms from the corresponding tridentate Schiff base ligand and two bridging azide anions. The Cu(II)…Cu(II) average distance is 3.350(1)(A).

  4. Crystal Structure of the Escherichia coli Fic Toxin-Like Protein in Complex with Its Cognate Antitoxin

    Science.gov (United States)

    Stanger, Frédéric V.; Harms, Alexander; Dehio, Christoph; Schirmer, Tilman

    2016-01-01

    FIC domain proteins mediate post-translational modifications of target proteins, which typically results in their inactivation. Depending on the conservation of crucial active site residues, the FIC fold serves as structural scaffold for various enzymatic activities, mostly target adenylylation. The founding member of the vast Fic protein family, EcFicT, was identified in Escherichia coli some time ago. The G55R point mutant of EcFicT displays the “filamentation induced by cAMP” (Fic) phenotype at high 3',5'-cyclic adenosine monophosphate (cAMP) concentrations and elevated temperature, but the underlying molecular mechanism and any putative biochemical activity of EcFicT have remained unknown. EcFicT belongs to class I Fic toxin proteins that are encoded together with a small inhibitory protein (antitoxin), named EcFicA in E. coli. Here, we report the crystal structures of two mutant EcFicT/EcFicA complexes (EcFicTG55RA and EcFicTAE28G) both showing close resemblance with the structure of the AMP-transferase VbhT from Bartonella schoenbuchensis in complex with its cognate antitoxin VbhA. However, crucial differences in the active site of EcFicT compared to VbhT and other AMP-transferases rationalize the lack of evidence for adenylylation activity. Comprehensive bioinformatic analysis suggests that EcFicT has evolved from canonical AMP-transferases and has acquired a conserved binding site for a yet to be discovered novel substrate. The G55R mutation has no effect on structure or thermal stability of EcFicT, such that the molecular basis for its associated Fic phenotype remains elusive. We anticipate that this structure will inspire further bioinformatic and experimental analyses in order to characterize the enzymatic activity of EcFicT and help revealing its physiological role. PMID:27657533

  5. Synthesis, Crystal Structure, Stacking Effect and Antibacterial Studies of a Novel Quaternary Copper (II Complex with Quinolone

    Directory of Open Access Journals (Sweden)

    Longguan Zhu

    2003-02-01

    Full Text Available The structural properties of a new copper (II complex [Cu2(cip2(bpy2(pip]·6H2O (bpy=2,2’-bipyridyl, cip=1-cyclopropyl-6-4-oxo-1,4-dihydroquinoline-3-carboxylic acid, pip= piperazinyl anion, obtained during the synthesis of the copper complex with ciprofloxacin (cpf, has been investigated. The complex crystallizes in the triclinic system, space group P-1. The cell dimensions are: a=6.874(2 Å, b= 10.761(3 Å, c= 17.969(5 Å, α =80.071(6°, β= 85.253(6°, γ=79.109(6°,V=1284.5(6 Å3, and Z=2. The Cu (II ion displays a five-coordinate square pyramidal coordination with two nitrogen donors from bpy, the 4-keto and 3-carboxylate oxygen donors of cip, and the third nitrogen atom of the pip anion occupying the fifth site. There is a stack effect between cip ring and bpy ring from another molecule, where the stacking distance is about 3.5 Å. The results of elemental analysis and FT-IR measurement are also included. Both ligand and complex were assayed against gram-positive and gram-negative bacteria by the doubling dilutions method. The complex shows the same minimal inhibitory concentration (MIC against S. Aureus and E. Coli bacteria as the corresponding ligand.

  6. Synthesis of Titanium Dioxide Nanocrystals with Controlled Crystal- and Micro-structures from Titanium Complexes

    OpenAIRE

    Makoto Kobayashi; Hideki Kato; Masato Kakihana

    2013-01-01

    Selective synthesis of titanium dioxide (TiO2) polymorphs including anatase, rutile, brookite and TiO2(B) by solvothermal treatment of water-soluble titanium complexes is described with a special focus on their morphological control. The utilization of water-soluble titanium complexes as a raw material allowed us to employ various additives in the synthesis of TiO2. As a result, the selective synthesis of the polymorphs, as well as diverse morphological control, was achieved.

  7. New ruthenium(II bipyridyl complex: Synthesis, crystal structure and cytotoxicity

    Directory of Open Access Journals (Sweden)

    Baroud Afya A.

    2017-01-01

    Full Text Available A new Ru(II bipyridyl complex with O4-hydrogenpyridine-2,4-dicarboxylate was synthesized and characterized by IR, NMR and mass spectrometry, X-ray diffraction analysis and elemental analysis. The electrochemical characteristics of the complex were investigated by cyclic voltammetry, revealing Ru(II/Ru(III electron transfer in the positive range of potentials. On the opposite potential side, multiple partially reversible peaks were dominant, representing subsequent reductions of the bulky bipyridyl moiety. The cytotoxic activity of the complex was tested in two human cancer cell lines: A549 (lung cancer and K562 (leukemia as well as non-tumor MRC-5 cells, by MTT assays. The IC50 values were > 300 and 177.63±2.28 μM for the A549 and K562 cells, respectively. [Project of the Serbian Ministry of Education, Science and Technological Development, Grant no. 172035

  8. Crystal structures of three complexes of zinc chloride with tri-tert-butylphosphane

    Directory of Open Access Journals (Sweden)

    Aaron D. Finke

    2016-01-01

    Full Text Available Under anhydrous conditions and in the absence of a Lewis-base solvent, a zinc chloride complex with tri-tert-butylphosphane as the μ-bridged dimer is formed, viz. di-μ-chlorido-bis[chloridobis(tri-tert-butylphosphanezinc], [ZnCl4(C12H27P2], (1, which features a nearly square-shaped (ZnCl2 cyclic core and whose Cl atoms interact weakly with C—H groups on the phosphane ligand. In the presence of THF, monomeric dichlorido(tetrahydrofuran-κO(tri-tert-butylphosphane-κPzinc, [ZnCl2(C4H8O(C12H27P] or [P(tBu3(THFZnCl2], (2, is formed. This slightly distorted tetrahedral Zn complex has weak C—H...Cl interactions between the Cl atoms and phosphane and THF C—H groups. Under ambient conditions, the hydrolysed complex tri-tert-butylphosphonium aquatrichloridozincate 1,2-dichloroethane monosolvate, (C12H28P[ZnCl3(H2O]·C2H4Cl2 or [HPtBu3]+ [(H2OZnCl3]−·C2H4Cl2, (3, is formed. This complex forms chains of [(H2OZnCl3]− anions from hydrogen-bonding interactions between the water H atoms and Cl atoms that propagate along the b axis.

  9. Crystal structures of bis- and hexakis[(6,6′-dihydroxybipyridinecopper(II] nitrate coordination complexes

    Directory of Open Access Journals (Sweden)

    Deidra L. Gerlach

    2015-12-01

    Full Text Available Two multinuclear complexes synthesized from Cu(NO32 and 6,6′-dihydroxybipyridine (dhbp exhibit bridging nitrate and hydroxide ligands. The dinuclear complex (6,6′-dihydroxybipyridine-2κ2N,N′[μ-6-(6-hydroxypyridin-2-ylpyridin-2-olato-1:2κ3N,N′:O2](μ-hydroxido-1:2κ2O:O′(μ-nitrato-1:2κ2O:O′(nitrato-1κOdicopper(II, [Cu2(C10H7N2O2(OH(NO32(C10H8N2O2] or [Cu(6-OH-6′-O-bpy(NO3(μ-OH(μ-NO3Cu(6,6′-dhbp], (I, with a 2:1 ratio of nitrate to hydroxide anions and one partially deprotonated dhbp ligand, forms from a water–ethanol mixture at neutral pH. The hexanuclear complex bis(μ3-bipyridine-2,2′-diolato-κ3O:N,N′:O′tetrakis(6,6′-dihydroxybipyridine-κ2N,N′tetrakis(μ-hydroxido-κ2O:O′bis(methanol-κOtetrakis(μ-nitrato-κ2O:O′hexacopper(II, [Cu6(C10H6N2O22(CH4O2(OH4(NO34(C10H8N2O24] or [Cu(6,6′-dhbp(μ-NO32(μ-OHCu(6,6′-O-bpy(μ-OHCu(6,6′dhbp(CH3OH]2, (II, with a 1:1 NO3–OH ratio and two fully protonated and fully deprotonated dhbp ligands, was obtained by methanol recrystallization of material obtained at pH 3. Complex (II lies across an inversion center. Complexes (I and (II both display intramolecular O—H...O hydrogen bonding. Intermolecular O—H...O hydrogen bonding links symmetry-related molecules forming chains along [100] for complex (I with π-stacking along [010] and [001]. Complex (II forms intermolecular O—H...O hydrogen-bonded chains along [010] with π-stacking along [100] and [001].

  10. The impact of crystal symmetry on the electronic structure and functional properties of complex lanthanum chromium oxides

    Energy Technology Data Exchange (ETDEWEB)

    Qiao, Liang [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Xiao, Haiyan Y. [Univ. of Tennessee, Knoxville, TN (United States); Heald, Steve M. [Argonne National Lab. (ANL), Argonne, IL (United States); Bowden, Mark E. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Varga, Tamas [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Exarhos, Gregory J. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Biegalski, Michael D. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Ivanov, Ilia N. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Weber, William J. [Univ. of Tennessee, Knoxville, TN (United States); Droubay, Timothy C. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Chambers, Scott A. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States)

    2013-06-14

    Complex oxides exhibit a wide range of crystal structures, chemical compositions and physical properties. The underlying drivers determining the complicated structure-composition-property phase diagrams are the relative positions and orbital overlaps between the metal cations and the oxygen anions. Here we report a combined experimental and theoretical investigation of the structure and bonding in a series of lanthanum chromium oxides prepared by reactive molecular beam epitaxy. Of particular interest is the charge state and local coordination of the Cr. We have stabilized LaCrO3, LaCrO4 and La2CrO6 films by controlling the three elemental fluxes during deposition, and have carried out x-ray diffraction, x-ray photoemission, and x-ray absorption spectroscopy, as well as first-principles calculations, to determine structure, charge state, chemical bonding, and electronic structure. Significant changes in bonding character and orbital interaction are revealed with decreasing ligand symmetry from octahedral to tetrahedral Cr coordination. Both LaCrO4 and LaCrO6 with tetrahedrally coordinated Cr show strong pre-edge features in the Cr K-edge near-edge structure whereas LaCrO3 with octahedrally coordinated Cr exhibits very weak pre-edge features. The origin of these pre-edge features is discussed based on various selection rules and ligand symmetry. We also demonstrate an increase in cation-anion orbital hybridization and a decrease in long-range ligand coupling induced by this symmetry reduction. These in turn result in dramatic modifications of the macroscopic optical and magnetic properties.

  11. Synthesis and Crystal Structure of a New Double 2D Layer Complex Assembled by H4btec

    Institute of Scientific and Technical Information of China (English)

    2008-01-01

    Assembly of H4btec with cobalt(Ⅱ) acetate afforded a new double 2D layer coor- dination polymer, [Co(btec)1/2(H2O)4·2H2O]n (H4btec = benzene-1,2,4,5-tetracarboxylic acid) 1. The polymeric structure has been characterized by single-crystal X-ray diffraction, FT-IR and thermal analysis. The crystal is of triclinic, space group P with a = 10.8762(2), b = 11.1411(1), c = 11.5084(3)(A), α = 82.8950(10), β = 63.0050(10), γ = 62.1500(10)°, V = 1091.72(4)(A)3, C5H13CoO10, Mr = 292.08, Z = 4, Dc = 1.777 g/cm3, μ = 1.612 mm-1, F(000) = 600, R = 0.0578, and wR = 0.2162 for 3576 observed reflections (I > 2σ(I)). Complex 1 consists of a new double 2D layer structure [Co(btec)1/2(H2O)4]n, both consisting of 4 + 4 grids with the sizes of 11.3667(2)(A) × 11.5084(3)(A)(Co(1)-Co(1A) × Co(2A)-Co(2B)) and 11.5084(3)(A)× 11.3667(2)(A) (Co(3)-Co(3C) × Co(4)- Co(4A)), respectively. The phenyl rings are at the corners while the Co(Ⅱ) atoms are in the sides of the grids, and lattice water molecules decorate between the layers. Hydrogen bonds between the layers and lattice water molecules result in the final 3D framework.

  12. Synthesis, Crystal Structures, Thermal Analysis and Magnetic Property of Mono- and Bi-nuclear 1,1-Cyclobutanedicarboxylate Copper Complexes

    Institute of Scientific and Technical Information of China (English)

    LI, Ming-Xing; DAI, Hui; SHAO, Min; SHI, Lei; LIN, Kun-Hua; CHENG, Zhi-Xuan; WENG, Lin-Hong

    2006-01-01

    Two new copper complexes, [Cu(cbdc)(phen)(H2O)]·2H2O (1) and [Cu2(cbdc)(phen)2(H2O)2](ClO4)2·H2O (2)(cbdc= 1,1-cyclobutanedicarboxylate and phen= 1,10-phenanthroline), were synthesized by reaction of cbdc with Cu(ClO4)2 and phen in ethanol aqueous solution. Complex 1 crystallizes in monoclinic system with space group P2(1)/c and a=0.9428(4) nm, b= 1.2183(5) nm, c= 1.6265(7) nm, β= 102.418(5)°, V= 1.8246(13) nm3, Z=4, R=3D supramolecular structure where Cu(Ⅱ) ion is five-coordinated and has square-pyramidal coordination geometry.Its thermal decomposition procedure detail was studied by thermal analysis TG-DSC. Complex 2 belongs to monoclinic system with space group P2(1)/c and a=0.8897(3) nm, b= 1.9130(8) nm, c= 1.9936(8) nm, β=99.04(2)°,V=3.351(2) nm3, Z=4, R=0.0540, wR2=0.1102. The structure of 2 is a discrete binucleus, where Cu(1) is four-coordinated by phen and cbdc in a square-planar geometry while Cu(2) is five-coordinated by phen, one O of cbdc and two H2O, which can be best described as distorted trigonal-bipyramidal geometry. Cu(1) and Cu(2) are linked by carboxylic group of cbdc in a bidentate bridging fashion. Variable-temperature magnetic susceptibilities of 2 in 2-300 K showed that its magnetic behavior obeyed Curie law.

  13. Synthesis, crystal structure and luminescent properties of some Zn(II) Schiff base complexes: experimental and computational study.

    Science.gov (United States)

    Eltayeb, Naser Eltaher; Teoh, Siang Guan; Adnan, Rohana; Teh, Jeannie Bee-Jan; Fun, Hoong-Kun

    2011-07-01

    A series of Zn(II)-Schiff bases I, II and III complexes were synthesized by reaction of o-phenylenediamine with 3-methylsalicylaldehyde, 4-methylsalicylaldehyde and 5-methylsalicylaldehyde. These complexes were characterized using FT-IR, UV-Vis, Diffuse reflectance UV-Vis, elemental analysis and conductivity. Complex III was characterized by XRD single crystal, which crystallizes in the triclinic system, space group P-1, with lattice parameters a=9.5444(2) Å, b=11.9407(2) Å, c=21.1732(3) Å, V=2390.24(7) Å(3), D ( c )=1.408 Mg m(-3), Z=4, F(000)=1050, GOF=0.981, R1=0.0502, wR2=0.1205. Luminescence property of these complexes was investigated in DMF solution and in the solid state. Computational study of the electronic properties of complex III showed good agreement with the experimental data.

  14. Rhenium(IV)-copper(II) heterobimetallic complexes with a bridge malonato ligand. Synthesis, crystal structure, and magnetic properties.

    Science.gov (United States)

    Cuevas, Alicia; Chiozzone, Raúl; Kremer, Carlos; Suescun, Leopoldo; Mombrú, Alvaro; Armentano, Donatella; De Munno, Giovanni; Lloret, Francesc; Cano, Juan; Faus, Juan

    2004-11-29

    The Re(IV) complex [ReCl4(mal)]2-, in the form of two slightly different salts, (AsPh4)1.5(HNEt3)0.5[ReCl4(mal)] (1a) and (AsPh4)(HNEt3)[ReCl4(mal)] (1b), and the Re(IV)-Cu(II) bimetallic complexes [ReCl4(mu-mal)Cu(phen)2].CH3CN (2), [ReCl4(mu-mal)Cu(bpy)2] (3), and [ReCl4(mu-mal)Cu(terpy)] (4) (mal=malonate dianion, AsPh4=tetraphenylarsonium cation, HNEt3=triethylammonium cation, phen=1,10-phenanthroline, bpy=2,2'-bipyridine and terpy=2,2':6',2' '-terpyridine) have been synthesized and the structures of 1a, 1b, 2, and 3 determined by single-crystal X-ray diffraction. The structures of 1a and 1b are made up of discrete [ReCl4(mal)]2- anions and AsPh4+ and HNEt3+ cations, held together by electrostatic forces and hydrogen bonds. The Re(IV) atom is surrounded by four chloride anions and a bidentate malonate group, in a distorted octahedral environment. The structure of 2 consist of neutral dinuclear units [ReCl4(mu-mal)Cu(phen)2], with the metal ions united through a bridge carboxilato. The environment of Re(IV) is nearly identical to that in the mononuclear complex, and Cu(II) is five coordinate, being surrounded by four nitrogen atoms of two bidentate phen ligands and one oxygen atom of the malonato ligand. In 3, there are also dinuclear units, [ReCl4(mu-mal)Cu(bpy)2], but the Cu(II) ions complete a distorted octahedral coordination by binding with the free malonato oxygen atom of a neighbor unit, resulting in an infinite chain. The magnetic properties of 1-4 were also investigated in the temperature range 2.0-300 K. The magnetic behavior of 1a and 1b is as expected for a Re(IV) complex with a large value of the zero-field splitting (2D ca. 110 cm(-1)). For the bimetallic complexes, the magnetic coupling between Re(IV) and Cu(II) is antiferromagnetic in 2 (J=-0.39 cm(-1)), ferromagnetic in 4 (J=+1.51 cm(-1)), and nearly negligible in 3 (J=-0.09 cm(-1)).

  15. Synthesis, Crystal Structure and Luminescent Property of Cd (II Complex with N-Benzenesulphonyl-L-leucine

    Directory of Open Access Journals (Sweden)

    Xishi Tai

    2012-09-01

    Full Text Available A new trinuclear Cd (II complex [Cd3(L6(2,2-bipyridine3] [L = N-phenylsulfonyl-L-leucinato] has been synthesized and characterized by elemental analysis, IR and X-ray single crystal diffraction analysis. The results show that the complex belongs to the orthorhombic, space group P212121 with a = 16.877(3 Å, b = 22.875(5 Å, c = 29.495(6 Å, α = β = γ = 90°, V = 11387(4 Å3, Z = 4, Dc= 1.416 μg·m−3, μ = 0.737 mm−1, F (000 = 4992, and final R1 = 0.0390, ωR2 = 0.0989. The complex comprises two seven-coordinated Cd (II atoms, with a N2O5 distorted pengonal bipyramidal coordination environment and a six-coordinated Cd (II atom, with a N2O4 distorted octahedral coordination environment. The molecules form one dimensional chain structure by the interaction of bridged carboxylato groups, hydrogen bonds and p-p interaction of 2,2-bipyridine. The luminescent properties of the Cd (II complex and N-Benzenesulphonyl-L-leucine in solid and in CH3OH solution also have been investigated.

  16. Crystal Structure of CD155 and Electron Microscopic Studies of Its Complexes with Polioviruses

    National Research Council Canada - National Science Library

    Ping Zhang; Steffen Mueller; Marc C. Morais; Carol M. Bator; Valorie D. Bowman; Susan Hafenstein; Eckard Wimmer; Michael G. Rossmann

    2008-01-01

    .... These structures show that, compared with human rhinoviruses, the virus-receptor interactions for PVs have a greater dependence on hydrophobic interactions, as might be required for a virus that can...

  17. Synthesis, Crystal Structure and Electrochemical Properties of the Complex Cd(α-FRA)2(Phen)(H2O)

    Institute of Scientific and Technical Information of China (English)

    YANG Ying-Qun; LI Chang-Hong; LI Wei; GUO Dong-Cai; KUANG Yun-Fei

    2006-01-01

    A new cadmium complex Cd(α-FRA)2(Phen)(H2O) was synthesized by self- assembly reaction of α-furoic acid, phenanthroline (phen), and Cd(NO3)2(4H2O. It crystallizes in monoclinic, space group P21/c, with a = 0.6799(2), b = 1.7780(6), c = 1.6866(6) nm, β = 94.912(6)o, V = 2.0315(12) nm3, Dc = 1.742 g/cm3, Z = 4, Mr = 532.77, μ(MoKα) = 1.124 mm-1, F(000) = 1064, R = 0.0411, wR = 0.0790. The structural analysis shows that the cadmium ion is coordinated with two nitrogen atoms from one phen molecule and four oxygen atoms respectively from two α-furoic acids and one water molecule, giving a distorted octahedral coordination geometry. The cyclic voltametric behavior of the complex was also discussed, which shows that the electrode process is irreversible in the electrode reactor.

  18. Crystal Structure of a Complex of Surfactant Protein D (SP-D) and Haemophilus influenzae Lipopolysaccharide Reveals Shielding of Core Structures in SP-D-Resistant Strains.

    Science.gov (United States)

    Clark, Howard W; Mackay, Rose-Marie; Deadman, Mary E; Hood, Derek W; Madsen, Jens; Moxon, E Richard; Townsend, J Paul; Reid, Kenneth B M; Ahmed, Abdul; Shaw, Amy J; Greenhough, Trevor J; Shrive, Annette K

    2016-05-01

    The carbohydrate recognition domains (CRDs) of lung collectin surfactant protein D (SP-D) recognize sugar patterns on the surface of lung pathogens and promote phagocytosis. Using Haemophilus influenzae Eagan strains expressing well-characterized lipopolysaccharide (LPS) surface structures of various levels of complexity, we show that bacterial recognition and binding by SP-D is inversely related to LPS chain extent and complexity. The crystal structure of a biologically active recombinant trimeric SP-D CRD complexed with a delipidated Eagan 4A LPS suggests that efficient LPS recognition by SP-D requires multiple binding interactions utilizing the three major ligand-binding determinants in the SP-D binding pocket, with Ca-dependent binding of inner-core heptose accompanied by interaction of anhydro-Kdo (4,7-anhydro-3-deoxy-d-manno-oct-2-ulosonic acid) with Arg343 and Asp325. Combined with enzyme-linked immunosorbent assays (ELISAs) and fluorescence-activated cell sorter (FACS) binding analyses, our results show that extended LPS structures previously thought to be targets for collectins are important in shielding the more vulnerable sites in the LPS core, revealing a mechanism by which pathogens with complex LPS extensions efficiently evade a first-line mucosal innate immune defense. The structure also reveals for the first time the dominant form of anhydro-Kdo.

  19. Synthesis, crystal structure and reactivity studies of iron complexes with pybox ligands

    KAUST Repository

    Chen, Tao

    2014-11-01

    Iron(II) complexes, [Fe(2,6-bis(4,4-dimethyl-1,3-oxazolin-2-yl)pyridine)Cl2] ((Fe(Me2-pybox)Cl2), 3) and [Fe(2,6-bis(4,4-diphenyl-1,3-oxazolin-2-yl)pyridine)Cl2] ((Fe(Ph2-pybox)Cl2), 4), have been synthesized and characterized by X-ray crystallographic analysis. Upon treatment of complex 3 with silver triflate and 4 with acetonitrile, [Fe(Me2-pybox)(CH3CN)OTf2] (5) and [Fe(Ph2-pybox)(CH3CN)2Cl][FeCl3] (6) were obtained, respectively. The bulkier phenyl substitutes were found not only to cause the elongation of the N-Fe bonds but also influence the reactivity of the Fe center.

  20. Crystal Structures of Furazanes

    OpenAIRE

    Klapötke, Thomas; Schmid, Philipp; Stierstorfer, Jörg

    2015-01-01

    Several nitrogen-rich salts of 3-nitramino-4-nitrofurazane and dinitraminoazoxyfurazane were synthesized and characterized by various spectroscopic methods. The crystal structures were determined by low temperature single crystal X-ray diffraction. Moreover the sensitivities toward thermal and mechanical stimuli were determined by differential thermal analysis (DTA) and BAM (Bundesanstalt für Materialforschung und -prüfung) methods. The standard enthalpies of formation were calculated for all...

  1. Evidence for Lipid Packaging in the Crystal Structure of the GM2-Activator Complex with Platelet Activating Factor

    Energy Technology Data Exchange (ETDEWEB)

    Wright, Christine S.; Mi, Li-Zhi; Rastinejad, Fraydoon (Virginia)

    2010-11-16

    GM2-activator protein (GM2-AP) is a lipid transfer protein that has the ability to stimulate the enzymatic processing of gangliosides as well as T-cell activation through lipid presentation. Our previous X-ray crystallographic studies of GM2-AP have revealed a large lipid binding pocket as the central overall feature of the structure with non-protein electron density within this pocket suggesting bound lipid. To extend these studies, we present here the 2 {angstrom} crystal structure of GM2-AP complexed with platelet activating factor (PAF). PAF is a potent phosphoacylglycerol whose toxic patho-physiological effects can be inhibited by GM2-AP. The structure shows an ordered arrangement of two bound lipids and a fatty acid molecule. One PAF molecule binds in an extended conformation within the hydrophobic channel that has an open and closed conformation, and was seen to contain bound phospholipid in the low pH apo structure. The second molecule is submerged inside the pocket in a U-shaped conformation with its head group near the single polar residue S141. It was refined as lyso-PAF as it lacks electron density for the sn-2 acetate group. The alkyl chains of PAF interact through van der Waals contacts, while the head groups bind in different environments with their phosphocholine moieties in contact with aromatic rings (Y137, F80). The structure has revealed further insights into the lipid binding properties of GM2-AP, suggesting an unexpected unique mode of lipid packaging that may explain the efficiency of GM2-AP in inhibiting the detrimental biological effects of PAF.

  2. Crystal structures of Leptospira interrogans FAD-containing ferredoxin-NADP+ reductase and its complex with NADP+.

    Science.gov (United States)

    Nascimento, Alessandro S; Catalano-Dupuy, Daniela L; Bernardes, Amanda; Neto, Mario de Oliveira; Santos, Maria Auxiliadora M; Ceccarelli, Eduardo A; Polikarpov, Igor

    2007-10-24

    Ferredoxin-NADP(H) reductases (FNRs) are flavoenzymes that catalyze the electron transfer between NADP(H) and the proteins ferredoxin or flavodoxin. A number of structural features distinguish plant and bacterial FNRs, one of which is the mode of the cofactor FAD binding. Leptospira interrogans is a spirochaete parasitic bacterium capable of infecting humans and mammals in general. Leptospira interrogans FNR (LepFNR) displays low sequence identity with plant (34% with Zea mays) and bacterial (31% with Escherichia coli) FNRs. However, LepFNR contains all consensus sequences that define the plastidic class FNRs. The crystal structures of the FAD-containing LepFNR and the complex of the enzyme with NADP+, were solved and compared to known FNRs. The comparison reveals significant structural similarities of the enzyme with the plastidic type FNRs and differences with the bacterial enzymes. Our small angle X-ray scattering experiments show that LepFNR is a monomeric enzyme. Moreover, our biochemical data demonstrate that the LepFNR has an enzymatic activity similar to those reported for the plastidic enzymes and that is significantly different from bacterial flavoenzymes, which display lower turnover rates. LepFNR is the first plastidic type FNR found in bacteria and, despite of its low sequence similarity with plastidic FNRs still displays high catalytic turnover rates. The typical structural and biochemical characteristics of plant FNRs unveiled for LepFNR support a notion of a putative lateral gene transfer which presumably offers Leptospira interrogans evolutionary advantages. The wealth of structural information about LepFNR provides a molecular basis for advanced drugs developments against leptospirosis.

  3. Crystal structures of Leptospira interrogans FAD-containing ferredoxin-NADP+ reductase and its complex with NADP+

    Directory of Open Access Journals (Sweden)

    Ceccarelli Eduardo A

    2007-10-01

    Full Text Available Abstract Background Ferredoxin-NADP(H reductases (FNRs are flavoenzymes that catalyze the electron transfer between NADP(H and the proteins ferredoxin or flavodoxin. A number of structural features distinguish plant and bacterial FNRs, one of which is the mode of the cofactor FAD binding. Leptospira interrogans is a spirochaete parasitic bacterium capable of infecting humans and mammals in general. Leptospira interrogans FNR (LepFNR displays low sequence identity with plant (34% with Zea mays and bacterial (31% with Escherichia coli FNRs. However, LepFNR contains all consensus sequences that define the plastidic class FNRs. Results The crystal structures of the FAD-containing LepFNR and the complex of the enzyme with NADP+, were solved and compared to known FNRs. The comparison reveals significant structural similarities of the enzyme with the plastidic type FNRs and differences with the bacterial enzymes. Our small angle X-ray scattering experiments show that LepFNR is a monomeric enzyme. Moreover, our biochemical data demonstrate that the LepFNR has an enzymatic activity similar to those reported for the plastidic enzymes and that is significantly different from bacterial flavoenzymes, which display lower turnover rates. Conclusion LepFNR is the first plastidic type FNR found in bacteria and, despite of its low sequence similarity with plastidic FNRs still displays high catalytic turnover rates. The typical structural and biochemical characteristics of plant FNRs unveiled for LepFNR support a notion of a putative lateral gene transfer which presumably offers Leptospira interrogans evolutionary advantages. The wealth of structural information about LepFNR provides a molecular basis for advanced drugs developments against leptospirosis.

  4. Crystal Structures of the Glycopeptide Sulfotransferase Teg12 in a Complex with the Teicoplanin Aglycone

    Energy Technology Data Exchange (ETDEWEB)

    Bick, Matthew J.; Banik, Jacob J.; Darst, Seth A.; Brady, Sean F. (Rockefeller)

    2010-06-25

    The TEG gene cluster, a glycopeptide biosynthetic gene cluster that is predicted to encode the biosynthesis of a polysulfated glycopeptide congener, was recently cloned from DNA extracted directly from desert soil. This predicted glycopeptide gene cluster contains three closely related sulfotransferases (Teg12, -13, and -14) that sulfate teicoplanin-like glycopeptides at three unique sites. Here we report a series of structures: an apo structure of Teg12, Teg12 bound to the desulfated cosubstrate 3{prime}-phosphoadenosine 5{prime}-phosphate, and Teg12 bound to the teicoplanin aglycone. Teg12 appears to undergo a series of significant conformational rearrangements during glycopeptide recruitment, binding, and catalysis. Loop regions that exhibit the most conformational flexibility show the least sequence conservation between TEG sulfotransferases. Site-directed mutagenesis guided by our structural studies confirmed the importance of key catalytic residues as well as the importance of residues found throughout the conformationally flexible loop regions.

  5. The crystal structure of Lactococcus lactis dihydroorotate dehydrogenase A complexed with the enzyme reaction product throws light on its enzymatic function

    DEFF Research Database (Denmark)

    Rowland, Paul; Bjørnberg, Olof; Nielsen, Finn S.

    1998-01-01

    Dihydroorotate dehydrogenases (DHODs) catalyze the oxidation of (S)-dihydroorotate to orotate, the fourth step and only redox reaction in the de novo biosynthesis of pyrimidine nucleotides. A description is given of the crystal structure of Lactococcus lactis dihydroorotate dehydrogenase A (DHODA......) complexed with the product of the enzyme reaction orotate. The structure of the complex to 2.0 A resolution has been compared with the structure of the native enzyme. The active site of DHODA is known to contain a water filled cavity buried beneath a highly conserved and flexible loop. In the complex...

  6. The crystal structure of Lactococcus lactis dihydroorotate dehydrogenase A complexed with the enzyme reaction product throws light on its enzymatic function

    DEFF Research Database (Denmark)

    Rowland, Paul; Bjørnberg, Olof; Nielsen, Finn S.

    1998-01-01

    Dihydroorotate dehydrogenases (DHODs) catalyze the oxidation of (S)-dihydroorotate to orotate, the fourth step and only redox reaction in the de novo biosynthesis of pyrimidine nucleotides. A description is given of the crystal structure of Lactococcus lactis dihydroorotate dehydrogenase A (DHODA......) complexed with the product of the enzyme reaction orotate. The structure of the complex to 2.0 A resolution has been compared with the structure of the native enzyme. The active site of DHODA is known to contain a water filled cavity buried beneath a highly conserved and flexible loop. In the complex...

  7. Relationship between Crystal Structures and Photoluminescent Properties of Novel functionalized Carbazole Silver(I) Complexes

    Energy Technology Data Exchange (ETDEWEB)

    Kwon, Nam; Lee, Young-A [Chonbuk National University, Jeonju (Korea, Republic of); Kim, Jeong Gyun [Pusan National University, Pusan (Korea, Republic of)

    2016-04-15

    We investigated the anion effects on the formation and PL of a series of silver(I) complexes containing new carbazole-decorated L. Nitrate anion acts as an anionic tectonic for the 1D coordination polymeric skeleton whereas other anions act as simple counteranions in the discrete [Ag(L){sub 2}] skeletons. Furthermore, the PL intensity of the present coordination polymers has been known to be sensitive to the size of counteranions. More systematic researches, including modification of the related Ls, will provide more detailed information on the rational development of functional emitting materials sensitive to the external stimuli.

  8. Crystal structure of an essential enzyme in seed starch degradation - barley limit dextrinase in complex with cyclodextrins

    DEFF Research Database (Denmark)

    Vester-Christensen, Malene Bech; Abou Hachem, Maher; Svensson, Birte

    2010-01-01

    Barley limit dextrinase [Hordeum vulgare limit dextrinase (HvLD)] catalyzes the hydrolysis of α-1,6 glucosidic linkages in limit dextrins. This activity plays a role in starch degradation during germination and presumably in starch biosynthesis during grain filling. The crystal structures of Hv......LD in complex with the competitive inhibitors α-cyclodextrin (CD) and β-CD are solved and refined to 2.5 Å and 2.1 Å, respectively, and are the first structures of a limit dextrinase. HvLD belongs to glycoside hydrolase 13 family and is composed of four domains: an immunoglobulin-like N-terminal eight......-stranded β-sandwich domain, a six-stranded β-sandwich domain belonging to the carbohydrate binding module 48 family, a catalytic (β/α)8-like barrel domain that lacks α-helix 5, and a C-terminal eight-stranded β-sandwich domain of unknown function. The CDs are bound at the active site occupying carbohydrate...

  9. Crystal structure of I-DmoI in complex with its target DNA provides new insights into meganuclease engineering.

    Science.gov (United States)

    Marcaida, María José; Prieto, Jesús; Redondo, Pilar; Nadra, Alejandro D; Alibés, Andreu; Serrano, Luis; Grizot, Sylvestre; Duchateau, Philippe; Pâques, Frédéric; Blanco, Francisco J; Montoya, Guillermo

    2008-11-04

    Homing endonucleases, also known as meganucleases, are sequence-specific enzymes with large DNA recognition sites. These enzymes can be used to induce efficient homologous gene targeting in cells and plants, opening perspectives for genome engineering with applications in a wide series of fields, ranging from biotechnology to gene therapy. Here, we report the crystal structures at 2.0 and 2.1 A resolution of the I-DmoI meganuclease in complex with its substrate DNA before and after cleavage, providing snapshots of the catalytic process. Our study suggests that I-DmoI requires only 2 cations instead of 3 for DNA cleavage. The structure sheds light onto the basis of DNA binding, indicating key residues responsible for nonpalindromic target DNA recognition. In silico and in vivo analysis of the I-DmoI DNA cleavage specificity suggests that despite the relatively few protein-base contacts, I-DmoI is highly specific when compared with other meganucleases. Our data open the door toward the generation of custom endonucleases for targeted genome engineering using the monomeric I-DmoI scaffold.

  10. The Crystal Structure of Cdc42 in Complex with Collybisin II, a Gephyrin-Interacting Guanine Nucleotide Exchange Factor

    Energy Technology Data Exchange (ETDEWEB)

    Xiang,S.; Kim, E.; Connelly, J.; Nassar, N.; Kirsch, J.; WinkingSchwartz, G.; Schindelin, H.

    2006-01-01

    The synaptic localization of ion channel receptors is essential for efficient synaptic transmission and the precise regulation of diverse neuronal functions. In the central nervous system, ion channel receptors reside in the postsynaptic membrane where they are juxtaposed to presynaptic terminals. For proper function, these ion channels have to be anchored to the cytoskeleton, and in the case of the inhibitory glycine and {gamma}-amino-butyric acid type A (GABA{sub A}) receptors this interaction is mediated by a gephyrin centered scaffold. Highlighting its central role in this receptor anchoring scaffold, gephyrin interacts with a number of proteins, including the neurospecific guanine nucleotide exchange factor collybistin. Collybistin belongs to the Dbl family of guanine nucleotide exchange factors, occurs in multiple splice variants, and is specific for Cdc42, a small GTPase belonging to the Rho family. The 2.3 Angstroms resolution crystal structure of the Cdc42--collybistin II complex reveals a novel conformation of the switch I region of Cdc42. It also provides the first direct observation of structural changes in the relative orientation of the Dbl-homology domain and the pleckstrin-homology domain in the same Dbl family protein. Biochemical data indicate that gephyrin negatively regulates collybistin activity.

  11. Crystal structures of PRK1 in complex with the clinical compounds lestaurtinib and tofacitinib reveal ligand induced conformational changes.

    Directory of Open Access Journals (Sweden)

    Philip Chamberlain

    Full Text Available Protein kinase C related kinase 1 (PRK1 is a component of Rho-GTPase, androgen receptor, histone demethylase and histone deacetylase signaling pathways implicated in prostate and ovarian cancer. Herein we describe the crystal structure of PRK1 in apo form, and also in complex with a panel of literature inhibitors including the clinical candidates lestaurtinib and tofacitinib, as well as the staurosporine analog Ro-31-8220. PRK1 is a member of the AGC-kinase class, and as such exhibits the characteristic regulatory sequence at the C-terminus of the catalytic domain--the 'C-tail'. The C-tail fully encircles the catalytic domain placing a phenylalanine in the ATP-binding site. Our inhibitor structures include examples of molecules which both interact with, and displace the C-tail from the active site. This information may assist in the design of inhibitors targeting both PRK and other members of the AGC kinase family.

  12. Crystal Structure of Human Factor VIII: Implications for the Formation of the Factor IXa-Factor VIIIa Complex

    Energy Technology Data Exchange (ETDEWEB)

    Ngo, J.C.; Huang, M.; Roth, D.A.; Furie, B.C.; Furie, B. (Wyeth); (MBL)

    2008-06-03

    Factor VIII is a procofactor that plays a critical role in blood coagulation, and is missing or defective in hemophilia A. We determined the X-ray crystal structure of B domain-deleted human factor VIII. This protein is composed of five globular domains and contains one Ca{sup 2+} and two Cu{sup 2+} ions. The three homologous A domains form a triangular heterotrimer where the A1 and A3 domains serve as the base and interact with the C2 and C1 domains, respectively. The structurally homologous C1 and C2 domains reveal membrane binding features. Based on biochemical studies, a model of the factor IXa-factor VIIIa complex was constructed by in silico docking. Factor IXa wraps across the side of factor VIII, and an extended interface spans the factor VIII heavy and light chains. This model provides insight into the activation of factor VIII and the interaction of factor VIIIa with factor IXa on the membrane surface.

  13. Crystal Structure of Human Factor VIII: Implications for the Formation of the Factor IXa-Factor VIIIa Complex

    Energy Technology Data Exchange (ETDEWEB)

    Chi Ki Ngo,J.; Huang, M.; Roth, D.; Furie, B.; Furie, B.

    2008-01-01

    Factor VIII is a procofactor that plays a critical role in blood coagulation, and is missing or defective in hemophilia A. We determined the X-ray crystal structure of B domain-deleted human factor VIII. This protein is composed of five globular domains and contains one Ca(2+) and two Cu(2+) ions. The three homologous A domains form a triangular heterotrimer where the A1 and A3 domains serve as the base and interact with the C2 and C1 domains, respectively. The structurally homologous C1 and C2 domains reveal membrane binding features. Based on biochemical studies, a model of the factor IXa-factor VIIIa complex was constructed by in silico docking. Factor IXa wraps across the side of factor VIII, and an extended interface spans the factor VIII heavy and light chains. This model provides insight into the activation of factor VIII and the interaction of factor VIIIa with factor IXa on the membrane surface.

  14. Syntheses, crystal structure, spectroscopic characterization and antifungal activity of new N-R-sulfonyldithiocarbimate metal complexes.

    Science.gov (United States)

    Alves, Leandro C; Rubinger, Mayura M M; Lindemann, Renata H; Perpétuo, Genivaldo J; Janczak, Jan; Miranda, Liany D L; Zambolim, Laércio; Oliveira, Marcelo R L

    2009-07-01

    Five new compounds with the general formula of (Bu(4)N)(2)[M(RSO(2)NCS(2))(2)], where Bu(4)N=tetrabutylammonium cation, (M=Ni, R=4-FC(6)H(4)) (1), (M=Zn, R=4-FC(6)H(4), 4-ClC(6)H(4), 4-BrC(6)H(4), 4-IC(6)H(4)), (2), (3), (4) and (5), respectively, were obtained by the reaction of the appropriate potassium N-R-sulfonyldithiocarbimate (RSO(2)N=CS(2)K(2)) with nickel(II) chloride hexahydrate or zinc(II) acetate dihydrate in metanol:water 1:1. The elemental analyses and the IR data are consistent with the formation of the expected bis(dithiocarbimato)metal(II) complexes. The (1)H and (13)C NMR spectra showed the signals for the tetrabutylammonium cation and the dithiocarbimate moieties. The compounds 1, 2 and 5 were also characterized by X-ray diffraction techniques. The nickel(II) is coordinated by two N-4-fluorophenylsulphonyldithiocarbimato(2-) ligands forming a planar coordination. The zinc(II) exhibits distorted tetrahedral configuration in compounds 2 and 5 due to the chelation effect of two sulfur atoms of the N-R-sulfonyldithiocarbimate ligands. The antifungal activities of the compounds were tested in vitro against Colletotrichum gloeosporioides, an important fungus that causes the plant disease known as anthracnose in fruit trees. All the complexes were active.

  15. Synthesis, structural characterization and antimicrobial activities of diorganotin(IV) complexes with azo-imino carboxylic acid ligand: Crystal structure and topological study of a doubly phenoxide-bridged dimeric dimethyltin(IV) complex appended with free carboxylic acid groups

    Science.gov (United States)

    Roy, Manojit; Roy, Subhadip; Devi, N. Manglembi; Singh, Ch. Brajakishor; Singh, Keisham Surjit

    2016-09-01

    Diorganotin(IV) complexes appended with free carboxylic acids were synthesized by reacting diorganotin(IV) dichlorides [R2SnCl2; R = Me (1), Bu (2) and Ph (3)] with an azo-imino carboxylic acid ligand i.e. 2-{4-hydroxy-3-[(2-hydroxyphenylimino)methyl]phenylazo}benzoic acid in presence of triethylamine. The complexes were characterized by elemental analysis, IR and multinuclear NMR (1H, 13C and 119Sn) spectroscopy. The structure of 1 in solid state has been determined by X-ray crystallography. Crystal structure of 1 reveals that the compound crystallizes in monoclinic space group P21/c and is a dimeric dimethyltin(IV) complex appended with free carboxylic acid groups. In the structure of 1, the Sn(IV) atoms are hexacoordinated and have a distorted octahedral coordination geometry in which two phenoxy oxygen atoms and the azomethine nitrogen atom of the ligand coordinate to each tin atom. One of the phenoxy oxygen atom bridges the two tin centers resulting in a planar Sn2O2 core. Topological analysis is used for the description of molecular packing in 1. Tin NMR spectroscopy study indicates that the complexes have five coordinate geometry around tin atom in solution state. Since the complexes have free carboxylic acids, these compounds could be further used as potential metallo-ligands for the synthesis of other complexes. The synthesized diorganotin(IV) complexes were also screened for their antimicrobial activities and compound 2 showed effective antimicrobial activities.

  16. Cation Guided Assembly: Crystal Structures of Two Ag(I) Complexes in Versatile Dimensionalities with Different Counter Cations

    Institute of Scientific and Technical Information of China (English)

    WANG, Jiang-Yun; GU, Wen; WANG, Wen-Zhen; LIU, Xin; LIAO, Dai-Zheng

    2006-01-01

    Assembly of [Ag(CN)2]- units with M(Ⅱ)-diamine complex cations [Cu(LN-N)2]2+, where LN-N represents1,2-diaminopropane (pn) and ethylenediamine (en), afforded two complexes, [Cu(pn)2][Ag2(CN)4] (1) and[Cu(en)2][Ag3(CN)5] (2), which were characterized by elemental analysis, IR, UV-Vis and ESR spectra. Single crystal X-ray analyses show that these complexes have 2D and 3D architectures through silver-silver interactions and other weak interactions. The luminescence behaviors of the two complexes were also studied by means of emission spectra.

  17. Synthesis, X-ray crystal structure, DNA binding and Nuclease activity of lanthanide(III) complexes of 2-benzoylpyridine acetylhydrazone

    Indian Academy of Sciences (India)

    KARREDDULA RAJA; AKKILI SUSEELAMMA; KATREDDI HUSSAIN REDDY

    2016-08-01

    Lanthanide(III) complexes of general formula [La(BPAH)₂(NO₃)₃] and [Ce(BPAH)₂(NO₃)(H₂O)₂] 2NO₃.H₂O (where, BPAH = 2-benzoylpyridine acetyl hydrazone), were synthesized and characterized by elemental analysis, molar conductance, IR spectroscopy and single crystal X-ray diffraction and Hirschfeld studies. The central metal ion is 12-coordinate in lanthanum complex and 10-coordinated in the cerium complex. The coordination polyhedra around the lanthanum and cerium were found to have distorted icosahedron and distorted bicapped square antiprism respectively. DNA binding and nuclease activity of these complexes were also investigated in the present work.

  18. A new cadmium(II) complex with bridging dithiolate ligand: Synthesis, crystal structure and antifungal activity study

    Science.gov (United States)

    Singh, Mahesh Kumar; Sutradhar, Sanjit; Paul, Bijaya; Adhikari, Suman; Laskar, Folguni; Butcher, Raymond J.; Acharya, Sandeep; Das, Arijit

    2017-07-01

    A new polymeric complex of Cd(II) with 1,1-dicyanoethylene- 2,2-dithiolate [ i-MNT2- = {S2C:C(CN)2}2- ] as a bridging ligand has been synthesized and characterized on the basis of spectroscopy and single-crystal X-ray diffraction analysis. Single crystal X-ray diffraction analysis reveals that the Cadmium (II) complex is six coordinated 1D polymeric in nature. Biological screening effects in vitro of the synthesized polymeric complex has been tested against five fungi Synchitrium endobioticum, Pyricularia oryzae, Helminthosporium oryzae, Candida albicans(ATCC10231), Trichophyton mentagrophytes by the disc diffusion method. In vitro antifungal screening indicates that the complex exhibits fungistatic and fungicidal antifungal activity whereas K2i-MNT.H2O became silent on Synchitrium endobioticum, Pyricularia oryzae, Helminthosporium oryzae, Candida albicans (ATCC10231), Trichophyton mentagrophytes.

  19. Synthesis and Crystal Structures of the α and β Forms of Bis(salicylaldoxime)copper(Ⅱ) Complexes

    Institute of Scientific and Technical Information of China (English)

    WAN Jun; WANG Shi-ying; WEN Yong-hong; YE Su-juan; OUYANG Ping-kan; ZHANG Shu-sheng

    2005-01-01

    Modified α and β bis(salicylaldoxime)copper(Ⅱ) have been obtained by recrystallization from ethyl acetate(CCDC Nos. 212157 & 212158). The X-ray analysis reveals that the two modificated forms have the same structure with different geometric parameters. The α form crystallizes in the P2(1)/c space group and the β form in the P1 space group. Both the crystal structures consist of centrosymmetric monomeric molecules of Cu(OC6H4CNOH)2. The IR spectra are in agreement with the structural data.

  20. Crystal structures of a novel NNN pincer ligand and its dinuclear titanium(IV alkoxide pincer complex

    Directory of Open Access Journals (Sweden)

    Jakub Pedziwiatr

    2017-02-01

    Full Text Available This report describes a synthetic protocols and the crystal structures involving a novel pincer-type H3[NNN] ligand, namely di-μ-bromido-μ-{2-(2,2-dimethylpropanimidoyl-N-[2-(2,2-dimethylpropanimidoyl-4-methylphenyl]-4-methylaniline}-bis[(diethyl etherlithium], [Li2Br2(C24H33N3(C4H10O2] (1 and a dinuclear metal complex, namely di-μ-bromido-2:3κ4Br:Br-bis{2-(2,2-dimethylpropanimidoyl-N-[2-(2,2-dimethylpropanimidoyl-4-methylphenyl]-4-methylaniline}-1κ3N,N′,N′′;4κ3N,N′,N′′-tetra-μ-isopropanolato-1:2κ4O:O;3:4κ4O:O-diisopropanolato-1κO,4κO-2,3-dilithium-1,4-dititanium, [Li2Ti2Br2(C24H32N32(C3H7O6] or {[NHNNH]Ti(OiPr3(LiBr2}2 (2. Complex 1, which sits on a twofold rotation axis, is a rare example of a pincer-type ligand which bears ketimine side arms. A unique feature of complex 1 is that the ketimine N atoms have an LiBr(Et2O fragment bonded to them, with the Li atom adopting a distorted tetrahedral geometry. This particular fragment creates an LiBr bridge between the two ketimine sidearms, which leads to a cage-type appearance of the ligand. Complex 2 consists of the previously described ligand and a TiIV metal atom in an octahedral environment, and is located on an inversion center. Complex 2 crystallizes as a dinuclear species with the metal atoms being bridged by an LiBr entity [the Br atoms are disordered and refined in two positions with their site occupation factors refining to 0.674 (12/0.372 (12], and the Li cation being bonded to the isopropoxide O atoms (Li having a tetrahedral coordination as in 1. The organic ligand of compound 2 exhibits disorder in its periphery groups; isopropyl and tert-butyl groups (occupation factors fixed at 0.6/0.4. The novel [NNN]H3 pincer-type ligand was characterized by multinuclear and multidimensional NMR, HRMS and X-ray crystallography. The dinuclear metal complex 2 was characterized by X-ray crystallography. Although each structure exhibits donor N—H groups, no hydrogen bonding

  1. Octanuclear [Ni(II)₄Ln(III)₄] complexes. Synthesis, crystal structures and magnetocaloric properties.

    Science.gov (United States)

    Pasatoiu, Traian D; Ghirri, Alberto; Madalan, Augustin M; Affronte, Marco; Andruh, Marius

    2014-06-28

    Two original heterooctanuclear [Ni(II)4Ln(III)4] complexes (Ln(III) = Sm(III), Gd(III)) have been obtained starting from the [Ni(II)(valpn)(H2O)2] mononuclear precursor [H2valpn = 1,3-propanediylbis(2-iminomethylene-6-methoxy-phenol)] and the corresponding lanthanide nitrates, in the presence of azide anions, through slow capture of atmospheric CO2. Three weak and competitive exchange interactions, J(GdGd), J(GdNi), J(NiNi), make the ground state of this magnetic system degenerate at cryogenic temperature and zero field. This, along with the high spin of Gd(III), lead to a significant magnetocaloric effect spread in the temperature range 1 to 20 K (ΔSm[0-7 T, 3.5 K] = 19 J kg(-1) K(-1)).

  2. Structural Feature and Molecular Interaction of Basic Amino Acid-Picric Acid Complexes by X-Ray Crystal Analyses

    National Research Council Canada - National Science Library

    長田, 裕臣; 尹, 康子; 友尾, 幸司; 土井, 光暢; 石田, 寿昌; 若原, 章男

    1995-01-01

    As a part of elucidating the structural features of a host molecule necessary for the recognition of basic amino acids, the crystal structures of the picrates of DL-arginine (1), L-arginine (2), L-lysine (3), and L-ornitine (4...

  3. Synthesis and Crystal Structure of Binuclear and Pentanuclear Nickel(II Complexes Containing 4-(salicylaldiminatoantipyrine Schiff base

    Directory of Open Access Journals (Sweden)

    Mohamed N. EL-Kaheli

    2015-11-01

    Full Text Available The new title binuclear Ni (II compound  (1 and the novel pentanuclear Ni (II cluster {[   } (2 are formed from the reaction of an asymmetric Schiff base ligand L (L = 4-(salicylaldiminatoantipyrine with Ni .4  in the former or Ni(ClO42.6H2O in presence of malonate in the later.  Complex (1 consists of ( ]+ cation and one uncoordinated tetraphenylborate anion.  The cation adopts a distorted octahedral arrangement around each metal center.  In the binuclear unit both Ni(II ions are linked through two phenolate (µ2-O oxygen atoms of L, and two oxygen atoms of a  bridging carboxylate group. Each Ni (II coordinates to four oxygen atoms at the basal plane, two oxygen atoms from two bridging phenolate groups, one from pyrazolone ring and the last of an aqua molecule, and at the axial positions to a bridging carboxylate-O atom and an azomethine nitrogen atom.  In the pentanuclear cluster (2 consisting of [ ]+2 cation and two tetraphenylborate anions, the core of the cation is assembled by four [Ni( ] units, linked to the central Ni-ion by two bridging water molecules. The resulting coordination sphere for the external symmetry related nickel ions is a pseudo octahedron.  The central Ni-atom unusually adopts dodecahedron geometry through its coordination to eight bridging water molecules. In complex (1 each Ni-atom is coordinated to one tridentate L ligand and in complex (2 each [Ni ( ] unit is coordinated to two bidentate L ligands.  Inter-and intramolecular hydrogen bonds are present in both crystal structures.

  4. Crystal Structure of the Ca2+/Calmodulin-dependent Protein Kinase Kinase in Complex with the Inhibitor STO-609*

    Science.gov (United States)

    Kukimoto-Niino, Mutsuko; Yoshikawa, Seiko; Takagi, Tetsuo; Ohsawa, Noboru; Tomabechi, Yuri; Terada, Takaho; Shirouzu, Mikako; Suzuki, Atsushi; Lee, Suni; Yamauchi, Toshimasa; Okada-Iwabu, Miki; Iwabu, Masato; Kadowaki, Takashi; Minokoshi, Yasuhiko; Yokoyama, Shigeyuki

    2011-01-01

    Ca2+/calmodulin (CaM)-dependent protein kinase (CaMK) kinase (CaMKK) is a member of the CaMK cascade that mediates the response to intracellular Ca2+ elevation. CaMKK phosphorylates and activates CaMKI and CaMKIV, which directly activate transcription factors. In this study, we determined the 2.4 Å crystal structure of the catalytic kinase domain of the human CaMKKβ isoform complexed with its selective inhibitor, STO-609. The structure revealed that CaMKKβ lacks the αD helix and that the equivalent region displays a hydrophobic molecular surface, which may reflect its unique substrate recognition and autoinhibition. Although CaMKKβ lacks the activation loop phosphorylation site, the activation loop is folded in an active-state conformation, which is stabilized by a number of interactions between amino acid residues conserved among the CaMKK isoforms. An in vitro analysis of the kinase activity confirmed the intrinsic activity of the CaMKKβ kinase domain. Structure and sequence analyses of the STO-609-binding site revealed amino acid replacements that may affect the inhibitor binding. Indeed, mutagenesis demonstrated that the CaMKKβ residue Pro274, which replaces the conserved acidic residue of other protein kinases, is an important determinant for the selective inhibition by STO-609. Therefore, the present structure provides a molecular basis for clarifying the known biochemical properties of CaMKKβ and for designing novel inhibitors targeting CaMKKβ and the related protein kinases. PMID:21504895

  5. Synthesis, characterization and crystal structure of new nickel molybdenum complex with the pyridine dicarboxylic acid ligand: Novel precursors for nickel molybdate nanoparticles

    Indian Academy of Sciences (India)

    HAMID EMADI; BAHAREH TAMADDONI JAHROMI; ALI NEMATI KHARAT

    2017-03-01

    A novel nickel molybdenum complex with the 2,6-pyridine dicarboxylic acid ligand was successfully synthesized and characterized by thermogravimetric analysis and single crystal X-ray crystallography. The single-crystal X-ray data revealed that the structure is a hydrated 1-D polymer with two different Ni sites.The synthesized complex was then used as a new precursor for the preparation of the related nickel molybdate nanoparticles. The crystallinity and morphology of the nickel molybdate nanoparticles were characterized by powder X-ray diffraction (XRD), energy-dispersive X-ray spectroscopy (EDS), scanning electron microscopy (SEM), transmittance electron microscopy (TEM), and Photoluminescence (PL) spectroscopy.

  6. Cytotoxicity of copper(II)-complexes with some S-alkyl derivatives of thiosalicylic acid. Crystal structure of the binuclear copper(II)-complex with S-ethyl derivative of thiosalicylic acid

    Science.gov (United States)

    Nikolić, Miloš V.; Mijajlović, Marina Ž.; Jevtić, Verica V.; Ratković, Zoran R.; Novaković, Slađana B.; Bogdanović, Goran A.; Milovanović, Jelena; Arsenijević, Aleksandar; Stojanović, Bojana; Trifunović, Srećko R.; Radić, Gordana P.

    2016-07-01

    The spectroscopically predicted structure of the obtained copper(II)-complex with S-ethyl derivative of thiosalicylic acid was confirmed by X-ray structural study and compared to previously reported crystal structure of the Cu complex with S-methyl derivative. Single crystals suitable for X-ray measurements were obtained by slow crystallization from a water solution. Cytotoxic effects of S-alkyl (R = benzyl (L1), methyl (L2), ethyl (L3), propyl (L4) and butyl (L5)) derivatives of thiosalicylic acid and the corresponding binuclear copper(II)-complexes on murine colon carcinoma cell lines, CT26 and CT26.CL25 and human colon carcinoma cell line HCT-116 were reported here. The analysis of cancer cell viability showed that all the tested complexes had low cytotoxic effect on murine colon carcinoma cell lines, but several times higher cytotoxicity on normal human colon carcinoma cells.

  7. A new copper(II) complex with 2-thenoyltrifluoroacetone and 2,2-bipyridine: Crystal structure, spectral properties and cytotoxic activity

    Science.gov (United States)

    Lopes, P. S.; Paixão, D. A.; de Paula, F. C. S.; Ferreira, A. M. D. C.; Ellena, J.; Guilardi, S.; Pereira-Maia, E. C.; Guerra, W.

    2013-02-01

    This work reports the synthesis and characterization of a new copper(II) complex with 2-thenoyltrifluoroacetone (HTTA) and 2,2-bipyridine (bipy). The complex was characterized by elemental analysis, UV-Vis, IR and EPR. The crystal structure was determined by single-crystal X-ray diffraction. The copper ion has a distorted square-pyramidal geometry and is coordinated to two bidentate ligands (HTTA and bipy) and a perchlorate ion weakly bonded in the apical position. The crystal packing is stabilized by non-classical hydrogen bonds and weak interactions π-π stacking. In the copper complex, the metal ion binds to HTTA via the oxygen atoms of the β-diketone group and to bipy via its two heterocyclic nitrogens. The title compound inhibits the growth of K562 cells with an IC50 value equal to 28.2 μmol L-1.

  8. Supramolecular architectures in luminescent Zn(II) and Cd(II) complexes containing imidazole derivatives: Crystal structures, vibrational and thermal properties, Hirshfeld surface analysis and electrostatic potentials

    Science.gov (United States)

    Di Santo, Alejandro; Echeverría, Gustavo A.; Piro, Oscar E.; Pérez, Hiram; Ben Altabef, Aida; Gil, Diego M.

    2017-04-01

    Three novel zinc and cadmium complexes with 1-methylimidazole and 2-methylimidazole as ligands, mono-nuclear dichloro-bis(1-methylimidazole) zinc(II) and dibromo-bis(2-methylimidazole)cadmium(II) monohydrate complexes, and poly-nuclear bis(1-methylimidazole)-di-(μ2-bromo)cadmium(II) complex, namely, compounds 1-3, respectively, have been synthesized. The complexes were characterized by IR and Raman spectroscopies, thermal analysis and fluorescence. All the compounds exhibit interesting luminescent properties in solid state originated from intra-ligand (π→π*) transitions. Crystal structures of 1-3 were determined by single-crystal X-ray diffraction. Compound 1 crystallizes in P21/n space group, the Zn(II) ion lies at a crystal general position in a tetrahedral environment, and the mono-nuclear units are weakly bonded to one another by Csbnd H⋯Cl hydrogen bonds. Compound 2 crystallizes in Pnma space group, and mirror-related tetrahedral units around Cd(II) ion are H-bonded through a water molecule. Compound 3 crystallizes in P21/c space group, and the Cd(II) ion presents a centrosymmetric octahedral coordination. Neighboring and equatorial edge-sharing octahedra conform a polymeric arrangement that extends along the crystal a-axis. Weak hydrogen bonds are the major driving forces in the crystal packing of the three complexes. Hirshfeld surface analysis reveals a detailed scrutiny of intermolecular interactions experienced by each complex. The surfaces mapped over dnorm property highlight the X···H (X = Cl, Br) as the main intermolecular contacts for the three complexes, being also relevant the presence of O⋯H contacts for complex 2. The surfaces mapped over Shape index and curvedness properties for the two Cd complexes allow identify π … π stacking interactions which are absent in the Zn complex. 2D fingerprint plots have been used to quantify the relative contribution of the intermolecular contacts to crystal stability of compounds, showing

  9. Crystal Structures and Theoretical Calculation of Zn(Ⅱ) and Cu(Ⅱ) Supramolecular Complexes Based on Macrocyclic Triamine Ligand 1 ,4,7-Triazacyclodecane (tacd)

    Institute of Scientific and Technical Information of China (English)

    QUO,Hui; ZHU,Hai-Yan; HE,Xian-Ling; SU,Zhen-Ping; LI,Jun; ZHANG,Feng-Xing

    2007-01-01

    Two supramolecular complexes [Zn(tacd)2](C6H8O4)·6H2O (1) and [Cu(tacd)2]Cl2·4H2O (2) were synthesized and characterized by elemental analysis, IR spectra, TGA and single-crystal X-ray diffraction analysis. The crystal structure showed that the metal ions in complexes 1 and 2 had similar coordination circumstance. But for the complex 2, it formed a novel two-dimensional supramolecular network with 12-membered rings and four-membered rings via hydrogen bond interaction. The thermal gravimetric analyses indicated that the two complexes had similar steps of weight-loss. On the basis of experiment, the two complexes were calculated by DFT-B3LYP/6-31G(d) in Gaussian 03. The results of calculation are in good agreement with the experiment.

  10. Carboxylate-bridged Cu(II) coordination polymeric complex: synthesis, crystal structure, magnetic properties, DNA binding and electrochemical studies

    Indian Academy of Sciences (India)

    SABITHAKALA THATITURI; BHARGAVI GOVINDUGARI; VENKATA RAMANA REDDY CHITTIREDDY

    2017-08-01

    A novel water-soluble carboxylate-bridged copper(II) coordination polymer,Cu-BIG was formed by the reaction of Cu(ClO₄)₂ ·6H₂O and tridentate benzimidazole-glycine conjugate ligand, 2-((1H-benzimidazol- 2-yl)methylamino) acetic acid, BIGH and its structure has been determined by IR, UV, powder XRD, VSM, CV, TGA, DTA, EPR and single crystal X-ray diffraction. Crystallographic studies indicate it to be a coordination polymer with P¯ı Space group. The asymmetric unit of complex contains two Cu(II) ions with elongated square pyramid geometry.The axial positions of theCu(II) atoms are occupied by the carbonyl oxygen of the carboxylate group with the bond distances Cu(1)–O(5)axial , 2.28Å, and Cu(2)–O(2)axial , 2.26Å. The two Cu(II) are connected through the carboxylic group present in BIGH, which provides electron mobilisation in the molecule and hence results in the soft ferromagnetic polymer. An in vitro antibacterial activity study of BIGH and Cu-BIG showed moderate activity against Bacillus subtilis. The DNA binding studies showed the interaction of Cu-BIG with CT-DNA.

  11. Antitumor Metallothiosemicarbazonate:Synthesis,Crystal Structure,Spectra and Antitumor Studies of Co(Ⅲ) Complex with Thiosemicarbazone Derivative of 2-Benzoylpyridine

    Institute of Scientific and Technical Information of China (English)

    LI Ming-Xue; ZHOU Jing; WANG Zi-Liang; WANG Jing-Ping

    2008-01-01

    The title complex[Co(L)2]Cl·4H2O I has been achieved via self-assembly by incorporating cobalt into 2-benzoylpyridine thiosemicarbazonate ligand,and characterized by elemental analysis,infrared spectra,mass spectra and single-crystal X-ray diffraction study.The crystal crystallizes in monoclinic,space group P21/n,with a=10.227(3),b=17.363(4),c=17.459(4)(A),β=100.408(4)°,V=3049.2(13)(A)3,z=4,Mr=677.08,Dc=1.475 g/cm3,μ(MoKα)=0.834 mm-1,F(000)=1400,the final R=0.0747 and wR=0.0896 for 1663 observed reflections with Ⅰ>2σ(Ⅰ).The complex contains one six-coordinated cobalt ion connected by two thiosemicarbazone ligands which act as a tridentate ligand to coordinate with the center metal atoms via two pyridyl nitrogen atoms,two imine nitrogen atoms and two sulfur atoms giving rise to a mononuclear structure.Hydrogen bonds existing in the complex link the different components to stabilize the crystal structure.The antitumor activity of the title complex Was tested against A549 lung cancer cell line.Complex Ⅰ exhibits antitumor activity.

  12. Crystal Structures of Furazanes

    Directory of Open Access Journals (Sweden)

    Thomas M. Klapötke

    2015-09-01

    Full Text Available Several nitrogen-rich salts of 3-nitramino-4-nitrofurazane and dinitraminoazoxyfurazane were synthesized and characterized by various spectroscopic methods. The crystal structures were determined by low temperature single crystal X-ray diffraction. Moreover the sensitivities toward thermal and mechanical stimuli were determined by differential thermal analysis (DTA and BAM (Bundesanstalt für Materialforschung und -prüfung methods. The standard enthalpies of formation were calculated for all compounds at the CBS-4M level of theory, and the energetic performance was predicted with the EXPLO5 V6.02 computer code.

  13. Synthesis and Crystal Structure of a Novel Hetero-bimetallic Complex with a Three-dimensional Network Structure: Bis(malonato)tetra(aqua)calcum(Ⅱ)cobalt(Ⅱ)

    Institute of Scientific and Technical Information of China (English)

    FU Xu-Cheng; NIE Li; ZHANG Qiang; LI Ming-Tian; WANG Xiao-Yan

    2006-01-01

    The title complex [CaCo(C3H2O4)2(H2O)4]n with a formula of C6H12CaCoO12 and Mr = 375.17 has been synthesized and structurally characterized by X-ray diffraction. The crystal is of monoclinic, space group C2/c with a = 14.195(9), b = 7.708(5), c = 13.441(8) (A),β = 119.575(9)°,V = 1279.0(14)(A)3, Dc = 1.948 g/cm3, μ = 1.803 mm-1, F(000) = 764 and Z = 4. The final R =0.0245 and wR = 0.0652 for 1344 observed reflections with I > 2o(I). The structure of the title complex consists of CaO8 polyhedra and CoO6 octahedra linked together by malonate ligands. The Ca(Ⅱ) cation on a twofold axis is coordinated by two water molecules and six malonate O atoms.The Co(Ⅱ) cation which lies in a centre of symmetry in an octahedral arrangement is coordinated by four malonate O atoms and two water molecules. The structure comprises alternating layers along the [101] plane, with the shortest Co-Co distance of 6.961(5) (A). The whole 3D structure is maintained and stabilized by the presence of hydrogen bonds.

  14. Synthesis, crystal structure, and fluorescence of two dimeric europium(Ⅲ) complexes with 2-(trifluoromethyl)benzoate

    Institute of Scientific and Technical Information of China (English)

    LI Yanqiu; LI Peizhou; LI Xia

    2008-01-01

    Two complexes [Eu2(2-TFMBA)6(2,2'-bipy)2].2H2O (1) and Eu2(2-TFMBA)6(1,10-phen)2 (2) (2-TFMBA=2-(Trifluoromethyl) benzoate; 2,2'-bipy=2,2'-bipyridine; 1,10-phen=1,10-phenanthroline) were synthesized by solvent method and determined by X-ray diffrac-tion analysis. Complex 1 crystallizes in monoclinic system with space group P21/c, whereas complex 2 crystallizes in triclinic system with space group P-1. Both are binuclear molecules with an inversion center. In complex 1, two center Eu3+ ions are linked together by four 2-TFMBA ligands in bidentate-bridging mode. Each Eu3+ion is eight-coordinated with six O atoms from five 2-TFMBA ligands and two N atoms from one 2,2'-bipy molecule. In complex 2, two center Eu3+ ions are linked together by four 2-TFMBA ligands in two modes, namely, bidentate-bridging and tridentate-bridging. Each Eu3+ ion is nine-coordinated with seven O atoms from five 2-TFMBA ligands and two N atoms from one 1,10-phen molecule. The two complexes both exhibited strong red fluorescence under ultraviolet light, and the 5D0→7Fj (j=0-4) transition emissions of Eu3+ ion were observed in their emission spectra.

  15. Crystal Structure of the VP4 Protease from Infectious Pancreatic Necrosis Virus Reveals the acyl-enzyme Complex for an Intermolecular Self-Cleavage Reaction

    Energy Technology Data Exchange (ETDEWEB)

    Lee,J.; Feldman, A.; Delmas, B.; Paetzel, M.

    2007-01-01

    Infectious pancreatic necrosis virus (IPNV), an aquatic birnavirus that infects salmonid fish, encodes a large polyprotein (NH{sub 2}-pVP2-VP4-VP3-COOH) that is processed through the proteolytic activity of its own protease, VP4, to release the proteins pVP2 and VP3. pVP2 is further processed to give rise to the capsid protein VP2 and three peptides that are incorporated into the virion. Reported here are two crystal structures of the IPNV VP4 protease solved from two different crystal symmetries. The electron density at the active site in the triclinic crystal form, refined to 2.2-{angstrom} resolution, reveals the acyl-enzyme complex formed with an internal VP4 cleavage site. The complex was generated using a truncated enzyme in which the general base lysine was substituted. Inside the complex, the nucleophilic Ser{sup 633}O{gamma} forms an ester bond with the main-chain carbonyl of the C-terminal residue, Ala{sup 716}, of a neighboring VP4. The structure of this substrate-VP4 complex allows us to identify the S1, S3, S5, and S6 substrate binding pockets as well as other substrate-VP4 interactions and therefore provides structural insights into the substrate specificity of this enzyme. The structure from the hexagonal crystal form, refined to 2.3-{angstrom} resolution, reveals the free-binding site of the protease. Three-dimensional alignment with the VP4 of blotched snakehead virus, another birnavirus, shows that the overall structure of VP4 is conserved despite a low level of sequence identity ({approx}19%). The structure determinations of IPNV VP4, the first of an acyl-enzyme complex for a Ser/Lys dyad protease, provide insights into the catalytic mechanism and substrate recognition of this type of protease.

  16. Synthesis, crystal structure and computational chemistry research of a Zinc(II complex: [Zn(Pt(Biim2

    Directory of Open Access Journals (Sweden)

    Teng Fei

    2012-01-01

    Full Text Available The title metal-organic coordination complex [Zn(pt(Biim2] (pt=phthalic acid, benzene-1,2-dicarboxylate, Biim=2,2'-biimidazole 1 has been obtained by using hydrothermal synthesis and characterized by single-crystal X-ray diffraction. The complex crystallizes in monoclinic, space group P21/n with a = 8.5466(15 Å, b = 11.760(2 Å, c = 20.829(4 Å, β = 95.56(2º, V = 2083.5(6 Å3, Mr =497.78, Dc = 1.587 g/cm3, μ(MoKα = 1.226 mm−1, F(000 = 1016, Z = 4, the final R = 0.0564 and wR = 0.1851 for 3656 observed reflections (I > 2σ(I. The elemental analysis, IR, TG and the theoretical calculation were also investigated.

  17. Synthesis and crystal structure of Cu(II and Co(II complexes with 1,3-dimethyl-pyrazole-5-carboxylic acid ligand

    Directory of Open Access Journals (Sweden)

    Jaćimović Željko K.

    2015-01-01

    Full Text Available In the reaction of 1,3-dimethyl-pyrazole-5-carboxylic acid (HL with M(OAc2•4H2O, (M = Cu, Co two novel complexes have been prepared, square-planar [CuL2(H2O2] and octahedral [CoL2(MeOH4]. The crystal structures have been determined by single-crystal X-ray diffraction. In both complexes the deprotonated acid displays monodentate coordination to the metal ions. According to the results of CSD survey this is the first structural report on the metal complexes with N1-substituted pyrazole-5-carboxylic ligand. [Projekat Ministarstva nauke Republike Srbije, br. 172014 i br. 172035

  18. Preparation of the Crystal Complex of Phosphopantetheine Adenylyltransferase from Mycobacterium tuberculosis with Coenzyme A and Investigation of Its Three-Dimensional Structure at 2.1-Å Resolution

    Science.gov (United States)

    Timofeev, V. I.; Smirnova, E. A.; Chupova, L. A.; Esipov, R. S.; Kuranova, I. P.

    2010-11-01

    Recombinant phosphopantetheine adenylyltransferase from Mycobacterium tuberculosis (PPAT Mt), which was produced by a high-producing strain and purified to 99%, was used for the crystal growth of the complex of the enzyme with coenzyme A (CoA). Crystals suitable for X-ray diffraction study were obtained by cocrystallization. The crystals belong to sp. gr. R32 and have the unit-cell parameters a = b = 98.840 Å, c = 112.880 Å, α = β = 90.00°, and γ = 120.00°. The three-dimensional structure of the complex was determined based on X-ray diffraction data collected from the crystals to 2.1 Å resolution and refined to Rf = 22.7% and Rfree = 25.93%. Active-site bound coenzyme A was found, and its nearest environment was described. The conformational changes of the enzyme due to ligand binding were revealed. The binding of CoA by tuberculosis phosphopantetheine adenylyltransferase was characterized by comparing the structures of the title complex to a similar complex of PPAT from E. coli (PPAT Ec).

  19. Synthesis and Crystal Structure of a Mn(Ⅱ) Complex with Thiosemicarbazone Derivative of Pyridine-3-carbaldehyde Showing Unusual Coordination Mode of Tridentate Thiosemicarbazone

    Institute of Scientific and Technical Information of China (English)

    LI Ming-Xue; ZHOU Jing; WANG Jing-Ping; WANG Zi-Liang

    2006-01-01

    The title complex Mn(HL)4(NCS)2(CH3CH2OH)2 has been achieved via selfassembly by incorporating manganese(Ⅱ) into pyridine-3-carbaldehyde thiosemicarbazonate ligand,and characterized by elemental analysis and single-crystal X-ray diffraction study. The crystal crystallizes in triclinic, space group P1 with a = 8.896(2), b = 9.530(2), c = 14.520(4) (A), α =87.035(4), β= 88.112(4), γ= 69.434(4)°, V= 1150.9(5) (A)3, Z = 1, Mr = 984.17, Dc = 1.420 g/cm3,μ(MoKα) = 0.612 mm-1, F(000) = 511, the final R = 0.0574 and wR = 0.1547 for 2855 observed reflections with I > 2σ(I). The complex contains one six-coordinated manganese ion connected by two thiosemicarbazide ligands, in which the thiosemicarbazone ligand acts as a monodentate ligand and coordinates to the center metal atoms via the pyridyl nitrogen atoms, two ethanol molecules and two isothiocyanic anions to give rise to a mononuclear structure. The coordination of a potentially tridentate thiosemicarbazone in manganese(Ⅱ) complex without using its sulfur and imine nitrogen sites is unusual. Hydrogen bonds existing in the complex link the different components to stabilize the crystal structure.

  20. Preparation of the Crystal Complex of Phosphopantetheine Adenylyltransferase from Mycobacterium tuberculosis with Coenzyme A and Investigation of Its Three-Dimensional Structure at 2.1-A Resolution

    Energy Technology Data Exchange (ETDEWEB)

    Timofeev, V. I.; Smirnova, E. A., E-mail: inna@ns.crys.ras.ru [Russian Academy of Sciences, Shubnikov Institute of Crystallography (Russian Federation); Chupova, L. A.; Esipov, R. S. [Russian Academy of Sciences, Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry (Russian Federation); Kuranova, I. P. [Russian Academy of Sciences, Shubnikov Institute of Crystallography (Russian Federation)

    2010-11-15

    Recombinant phosphopantetheine adenylyltransferase from Mycobacterium tuberculosis (PPAT Mt), which was produced by a high-producing strain and purified to 99%, was used for the crystal growth of the complex of the enzyme with coenzyme A (CoA). Crystals suitable for X-ray diffraction study were obtained by cocrystallization. The crystals belong to sp. gr. R32 and have the unit-cell parameters a = b = 98.840 A, c = 112.880 A, {alpha} = {beta} = 90.00{sup o}, and {gamma} = 120.00{sup o}. The three-dimensional structure of the complex was determined based on X-ray diffraction data collected from the crystals to 2.1 A resolution and refined to Rf = 22.7% and Rfree = 25.93%. Active-site bound coenzyme A was found, and its nearest environment was described. The conformational changes of the enzyme due to ligand binding were revealed. The binding of CoA by tuberculosis phosphopantetheine adenylyltransferase was characterized by comparing the structures of the title complex to a similar complex of PPAT from E. coli (PPAT Ec).

  1. Crystal Structure and Spectroscopic Properties of the Donor-acceptor Complex of 2-Amino-1,3-benzo- thiazole with Ethyl-5,6-benzocoumarin-3-carboxylate

    Institute of Scientific and Technical Information of China (English)

    2008-01-01

    The donor-acceptor complex derived from 2-amino-1,3-benzothiazole (ABT) and ethyl 5,6-benzocoumarin-3-carboxylate (EBCC) has been synthesized and its crystal structure was determined by single-crystal X-ray diffraction. The crystal belongs to the monoclinic system, space group P21/c, with a = 8.6485(3), b = 7.7743(3), c = 29.1963(10) (A), β = 92.0460(10)°, Z = 4, Mr = 418.45, V = 1961.79(12)(A)3, Dc = 1.417 g/cm3, μ = 0.199 mm-1, F(000) = 872, the final R = 0.0350 and wR = 0.1226. The complex is an A…D…D'…A' H-bonded tetramer. The intermolecular N-H…O and N-H…N hydrogen bonds, together with π-π stacking interactions, stabilize the crystal structure by forming a supramolecular architecture. It is found that, in solid state, the fluorescence emission of the complex is quenched significantly while the UV-vis spectrum exhibits a broad band at 346 nm with shoulder, which can be attributed to the donor-acceptor complex formed.

  2. Spectroscopic, crystal structural and electrochemical studies of zinc(II)-Schiff base complex obtained from 2,3-diaminobenzene and 2-hydroxy naphthaldehyde.

    Science.gov (United States)

    Ouari, Kamel; Bendia, Sabrina; Weiss, Jean; Bailly, Corinne

    2015-01-25

    Mononuclear zinc(II) complex, [Zn(II)L], where L is a dianionic ligand, has been synthesized and characterized by elemental analysis, electronic, IR and NMR [(1)H, (13)C, DEPT, (1)H-(1)H COSY, ROESY, HSQC and HMBC] spectroscopic techniques. Structural analysis of the complex by single crystal X-ray crystallography shows the presence of a distorted square planar coordination geometry (NNOO) of the metal center. The crystal of the title complex C28H18N2O2Zn belongs to the orthorhombic system with space group Pmn21. Electrochemical behavior of the Zn(II)L complex has been investigated by cyclic voltammetry on glassy carbon and platinum electrodes in DMF at 100 mV/s scan rate.

  3. Structural basis for the inhibition of M1 family aminopeptidases by the natural product actinonin: Crystal structure in complex with E. coli aminopeptidase N.

    Science.gov (United States)

    Ganji, Roopa Jones; Reddi, Ravikumar; Gumpena, Rajesh; Marapaka, Anil Kumar; Arya, Tarun; Sankoju, Priyanka; Bhukya, Supriya; Addlagatta, Anthony

    2015-05-01

    Actinonin is a pseudotripeptide that displays a high affinity towards metalloproteases including peptide deformylases (PDFs) and M1 family aminopeptidases. PDF and M1 family aminopeptidases belong to thermolysin-metzincin superfamily. One of the major differences in terms of substrate binding pockets between these families is presence (in M1 aminopeptidases) or absence (in PDFs) of an S1 substrate pocket. The binding mode of actinonin to PDFs has been established previously; however, it is not clear how the actinonin, without a P1 residue, would bind to the M1 aminopeptidases. Here we describe the crystal structure of Escherichia coli aminopeptidase N (ePepN), a model protein of the M1 family aminopeptidases in complex with actinonin. For comparison we have also determined the structure of ePepN in complex with a well-known tetrapeptide inhibitor, amastatin. From the comparison of the actinonin and amastatin ePepN complexes, it is clear that the P1 residue is not critical as long as strong metal chelating head groups, like hydroxamic acid or α-hydroxy ketone, are present. Results from this study will be useful for the design of selective and efficient hydroxamate inhibitors against M1 family aminopeptidases.

  4. Dinuclear Copper(Ⅱ) Complex with a New Polycarboxylate Ligand:Syntheses,Characterization and Crystal Structure

    Institute of Scientific and Technical Information of China (English)

    沈超君; 盛天录; 傅瑞标; 胡胜民; 陈建珊; 朱起龙; 马骁; 吴新涛

    2012-01-01

    A dinuclear copper(Ⅱ) complex,[Cu2(HL)2(H2O)6] 1(H3L = 2,4,6-tri(3-carboxy-phenylthio)-1,3,5-triazine),was synthesized hydrothermally and characterized by single-crystal X-ray diffraction,IR and thermal analysis.Single-crystal X-ray diffraction reveals that complex 1 is a dinuclear copper(Ⅱ) complex,which is further extended to a 3D network by weak interactions such as O…H-O hydrogen bonds and noncovalent S...S interactions.The crystal of compound 1 belongs to monoclinic,space group C2/c,with a = 50.15(2),b = 6.789(3),c =15.667(8) ,β = 90.588(9)o,V = 5334(4) 3,Z = 4,C48H38Cu2N6O18S6,Mr = 1306.28,Dc = 1.627 g/cm3,F(000) = 2664,Rint = 0.0631,T = 293(2) K,μ = 1.112 mm-1,the final R = 0.0661 and wR = 0.1850 for 3782 observed reflections with I 2σ(I).

  5. Synthesis, crystal structure and spectral properties of a supramolecular trinuclear nickel(II) complex with 5-methoxy-4'-bromo-2,2'-[ethylenedioxybis(nitrilomethylidyne)]diphenol.

    Science.gov (United States)

    Dong, Wen-Kui; Du, Wei; Zhang, Xin-Ying; Li, Gang; Dong, Xiu-Yan

    2014-11-11

    A novel trinuclear Ni(II) complex [{NiL(n-PrOH)(μ-OAc)}2Ni]·n-PrOH·H2O with an asymmetric Salamo-type ligand, 5-methoxy-4'-bromo-2,2'-[ethylenedioxybis(nitrilomethylidyne)]diphenol (H2L), has been synthesized and characterized by elemental analyses, IR, UV/Vis and fluorescence spectra and molar conductance measurement. The crystal structure of the Ni(II) complex has been determined by single-crystal X-ray diffraction. Two acetate groups coordinating to three Ni(II) ions through NiOCONi bridges and four μ-phenoxo oxygen atoms from two [NiL(n-PrOH)] units also coordinating to Ni(II) ions. In the Ni(II) complex, two n-propanol molecules are coordinated to the two terminal Ni(II) ions having slightly distorted octahedral coordination geometries and form a trinuclear structure, There are also one non-coordinated n-propanol and one non-coordinated water molecule. In the crystal structure, the Ni(II) complex is linked by intermolecular hydrogen bonds into an infinite 1D supramolecular chain-like structure.

  6. Synthesis, spectral characterization and catalytic activity of Co(II) complexes of drugs: Crystal structure of Co(II)-trimethoprim complex

    Science.gov (United States)

    Madhupriya, Selvaraj; Elango, Kuppanagounder P.

    2014-01-01

    New Co(II) complexes with drugs such as trimethoprim (TMP), cimetidine (CTD), niacinamide (NAM) and ofloxacin (OFL) as ligands were synthesized. The complexes were characterized by analytical analysis, various spectral techniques such as FT-IR, UV-Vis, magnetic measurements and molar conductivity. The magnetic susceptibility results coupled with the electronic spectra suggested a tetrahedral geometry for the complexes. The coordination mode of trimethoprim ligand and geometry of the complex were confirmed by single crystal X-ray studies. In this complex the metal ion possesses a tetrahedral geometry with two nitrogen atom from two TMP ligands and two chloride ions coordinated to it. The catalytic activity of the complexes in aryl-aryl coupling reaction was screened and the results indicated that among the four complexes [Co(OFL)Cl(H2O)] exhibited excellent catalytic activity.

  7. Crystal Structure and Spectroscopic Studies of Bis (morpholine dithiocarbamate) Nickel (II) Complex, Ni (C4H8ONCS2) 2

    Institute of Scientific and Technical Information of China (English)

    PAN,Su(潘苏); PAN,Su; WANG,Ying(王瑛); WANG,Ying

    2001-01-01

    The title compound has been prepared and characterized by EA, IR and TG spectralstudies. The crystal structure of nickel (IⅡ) bis(morpholine dithiocarbamate) Ni(C4HsONC S2)2 is determied by X-ray diffraction methods. It crystal lizes in the monoclinic system, space groun P2n/n, with lat tice parameters a = 0.4288(1), b = 2.0526(4), c = 0.8333(2) nn, β = 97.43(3)°, and Z = 2. In the structure, central Ni atom coordination geometry is slightly distorted square-planar with the four S atoms from two morpholine dithiocarbamate ligands. The four Ni-S bond distancs are in the range of 0.2199(5)0.2201(2) nm. The IR spectral data are in agreement with the structural ones. The TG data indicate that it decomposed completely at the 766.89°C.

  8. Synthesis, crystal structure, fluorescence and electrochemical studies of a new tridentate Schiff base ligand and its nickel(II) and palladium(II) complexes

    Science.gov (United States)

    Shafaatian, Bita; Soleymanpour, Ahmad; Kholghi Oskouei, Nasim; Notash, Behrouz; Rezvani, Seyyed Ahmad

    2014-07-01

    A new unsymmetrical tridentate Schiff base ligand was derived from the 1:1 M condensation of ortho-vanillin with 2-mercaptoethylamine. Nickel and palladium complexes were obtained by the reaction of the tridentate Schiff base ligand with nickel(II) acetate tetrahydrate and palladium(II) acetate in 2:1 M ratio. In nickel and palladium complexes the ligand was coordinated to metals via the imine N and enolic O atoms. The S groups of Schiff bases were not coordinated to the metals and S-S coupling was occured. The complexes have been found to possess 1:2 Metal:Ligand stoichiometry and the molar conductance data revealed that the metal complexes were non-electrolytes. The complexes exhibited octahedral coordination geometry. The emission spectra of the ligand and its complexes were studied in methanol. Electrochemical properties of the ligand and its metal complexes were investigated in the CH3CN solvent at the 100 mV s-1 scan rate. The ligand and metal complexes showed both reversible and quasi-reversible processes at this scan rate. The Schiff base and its complexes have been characterized by IR, 1H NMR, UV/Vis, elemental analyses and conductometry. The crystal structure of nickel complex has been determined by single crystal X-ray diffraction.

  9. A Hirshfeld surface analysis, crystal structure and physicochemical studies of a new Cd(II) complex with the 2-amino-4-methylpyrimidine ligand

    Science.gov (United States)

    Klai, Kacem; Kaabi, Kamel; Kaminsky, Werner; Jelsch, Christian; Lefebvre, Frédéric; Ben Nasr, Cherif

    2017-01-01

    A new Cd(II) complex with the monodentate ligand 2-amino-4-methylpyrimidine, [Cd(NO3)2(C5N3H7)2(H2O)2], has been prepared and characterized by single crystal X-ray diffraction, elemental analysis, CP-MAS NMR and IR spectroscopy. The basic coordination patterns of the 2-amino-4-methylpyrimidine coordinated metal cations are slightly distorted octahedra in this compound. The crystal structure is characterized by CdN2O4 octahedra interconnected via O-H…O and O-H…N hydrogen bonds to form layers parallel to the (b, c) plane. The crystal structure is stabilized by sets of hydrogen bonds, one of which is trifurcated. Intermolecular interactions were investigated by Hirshfeld surfaces. The 13C and 15N CP-MAS NMR spectra are discussed and the vibrational absorption bands were identified by infrared spectroscopy. Electronic properties such as HOMO and LUMO energies were derived.

  10. Synthesis and Crystal Structure of the Copper Complex {[Cu(CH3COO)2(bbtz)](H2O)2}n

    Institute of Scientific and Technical Information of China (English)

    2005-01-01

    The new copper complex { [Cu(CH3COO)2(bbtz)](H2O)2 } n 1 (bbtz = 1,4-bis(1 ,2,4-triazol-1-ylmethyl)benzene) was synthesized and the structure was determined by single-crystal X-ray diffraction. Crystal data: C16H22CuN6O6, monoclinic, space group P21/n, a = 12.589(5), b =6.455(2), c = 12.677(5) A, β= 98.748(9)°, V= 1018.2(7) A3, Mr = 457.95, Z = 2, Dc= 1.494 g/cm3,F(000) = 474,μ = 1.118 mm-1, R = 0.0463 and wR = 0.0939 for 1971 observed reflections with I >2σ(I). The crystal structure of 1 is a one-dimensional chain via the bridging flexible ligand bbtz.

  11. Structural and biophysical characterization of an epitope-specific engineered Fab fragment and complexation with membrane proteins: implications for co-crystallization.

    Science.gov (United States)

    Johnson, Jennifer L; Entzminger, Kevin C; Hyun, Jeongmin; Kalyoncu, Sibel; Heaner, David P; Morales, Ivan A; Sheppard, Aly; Gumbart, James C; Maynard, Jennifer A; Lieberman, Raquel L

    2015-04-01

    Crystallization chaperones are attracting increasing interest as a route to crystal growth and structure elucidation of difficult targets such as membrane proteins. While strategies to date have typically employed protein-specific chaperones, a peptide-specific chaperone to crystallize multiple cognate peptide epitope-containing client proteins is envisioned. This would eliminate the target-specific chaperone-production step and streamline the co-crystallization process. Previously, protein engineering and directed evolution were used to generate a single-chain variable (scFv) antibody fragment with affinity for the peptide sequence EYMPME (scFv/EE). This report details the conversion of scFv/EE to an anti-EE Fab format (Fab/EE) followed by its biophysical characterization. The addition of constant chains increased the overall stability and had a negligible impact on the antigen affinity. The 2.0 Å resolution crystal structure of Fab/EE reveals contacts with larger surface areas than those of scFv/EE. Surface plasmon resonance, an enzyme-linked immunosorbent assay, and size-exclusion chromatography were used to assess Fab/EE binding to EE-tagged soluble and membrane test proteins: namely, the β-barrel outer membrane protein intimin and α-helical A2a G protein-coupled receptor (A2aR). Molecular-dynamics simulation of the intimin constructs with and without Fab/EE provides insight into the energetic complexities of the co-crystallization approach.

  12. synthesis, characterization and crystal structure of a ...

    African Journals Online (AJOL)

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    Crystal and molecular structure of the complex ... Coordination chemistry of molybdenum(VI) has attracted considerable attention due to its biochemical significance [1-3] as well as for the efficient catalytic properties in several organic.

  13. The crucial role of chelate-chelate stacking interactions in the crystal structure of a square planar copper(II) complex

    Science.gov (United States)

    Jana, Subrata; Khan, Samim; Bauzá, Antonio; Frontera, Antonio; Chattopadhyay, Shouvik

    2017-01-01

    A square planar copper(II) complex has been synthesized and characterized by elemental analysis, IR spectroscopy and single-crystal X-ray diffraction study. The X-ray structure of the complex is used to analyze the crucial role of the π-interactions in the solid state. The complex also shows significant hydrogen-bonding interactions. Moreover, we have evaluated energetically both interactions by means of high level DFT calculations (BP86-D3/def2-TZVP) and characterized them using the Bader's theory of "atoms-in-molecules".

  14. Luminescence properties and crystal structure of europium complexes with phenoxyacetic acid and 2,4,6-tri(2-pyridyl)-s-triazine

    Energy Technology Data Exchange (ETDEWEB)

    Wang, Ai-Ling; Zhou, Dan; Wei, Xiao-Yan; Wang, Zhong-Xia; Qu, Yan-Rong; Zhang, Hai-Xia; Chen, Ying-Nan; Li, Jing-Jing; Chu, Hai-Bin, E-mail: binghai99@gmail.com; Zhao, Yong-Liang, E-mail: hxzhaoyl@163.com

    2015-04-15

    Using anion ligand phenoxyacetic acid (HPOA) and neutral ligand 2,4,6-tri(2-pyridyl)-s-triazine (TPTZ), two complexes Eu{sub 2}(TPTZ){sub 2}(POA){sub 6}·6H{sub 2}O and EuY(TPTZ){sub 2}(POA){sub 6}·6H{sub 2}O have been synthesized and one crystal EuY(TPTZ){sub 2}(POA){sub 6}·2CH{sub 3}OH has been obtained. These complexes are characterized by elemental analysis, ICP-AES, IR and UV absorption spectroscopy. The luminescence spectra, luminescence lifetimes and emission quantum efficiencies of the complexes have been studied. The results show that the complex EuY(TPTZ){sub 2}(POA){sub 6}·6H{sub 2}O exhibits stronger luminescence intensity, longer luminescent lifetime and higher emission quantum efficiency than Eu{sub 2}(TPTZ){sub 2}(POA){sub 6}·6H{sub 2}O. The single-crystal X-ray diffraction of EuY(TPTZ){sub 2}(POA){sub 6}·2CH{sub 3}OH reveals that the crystal is heteronuclear and crystallizes in the triclinic space group P-1 with following unit cell parameters a=12.2411(10) Å, b=13.2294(11) Å, c=13.5232(11) Å, α=74.8596(13)°, β=82.9593(16)°, γ=87.1641(14)°, and V=2097.7(3) Å{sup 3}. Each metal ion coordinates with three nitrogen atoms of one TPTZ and seven oxygen atoms of three POA{sup −} ions. And there exist two coordination forms between POA{sup −} and metal ions in the crystal. One is chelating bidentate, the other is the single-atom bridge. - Highlights: • One Eu/Y heteronuclear crystal and two complexes with HPOA and TPTZ were prepared. • Each metal ion in the crystal coordinates with three nitrogen and seven oxygen atoms. • The two complexes exhibit strong luminescence emissions. • The heteronuclear complex shows better luminescent properties than the homonuclear one. • The structure of the crystal and the sensitization mechanism are deeply discussed.

  15. Hydrothermal Synthesis and Crystal Structure of a One-dimensional Copper(Ⅱ) Complex%Hydrothermal Synthesis and Crystal Structure of a One-dimensional Copper(Ⅱ) Complex

    Institute of Scientific and Technical Information of China (English)

    LI Xiu-Mei; WANG Qing-Wei; LIU Bo

    2012-01-01

    A metal-organic coordination polymer [Cu(cbba)2(bix)]n(Hcbba = 2-(4'-chlorine-benzoyl)-benzoic acid,bix = 1,4-bis(imidazol-1-ylmethyl)-benzene) 1 has been hydrothermally synthesized and characterized by elemental analysis,IR,TG,UV and single-crystal X-ray diffraction.Blue crystals crystallize in the monoclinic system,space group C2/c with a = 26.127(3),b = 10.6143(14),c = 14.5676(19) ,β = 111.289(2),V = 3764.3(8) 3,C42H30Cl2CuN4O6,Mr = 821.14,Dc = 1.449 g/cm3,F(000) = 1684,Z = 4,μ(MoKα) = 0.777 mm 1,the final R = 0.0528 and wR = 0.1200 for 2241 observed reflections(I 〉 2(I)).The structure of 1 exhibits a one-dimensional chain-like structure.

  16. Synthesis, Crystal Structure and Theoretical Calculation of a Novel Nickel(II) Complex with Dibromotyrosine and 1,10-Phenanthroline

    Energy Technology Data Exchange (ETDEWEB)

    Huang, Guimei; Zhang, Xia; Fan, Yuhua; Bi, Caifeng; Yan, Xingchen; Zhang, Zhongyu; Zhang, Nan [Ocean Univ. of China, Qingdao (China)

    2013-10-15

    A new complex [Ni(phen)(C{sub 9}H{sub 8}Br{sub 2}NO{sub 3}){sub 2}·2CH{sub 3}OH·2H{sub 2}O] [phen: 1,10-phenanthroline C{sub 9}H{sub 8}Br{sub 2}NO{sub 3}: 3,5-dibromo-L-tyrosine] was synthesized and characterized by IR, elemental analysis and single crystal X-ray diffraction. X-ray crystallography shows that Ni(II) ion is six-coordinated. The Ni(II) ion coordinates with four nitrogen atoms and two oxygen atoms from three ligands, forming a mononuclear Ni(II) complex. The crystal crystallizes in the Orthorhombic system, space group P2{sub 1}2{sub 1}2 with a = 12.9546 A, b = 14.9822 A, c = 9.9705 A, V = 1935.2 A, Z = 1, F(000) = 1008, S = 0.969, ρ{sub calcd} = 1.742 g·cm{sup -3}, μ = 4.688 mm{sup -1}, R{sub 1} = 0.0529 and wR{sub 2} = 0.0738 for 3424 observed reflections (I > 2σ(I)). Theoretical study of the title complex was carried out by density functional theory (DFT) method and the B3LYP method employing the 6-3l+G{sup *} basis set. The energy gap between HOMO and LUMO indicates that this complex is prone to interact with DNA. CCDC: 908041.

  17. High-resolution crystal structure of Streptococcus pyogenes β-NAD{sup +} glycohydrolase in complex with its endogenous inhibitor IFS reveals a highly water-rich interface

    Energy Technology Data Exchange (ETDEWEB)

    Yoon, Ji Young; An, Doo Ri; Yoon, Hye-Jin [Seoul National University, Seoul 151-747 (Korea, Republic of); Kim, Hyoun Sook [Seoul National University, Seoul 151-747 (Korea, Republic of); Seoul National University, Seoul 151-742 (Korea, Republic of); Lee, Sang Jae [Seoul National University, Seoul 151-742 (Korea, Republic of); Im, Ha Na; Jang, Jun Young [Seoul National University, Seoul 151-747 (Korea, Republic of); Suh, Se Won, E-mail: sewonsuh@snu.ac.kr [Seoul National University, Seoul 151-747 (Korea, Republic of); Seoul National University, Seoul 151-747 (Korea, Republic of)

    2013-11-01

    The crystal structure of the complex between the C-terminal domain of Streptococcus pyogenes β-NAD{sup +} glycohydrolase and an endogenous inhibitor for SPN was determined at 1.70 Å. It reveals that the interface between the two proteins is highly rich in water molecules. One of the virulence factors produced by Streptococcus pyogenes is β-NAD{sup +} glycohydrolase (SPN). S. pyogenes injects SPN into the cytosol of an infected host cell using the cytolysin-mediated translocation pathway. As SPN is toxic to bacterial cells themselves, S. pyogenes possesses the ifs gene that encodes an endogenous inhibitor for SPN (IFS). IFS is localized intracellularly and forms a complex with SPN. This intracellular complex must be dissociated during export through the cell envelope. To provide a structural basis for understanding the interactions between SPN and IFS, the complex was overexpressed between the mature SPN (residues 38–451) and the full-length IFS (residues 1–161), but it could not be crystallized. Therefore, limited proteolysis was used to isolate a crystallizable SPN{sub ct}–IFS complex, which consists of the SPN C-terminal domain (SPN{sub ct}; residues 193–451) and the full-length IFS. Its crystal structure has been determined by single anomalous diffraction and the model refined at 1.70 Å resolution. Interestingly, our high-resolution structure of the complex reveals that the interface between SPN{sub ct} and IFS is highly rich in water molecules and many of the interactions are water-mediated. The wet interface may facilitate the dissociation of the complex for translocation across the cell envelope.

  18. Crystal structure of shrimp arginine kinase in binary complex with arginine-a molecular view of the phosphagen precursor binding to the enzyme.

    Science.gov (United States)

    López-Zavala, Alonso A; García-Orozco, Karina D; Carrasco-Miranda, Jesús S; Sugich-Miranda, Rocio; Velázquez-Contreras, Enrique F; Criscitiello, Michael F; Brieba, Luis G; Rudiño-Piñera, Enrique; Sotelo-Mundo, Rogerio R

    2013-12-01

    Arginine kinase (AK) is a key enzyme for energetic balance in invertebrates. Although AK is a well-studied system that provides fast energy to invertebrates using the phosphagen phospho-arginine, the structural details on the AK-arginine binary complex interaction remain unclear. Herein, we determined two crystal structures of the Pacific whiteleg shrimp (Litopenaeus vannamei) arginine kinase, one in binary complex with arginine (LvAK-Arg) and a ternary transition state analog complex (TSAC). We found that the arginine guanidinium group makes ionic contacts with Glu225, Cys271 and a network of ordered water molecules. On the zwitterionic side of the amino acid, the backbone amide nitrogens of Gly64 and Val65 coordinate the arginine carboxylate. Glu314, one of proposed acid-base catalytic residues, did not interact with arginine in the binary complex. This residue is located in the flexible loop 310-320 that covers the active site and only stabilizes in the LvAK-TSAC. This is the first binary complex crystal structure of a guanidine kinase in complex with the guanidine substrate and could give insights into the nature of the early steps of phosphagen biosynthesis.

  19. Mononuclear, dinuclear and 1-D polymeric complexes of Cd(II) of a pyridyl pyrazole ligand: Syntheses, crystal structures and photoluminescence studies

    Science.gov (United States)

    Das, Kinsuk; Konar, Saugata; Jana, Atanu; Barik, Anil Kumar; Roy, Sangita; Kar, Susanta Kumar

    2013-03-01

    The syntheses, crystal structures and photoluminescence properties of four new Cd(II) complexes are reported using strongly coordinating ligand 3,5-dimethyl-1-(2'-pyridyl) pyrazole (L) in presence of anionic ancillary bridging ligands as nitrite, chloride and dicyanamide. Among the complexes two (1 and 2) are monomeric, 3 is μ2 - chloro bridged dimer and the last one (4) is a mixed alternate chloro - end to end (EE) dicyanamide bridged 1D polymer. All the four complexes have been X-ray crystallographically characterized. The ligand L behaves as a potent bidentate neutral N, N donor. Geometrical diversity of Cd(II) complexes is due to no loss or gain of crystal field stability with the variation of geometry. Consequently the stability of a structure depends on steric requirements. The ligand L shows considerable fluorescence and all four complexes in methanol exhibit interesting photoluminescence properties with different emission intensities. The band maxima and fluorescence efficiency (in methanol) are found to be dependent on the coordination chromophore and structural rigidity induced by the incorporated Cd(II) ion. Among the synthesized complexes 1 exhibits the highest fluorescence intensity in methanol.

  20. Synthesis, crystal structure, DNA interaction and antioxidant activities of two novel water-soluble Cu2+ complexes derivated from 2-oxo-quinoline-3-carbaldehyde Schiff-bases.

    Science.gov (United States)

    Liu, Zeng-Chen; Wang, Bao-Dui; Yang, Zheng-Yin; Li, Yong; Qin, Dong-Dong; Li, Tian-Rong

    2009-11-01

    Two novel 2-oxo-quinoline-3-carbaldehyde (4'-hydroxybenzoyl) hydrazone, thiosemicarbazone ligands and its corresponding Cu(2+) complexes were synthesized, and the two complexes' structures were determined by X-ray single crystal diffraction. The interaction of the two Cu(2+) complexes with calf thymus DNA (CT-DNA) was investigated by electronic absorption spectroscopy, fluorescence spectroscopy and viscosity measurement. The experimental evidences indicated that the two water-soluble Cu(2+) complexes could strongly bind to CT-DNA via an intercalation mechanism. The intrinsic binding constants of complexes 1 and 2 with CT-DNA were 7.31 x 10(6) and 2.33 x 10(6)M(-1), respectively. Furthermore, the antioxidant activities (hydroxyl radical and superoxide) of the two water-soluble metal complexes were determined by hydroxyl radical and superoxide scavenging method in vitro.

  1. Synthesis and Crystal Structure of a Cyano-bridged Bimetallic Complex K3(TMS)2(H2O)2Cr(CN)6 [TMS = Tetramethylene Sulfone

    Institute of Scientific and Technical Information of China (English)

    CHEN Wei; CHE Yun-Xia; ZHENG Ji-Min

    2005-01-01

    The cyano-bridged bimetallic complex K3(TMS)2(H2O)2Cr(CN)6 with three- dimensional microporous structure was synthesized and characterized. The title complex (C14H20CrK3N, Mr = 601.78) crystallizes in monoclinic, space group C2/c with a = 14.357(4), b = 9.331(3), c = 19.180(6)(A), β = 96.754(5)o, V = 2551.6(13) (A)3, Z = 4, Dc = 1.567 g/m3, μ(MoKα) = 1.141 mm-1, F(000) = 1228, the final R = 0.0440 and wR = 0.0990 for 1760 observed reflections (I > 2σ(I)). In the crystal, two [Cr(CN) 6]3- units, four K+ ions and two oxygen atoms of two TMS molecules are linked to form a sixteen-membered ring and an extended three-dimensional structure.

  2. Synthesis, crystal structure, catalytic and anti-Trypanosoma cruzi activity of a new chromium(III) complex containing bis(3,5-dimethylpyrazol-1-yl)methane

    Science.gov (United States)

    Hurtado, John; Ibarra, Laura; Yepes, David; García-Huertas, Paola; Macías, Mario A.; Triana-Chavez, Omar; Nagles, Edgar; Suescun, Leopoldo; Muñoz-Castro, Alvaro

    2017-10-01

    The reaction of CrCl36H2O with the ligand bis(3,5-dimethylpyrazol-1-yl)methane (L) yielded the cationic complex [(Cr(L)(H2O)2Cl2]+, which crystallized as the chloride trihydrate [(Cr(L)(H2O)2Cl2]Cl·3H2O. The chromium complex was characterized by elemental analysis, electrical conductivity, Infrared and Ultraviolet/Visible spectroscopy. The crystal structure determination using single-crystal X-ray diffraction showed a chromium center in a distorted octahedral coordination sphere. In the crystal, the packing was directed by Osbnd H⋯(O,Cl) hydrogen bonds and weak Csbnd H⋯O interactions to build a monoclinic P21/c supramolecular structure. The complex showed excellent properties as an initiator for the ring opening polymerization of є-caprolactone (CL) under solvent-free conditions. The obtained polymer showed high crystallinity (89.9%) and a decomposition temperature above 475 °C. In addition, the new complex was evaluated against epimastigotes from Trypanosoma cruzi (T. cruzi) strains. The results indicated that this complex has a high activity against this parasite with a minimum inhibitory concentration 50 (MIC50) of 1.08 μg/mL. Interestingly, this compound showed little effect on erythrocytes, indicating that it is not cytotoxic. These results provide interesting contributions to the design of metal complexes by using simple and accessible ligands with activity against T. cruzi and with potential applications in the polymerization of CL.

  3. Syntheses and crystal structures of rare earth (Nd, Gd) 1-D chain complexes with N-p-tolylsulfonyl-β-alanine

    Institute of Scientific and Technical Information of China (English)

    MA Lufang; LI Xiaodong; WANG Liya; LIANG Fupei; ZHANG Manbo; YU Kaibei

    2005-01-01

    Two rare earth complexes of Ts-β-AlaH with the formula of [Ln2(H2O)4(Ts-β-AlaH)6]n·4nH2O (where Ln =Nd(1), Gd(2); Ts-β-AlaH = N-p-tolylsulfonyl-β-Alanine) have been synthesized and characterized by elemental analysis, IR,and X-ray diffraction. The results show that the two complexes are isostructural. They crystallize in a monoclinic system with P21/n space group. Crystal data for 1: a = 0.95149(19) nm, b = 1.9012(4) nm, c = 2.2863(5) nm, β= 100.37(3)°, Z = 4,Dc = 1.509 mg/cm3, F(000) = 1880, R1 = 0.0560, wR2 = 0.1564 [Ⅰ> 2σ(Ⅰ)]; for 2: a = 0.9495(2) nm, b = 1.9037(4) nm, c =2.2987(5) nm, β= 99.87(3)°, Z = 4, Dc= 1.541 mg/cm3, F(000) = 1916, R1 = 0.0515, wR2= 0.1566 [Ⅰ>2σ (Ⅰ)]. The two complexes are one-dimensional chains and the coordination number of the Nd3+ or Gd 3+ ion is nine.

  4. Large structures at high resolution: the 1.6 A crystal structure of spinach ribulose-1,5-bisphosphate carboxylase/oxygenase complexed with 2-carboxyarabinitol bisphosphate.

    Science.gov (United States)

    Andersson, I

    1996-05-31

    Ribulose-1,5-bisphosphate carboxylase/oxygenase (rubisco) from spinach is a hexadecamer (L8S8, Mr = 550,000) consisting of eight large (L, 475 residues) and eight small subunits (S, 123 residues). High-resolution data collection on crystals with large unit cells is not a trivial task due to the effect of radiation damage and the large number of overlapping reflections when conventional data collection methods are used. In order to minimise these effects, data on rubisco were collected with a giant Weissenberg camera at long crystal to image-plate distances at the synchrotron of the Photon Factory, Japan. Relative to conventional data sets, this experimental arrangement allowed a 20 to 30-fold reduction of the X-ray dose/exposure time for data collection. This paper describes the refined 1.6 A crystal structure of activated rubisco complexed with a transition state analogue, 2-carboxyarabinitol-bisphosphate. The crystallographic asymmetric unit contains an L4S4 unit, representing half of the molecule. The structure presented here is currently the highest resolution structure for any protein of comparable size. Refinement of the model was carried out by restrained least squares techniques without non-crystallographic symmetry averaging. The results show that all L and S subunits have identical three-dimensional structures, and their arrangement within the hexadecamer has no intrinsic asymmetry. A detailed analysis of the high-resolution maps identified 30 differences in the sequence of the small subunit, indicating a larger than usual heterogeneity for this nuclear encoded protein in spinach. No such differences were found in the sequence of the chloroplast encoded large subunit. The transition state analogue is in the cis conformation at the active site suggesting a key role for the carbamate of Lys201 in catalysis. Analysis of the active site around the catalytically essential magnesium ion further indicates that residues in the second liganding sphere of the metal

  5. Crystal Structures of Aspergillus japonicus Fructosyltransferase Complex with Donor/Acceptor Substrates Reveal Complete Subsites in the Active Site for Catalysis*

    OpenAIRE

    Chuankhayan, Phimonphan; Hsieh, Chih-Yu; Huang, Yen-Chieh; Hsieh, Yi-You; Guan, Hong-Hsiang; Hsieh, Yin-Cheng; Tien, Yueh-Chu; Chen, Chung-De; Chiang, Chien-Min; Chen, Chun-Jung

    2010-01-01

    Fructosyltransferases catalyze the transfer of a fructose unit from one sucrose/fructan to another and are engaged in the production of fructooligosaccharide/fructan. The enzymes belong to the glycoside hydrolase family 32 (GH32) with a retaining catalytic mechanism. Here we describe the crystal structures of recombinant fructosyltransferase (AjFT) from Aspergillus japonicus CB05 and its mutant D191A complexes with various donor/acceptor substrates, including sucrose, 1-kestose, nystose, and ...

  6. The crystal structure of a replicative hexameric helicase DnaC and its complex with single-stranded DNA

    OpenAIRE

    Lo, Yu-Hua; Tsai, Kuang-Lei; Sun, Yuh-Ju; Chen, Wei-Ti; Huang, Cheng-Yang; Hsiao, Chwan-Deng

    2008-01-01

    DNA helicases are motor proteins that play essential roles in DNA replication, repair and recombination. In the replicative hexameric helicase, the fundamental reaction is the unwinding of duplex DNA; however, our understanding of this function remains vague due to insufficient structural information. Here, we report two crystal structures of the DnaB-family replicative helicase from Geobacillus kaustophilus HTA426 (GkDnaC) in the apo-form and bound to single-stranded DNA (ssDNA). The GkDnaC–...

  7. A new copper(II) Schiff base complex containing asymmetrical tetradentate N2O2 Schiff base ligand: Synthesis, characterization, crystal structure and DFT study

    Science.gov (United States)

    Grivani, Gholamhossein; Baghan, Sara Husseinzadeh; Vakili, Mohammad; Khalaji, Aliakbar Dehno; Tahmasebi, Vida; Eigner, Václav; Dušek, Michal

    2015-02-01

    A new copper (II) Schiff base complex, CuL1, was prepared from the reaction of asymmetrical Schiff base ligand of L1 and Cu(OAC)2 (L1 = salicylidene imino-ethylimino-pentan-2-one). The Schiff base ligand, L1, and its copper (II) complex, CuL1, have been characterized by elemental analysis (CHN) and FT-IR and UV-vis spectroscopy. In addition, 1H NMR was employed for characterization of the ligand. Thermogrametric analysis of the CuL1 reveals its thermal stability and its decomposition pattern shows that it is finally decomposed to the copper oxide (CuO). The crystal structure of CuL1 was determined by the single crystal X-ray analysis. The CuL1 complex crystallizes in the monoclinic system, with space group P21/n and distorted square planar coordination around the metal ion. The Schiff base ligand of L1 acts as a chelating ligand and coordinates via two nitrogen and two oxygen atoms to the copper (II) ion with C1 symmetry. The structure of the CuL1 complex was also studied theoretically at different levels of DFT and basis sets. According to calculated results the Csbnd O bond length of the salicylate fragment is slightly higher than that in the acetylacetonate fragment of ligand, which could be interpreted by resonance increasing between phenyl and chelated rings in ligand in relative to the acetylacetonate fragment.

  8. Synthesis,crystal structure and fluorescence property of 1-D europium complex with 2,3-difluorobenzoate

    Institute of Scientific and Technical Information of China (English)

    宋金浩; 吴小说; 李夏

    2009-01-01

    A new chain europium complex [Eu(2,3-DFBA)3·(H2O)2]n(2,3-DFBA=2,3-difluorobenzoate) was synthesized by solvent method.X-ray single-crystal diffraction analysis revealed that Eu3+ ions were linked through 2,3-DFBA groups via alternate bidentate-bridging and tridentate chelating-bridging coordination modes to form a one-dimensional(1-D) polymeric chain.Each Eu3+ ion is eight-coordinated by six O atoms of five 2,3-DFBA ligands and two water molecules.The abundant hydrogen bonds between chains resulted in a two...

  9. The Role of Coulomb Interactions for Spin Crossover Behaviors and Crystal Structural Transformation in Novel Anionic Fe(III Complexes from a π-Extended ONO Ligand

    Directory of Open Access Journals (Sweden)

    Suguru Murata

    2016-05-01

    Full Text Available To investigate the π-extension effect on an unusual negative-charged spin crossover (SCO FeIII complex with a weak N2O4 first coordination sphere, we designed and synthesized a series of anionic FeIII complexes from a π-extended naphthalene derivative ligand. Acetonitrile-solvate tetramethylammonium (TMA salt 1 exhibited an SCO conversion, while acetone-solvate TMA salt 2 was in a high-spin state. The crystal structural analysis for 2 revealed that two-leg ladder-like cation-anion arrays derived from π-stacking interactions between π-ligands of the FeIII complex anion and Coulomb interactions were found and the solvated acetone molecules were in one-dimensional channels between the cation-anion arrays. A desolvation-induced single-crystal-to-single-crystal transformation to desolvate compound 2’ may be driven by Coulomb energy gain. Furthermore, the structural comparison between quasi-polymorphic compounds 1 and 2 revealed that the synergy between Coulomb and π-stacking interactions induces a significant distortion of coordination structure of 2.

  10. Synthesis, Crystal Structure and Quantum Chemistry Calculation of a Bis(dafone) Di(dmf) Copper(Ⅱ) Complex

    Institute of Scientific and Technical Information of China (English)

    REN Yong-Gang; CHEN Zhi-Rong; LI Hao-Hong; ZHAO Bin; HUANG Chang-Cang; LI Jun-Qian

    2005-01-01

    The title compound [Cu(dafone)2(DMF)2](2ClO4 1 (dafone = 4,5-diazafluoren- 9-one, dmf = N,N(A)-dimethyl formamide) was synthesized by the reaction of Cu(ClO4 )2 and dafone in DMF solution at room temperature with pH = 3.0.The single-crystal X-ray analysis has revealed that 1 crystallizes in monoclinic, space group P21/n with a = 8.4853(8), b = 13.1520 (14), c = 14.3866(12) (A), β = 102.629(3)o, V = 1566.7(3) (A)3, C28H26Cl2CuN6O12, Mr = 773.00, Z = 2, Dc = 1.639 g/cm3 , F(000) = 790, μ = 0.942 mm-1, the final R = 0.0438 and wR = 0.1214 for 3165 obser- ved reflections with I > 2σ(I).X-ray analysis shows that compound 1 has unsymmetric chelation of dafone with one Cu-N bond being much longer than the other.Coordination geometry of Cu is a highly distorted octahedron and the whole structure is stabilized by π-π stacking and static attractive forces from [ClO4]- anions.Based on the crystal data, quantum chemistry calculation at the DFT/ B3LPY level was used to reveal the electronic structure of 1.

  11. Crystal Structures of the Iron–Sulfur Cluster-Dependent Quinolinate Synthase in Complex with Dihydroxyacetone Phosphate, Iminoaspartate Analogues, and Quinolinate

    Energy Technology Data Exchange (ETDEWEB)

    Fenwick, Michael K. [Cornell Univ., Ithaca, NY (United States); Ealick, Steven E. [Cornell Univ., Ithaca, NY (United States)

    2016-07-12

    The quinolinate synthase of prokaryotes and photosynthetic eukaryotes, NadA, contains a [4Fe-4S] cluster with unknown function. We report crystal structures of Pyrococcus horikoshii NadA in complex with dihydroxyacetone phosphate (DHAP), iminoaspartate analogues, and quinolinate. DHAP adopts a nearly planar conformation and chelates the [4Fe-4S] cluster via its keto and hydroxyl groups. The active site architecture suggests that the cluster acts as a Lewis acid in enediolate formation, like zinc in class II aldolases. The DHAP and putative iminoaspartate structures suggest a model for a condensed intermediate. The ensemble of structures suggests a two-state system, which may be exploited in early steps.

  12. Crystal structures of three mercury(II complexes [HgCl2L] where L is a bidentate chiral imine ligand

    Directory of Open Access Journals (Sweden)

    Guadalupe Hernández

    2015-12-01

    Full Text Available The crystal structures of three complexes [HgCl2L] were determined, namely, (S-(+-dichlorido[1-phenyl-N-(pyridin-2-ylmethylideneethylamine-κ2N,N′]mercury(II, [HgCl2(C14H14N2], (S-(+-dichlorido[1-(4-methylphenyl-N-(pyridin-2-ylmethylideneethylamine-κ2N,N′]mercury(II, [HgCl2(C15H16N2], and (1S,2S,3S,5R-(+-dichlorido[N-(pyridin-2-ylmethylideneisopinocampheylamine-κ2N,N′]mercury(II, [HgCl2(C16H22N2]. The complexes consist of a bidentate chiral imine ligand coordinating to HgCl2 and crystallize with four independent molecules in the first complex and two independent molecules in the other two. The coordination geometry of mercury is tetrahedral, with strong distortion towards a disphenoidal geometry, as a consequence of the imine bite angle being close to 70°. The Cl—Hg—Cl angles span a large range, 116.0 (2–138.3 (3°, which is related to the aggregation state in the crystals. For small Cl—Hg—Cl angles, complexes have a tendency to form dimers, via intermolecular Hg...Cl contacts. These contacts become less significant in the third complex, which features the largest intramolecular Cl—Hg—Cl angles.

  13. Hydrothermal Synthesis, Crystal Structure and Thermal Properties of a Novel Samarium Complex with 1D Nano-chain Structure

    Institute of Scientific and Technical Information of China (English)

    LI Ya-Juan; LIANG Qing; SONG Hui-hua; JIA Mi-ying; SHI Shi-Kao; ZHANG Jian-jun

    2009-01-01

    @@ 1 Introduction The design and construction of metal-organic polymers has been a field of rapid growth in materials chemistry because of their intriguing topologies and potential applications as functional materials[1-6]. In this regard, every effort has been devoted to the deli-berate design and control of self-assembly infinite coordination networks via selecting the chemistry structures of ligands. Multidentate carboxylate ligands are widely adopted for construction of coordination frameworks due to their rich coordination modes[7-13].

  14. Synthesis and Crystal Structure of a New Ternary Mixed Ligand Complex [Cu(ampym)(bapa)Cl](ClO4) (ampym = 2-Aminopyrimidine, bapa = Bi(3-aminopropyl)amine)

    Institute of Scientific and Technical Information of China (English)

    2006-01-01

    The title complex [Cu(ampym)(bapa)Cl](ClO4) (C10H22Cl2CuN6O4) was synthesized and characterized by elemental analysis, IR and X-ray single-crystal diffraction. The crystal crystalli- zes in the orthorhombic system, space group Pna21 with a = 11.9904(12), b = 15.9796(16), c = 8.9143(9)(A), V = 1708.0(3)(A)3, Mr = 424.78, Z = 4, F(000) = 876, Dc = 1.652 g/cm3, T = 293 K, μ = 1.619 mm-1 and λ = 0.71073(A). The structure was refined to R = 0.0240 and wR = 0.0564 for 2905 observed reflections with I > 2σ(I). Flack = 0.039(12).

  15. Synthesis, characterization, crystal structure and DNA-binding study of four cadmium(II) pyridine-carboxamide complexes

    Indian Academy of Sciences (India)

    BIPLAB MONDAL; BUDDHADEB SEN; SANDIPAN SARKAR; ENNIO ZANGRANDO; PABITRA CHATTOPADHYAY

    2017-01-01

    Treatment of perchlorate or nitrate salt of cadmium(II) with carboxamide derivatives (L) generated four novel mononuclear metal complexes, represented as [Cd(L)₄](ClO₄)₂ (1a and 1b) and [Cd(L)₂(ONO₂)₂] (2a and 2b) in appreciable yields (L = L¹ = N-(furan-2-ylmethyl)-2-pyridine carboxamide and L = L² = N-(thiophen-2-ylmethyl)-2-pyridine carboxamide). The complexes have been characterized by FT-IR, UVVisible, elemental analysis and single crystal X-ray crystallographic analysis which revealed eight coordinated cadmium ions, but in different coordination environments, depending on the counter anion used. In addition,electronic absorption, fluorescence spectroscopy and viscosity measurements revealed a significant interaction of the four complexes with CT-DNA via intercalative/groove binding mode. The intrinsic binding constant Kbobtained varies from 0.4 × 10⁴ to 1.11 × 10⁵ M⁻¹. The results suggest that neutral complexes 2a and 2b bind to DNA in an intercalative mode. On the other hand, cationic complexes 1a and 1b bind with DNA via weak electrostatic/covalent interaction.

  16. Synthesis of cadmium complexes of 4'-chloro-terpyridine: From discrete dimer to 1D chain polymer, crystal structure and antibacterial activity

    Indian Academy of Sciences (India)

    Lotfali Saghatforoush; Laura Valencia Matarranz; Firoozeh Chalabian; Shahriare Ghammamy; Fatemeh Katouzian

    2012-05-01

    Two new Cd(II) complexes with the ligand 4'-chloro-2,2':6',2"-terpyridine (Cltpy), [Cd(Cltpy)(N3)(CH3COO)], 1, and [Cd(Cltpy)(NCS)(CH3COO)], 2, have been synthesized and characterized by CHN elemental analyses, 1HNMR-, 13C NMR-, IR spectroscopy and structurally analysed by X-ray singlecrystal diffraction. The single crystal X-ray analyses show that the coordination number in these complexes is seven with three terpyridine (Cltpy) N-donor atoms, two acetate oxygens and two anionic bridged ligands. The crystal structure of 2 comprises a one-dimensional polymeric network bridged by NCS− anions. The antibacterial activities of Cltpy and its Cd(II) complexes are tested against different bacteria. Both complexes have shown good activity against all the tested bacteria. Against Klebsiella pneumonia and Staphylococcus aureus, antibacterial activity of complexes is higher than Cltpy ligand. The higher activity of complexes may be explained on the basis of chelation theory.

  17. Synthesis and Crystal Structure of a New cis-Dioxovanadium (V) Complex with Pyruvic Acid Isonicotinyl Hydrazone (PAINH)

    Institute of Scientific and Technical Information of China (English)

    CHEN Rui-Jin; ZHOU Yin-Zhuang; HU Dai-Di; TU Shu-Jie; XIAO Ling-Mei

    2006-01-01

    A new cis-dioxovanadium (V) complex [VO2(C9H8N3O3)](C5H5N) involving a carboxyl group coordination employing a tridentate Schiff Base derived from pyruvic acid and isonicotinyl hydrazide is reported. This complex crystallizes in triclinic, space group P(1-) with a = 7.3522 (12), b = 7.8376(13), c = 14.898(2)(A), α= 84.010(2),β= 86.568(2), γ = 64.586(2)°, V = 771.1(2)(A)3, Z = 2, F(000) = 376, Mr = 368.22, Dc = 1.586 g/cm3, μ = 0.677 mm-1, R = 0.0421 and wR = 0.1253. The vanadium atom of the dioxovanadium (V) is five-coordinated to furnish a distorted trigonal bipyramid geometry.

  18. Crystal structure of porcine mitochondrial NADP+-dependent isocitrate dehydrogenase complexed with Mn2+ and isocitrate. Insights into the enzyme mechanism.

    Science.gov (United States)

    Ceccarelli, Christopher; Grodsky, Neil B; Ariyaratne, Nandana; Colman, Roberta F; Bahnson, Brian J

    2002-11-08

    The crystal structure of porcine heart mitochondrial NADP+-dependent isocitrate dehydrogenase (IDH) complexed with Mn2+ and isocitrate was solved to a resolution of 1.85 A. The enzyme was expressed in Escherichia coli, purified as a fusion protein with maltose binding protein, and cleaved with thrombin to yield homogeneous enzyme. The structure was determined by multiwavelength anomalous diffraction phasing using selenium substitution in the form of selenomethionine as the anomalous scatterer. The porcine NADP+-IDH enzyme is structurally compared with the previously solved structures of IDH from E. coli and Bacillus subtilis that share 16 and 17% identity, respectively, with the mammalian enzyme. The porcine enzyme has a protein fold similar to the bacterial IDH structures with each monomer folding into two domains. However, considerable differences exist between the bacterial and mammalian forms of IDH in regions connecting core secondary structure. Based on the alignment of sequence and structure among the porcine, E. coli, and B. subtilis IDH, a putative phosphorylation site has been identified for the mammalian enzyme. The active site, including the bound Mn2+-isocitrate complex, is highly ordered and, therefore, mechanistically informative. The consensus IDH mechanism predicts that the Mn2+-bound hydroxyl of isocitrate is deprotonated prior to its NADP+-dependent oxidation. The present crystal structure has an active site water that is well positioned to accept the proton and ultimately transfer the proton to solvent through an additional bound water.

  19. Synthesis and Crystal Structure of Ca(Ⅰ) Complex with One-Dimensional Chain Structure%一维链状铜配合物的合成及结构表征

    Institute of Scientific and Technical Information of China (English)

    徐海军; 李冬平; 李国清

    2009-01-01

    The Copper (Ⅰ) complex [Cu(tpy)(CN)]n [L=4'-(4-cyanophenyl)-2,2' :6',2"-terpyridine] has been synthe-sized by reaction of ligand L with CuCN using solvothermal method and characterized by IR, elemental analysis and X-ray diffraction single-crystal structure analysis. The crystal structure indicates that the complex crystallizes in monoclinic system, space group P21/c with a=0.884 45(18) nm, b=0.819 55(16) nm, c=2.702 90(7) nm, β=102.780 complex has a slightly distorted tetrahedron coordination geometry. Each Cu+ is coordinated with two nitrogen atoms from two pyridine ring of 4'-(4-cyanophenyl)-2,2' :6' ,2"-terpyridine, and then linked by two CN- ligands with neighbor Cu+ forming a zigzag infinite one-dimensional chain structure. CCDC: 686952.

  20. Nickel(II) complexes containing ONS donor ligands: Synthesis, characterization, crystal structure and catalytic application towards C-C cross-coupling reactions

    Indian Academy of Sciences (India)

    Panneerselvam Anitha; Rajendran Manikandan; Paranthaman Vijayan; Govindan Prakash; Periasamy Viswanathamurthi; Ray Jay Butcher

    2015-04-01

    Nickel(II) complexes containing thiosemicarbazone ligands [Ni(L)2] (1-3) (L = 9,10-phenanthrenequinonethiosemicarbazone (HL1), 9,10-phenanthrenequinone-N-methylthio semicarbazone (HL2) and 9, 10-phenanthrenequinone-N-phenylthiosemicarbazone (HL3)) have been synthesized and characterized by elemental analysis and spectroscopic (IR, UV-Vis, 1H, 13C-NMR and ESI mass) methods. The molecular structures of complexes 1 and 2 were identified by means of single-crystal X-ray diffraction analysis. The analysis revealed that the complexes possess a distorted octahedral geometry with the ligand coordinating in a uni-negative tridentate ONS fashion. The catalytic activity of complexes towards some C–C coupling reactions (viz., Kumada-Corriu, Suzuki-Miyaura and Sonogashira) has been examined. The complexes behave as efficient catalysts in the Kumada-Corriu and Sonogashira coupling reactions rather than Suzuki-Miyaura coupling.

  1. Synthesis, crystal structure and cytotoxic activity of ruthenium(II) piano-stool complex with N,N-chelating ligand

    Science.gov (United States)

    Rogala, Patrycja; Jabłońska-Wawrzycka, Agnieszka; Kazimierczuk, Katarzyna; Borek, Agnieszka; Błażejczyk, Agnieszka; Wietrzyk, Joanna; Barszcz, Barbara

    2016-12-01

    A mononuclear compound of the general formula [(η6-p-cymene)RuIICl(2,2‧-PyBIm)]PF6 has been synthesized from a bidentate N,N-donor ligand, viz. 2,-(2‧-pyridyl)benzimidazole (2,2‧-PyBIm) and the corresponding chloro-complex [(η6-p-cymene)Ru(μ-Cl)Cl]2 (precursor). The isolated coordination compound was characterized by IR, UV-vis and 1H, 13C NMR spectroscopies. The single crystal X-ray analysis of the complex reveals that the asymmetric part of the unit cell consists of two symmetrically independent, [(η6-p-cymene)RuCl(2,2‧-PyBIm)]+ cationic complexes. Each cation exhibits a pseudo-octahedral three-legged piano-stool geometry, in which three "legs" are occupied by one chloride ion and two nitrogen donor atoms of the chelating ligand 2,2‧-PyBIm. The Hirshfeld surface analysis of obtained complex was determined, too. The ionic nature of the compound is identified by a strong band at around 830 cm-1 due to the νP-F stretching mode of the PF6- counter ion. The electronic spectrum of this monomeric complex displays high intensity bands in the ultraviolet region assignable to π→π*/n→π* transitions, as well as a band attributable to the metal-to-ligand charge transfer (MLCT) dπ(Ru)→π*(L) transition. Additionally, the complex has been screened for its cytotoxicity against three human cancer lines: non-small cell lung carcinoma (A549), colon adenocarcinoma (HT29) and breast adenocarcinoma (MCF-7) as well as normal mice fibroblast cells (BALB/3T3). The complex demonstrated a moderate antiproliferative activity against the cell lines tested.

  2. Synthesis, crystal structures and antitumor activities of copper(II) complexes with a 2-acetylpyrazine isonicotinoyl hydrazone ligand

    Science.gov (United States)

    Xu, Jun; Zhou, Tao; Xu, Zhou-Qing; Gu, Xin-Nan; Wu, Wei-Na; Chen, Hong; Wang, Yuan; Jia, Lei; Zhu, Tao-Feng; Chen, Ru-Hua

    2017-01-01

    Five complexes, [Cu(L)2]·4.5H2O (1), [Cu(HL)2](NO3)2·CH3OH (2) {[Cu2(L)2(NO3)(H2O)2]·(NO3)}n (3), [Cu2(HL)2(SO4)2]·2CH3OH (4) and [Cu4(L)4Cl4]·5H2O (5) based on HL (where HL = 2-acetylpyrazine isonicotinoyl hydrazone) have been synthesized and characterized by X-ray diffraction analyses. The counter anion and organic base during the synthesis procedure influence the structures of the complexes efficiently, which generate five complexes as mono-, bi-, tetra-nuclear and one-dimensional structures. The antitumor activities of the complexes 1-5 (except for complex 3 with the poor solubility) against the Patu8988 human pancreatic cancer, ECA109 human esophagus cancer and SGC7901 human gastric cancer cell lines are screened by MTT assay. The results indicate that the chelation of Cu(II) with the ligand is responsible for the observed high cytotoxicity of the copper(II) complexes and the 1:2 copper species 1 and 2 demonstrate lower antitumor activities than that of the 1:1 copper species 4 and 5. In addition, the in vitro apoptosis inducing activity of the copper(II) complex 5 against SGC7901 cell line is determined. And the results show that the complex can bring about apoptosis of the cancerous cells in vitro.

  3. Goos-Haenchen shift in complex crystals

    Energy Technology Data Exchange (ETDEWEB)

    Longhi, Stefano; Della Valle, Giuseppe; Staliunas, Kestutis [Dipartimento di Fisica, Politecnico di Milano, Piazza Leonardo da Vinci 32, I-20133 Milano (Italy); Departament de Fisica i Enginyeria Nuclear, Instituci Catalana de Recerca i Estudis Avanats (ICREA), Universitat Politcnica de Catalunya, Colom 11, E-08222 Terrassa, Barcelona (Spain)

    2011-10-15

    The Goos-Haenchen (GH) effect for wave scattering from complex PT-symmetric periodic potentials (complex crystals) is theoretically investigated, with specific reference to optical GH shift in photonic crystal slabs with a sinusoidal periodic modulation of both real and imaginary parts of the dielectric constant. The analysis highlights some distinct and rather unique features as compared to the GH shift found in ordinary crystals. In particular, as opposed to GH shift in ordinary crystals, which is large at the band gap edges, in complex crystals the GH shift can be large inside the reflection (amplification) band and becomes extremely large as the PT symmetry-breaking threshold is approached.

  4. Crystal structures at 2.5 Angstrom resolution of seryl-tRNA synthetase complexed with two analogs of seryl adenylate

    DEFF Research Database (Denmark)

    Belrhali, H.; Yaremchuk, A.; Tukalo, M.;

    1994-01-01

    Crystal structures of seryl-tRNA synthetase from Thermus thermophilus complexed with two different analogs of seryl adenylate have been determined at 2.5 Angstrom resolution. The first complex is between the enzyme and seryl-hydroxamate-AMP (adenosine monophosphate), produced enzymatically...... in a deep hydrophilic cleft formed by the antiparallel beta sheet and surrounding loops of the synthetase catalytic domain. Four regions in the primary sequence are involved in the interactions, including the motif 2 and 3 regions of class 2 synthetases. Apart from the specific recognition of the serine...

  5. Synthesis and Crystal Structure of the Copper(Ⅱ) Complex with Tris- (1,10-phenanthroline-5,6-dione)

    Institute of Scientific and Technical Information of China (English)

    刘河; 杜淼; 冷雪冰; 卜显和; 张若桦

    2000-01-01

    The title complex [ CuL3 ] (C1O4)2 · 2H2O· 2CH3CN (L = 1, 10-phenanthroline-5, 6-dione) has been synthesized and characterized by elemental analysis, conductivity, infrared and UV-Vis spectra. X-ray diffraction analysis at room temperature indicates that the complex (C40H28Cl2 CuNsO16, Mr = 1011.14) crystallizes in orthorhombic system, space group P21 21 21 with a = 13. 983(1), b = 14. 310 (1), c =20.890(2) (A。), V = 4179.7(6) (A。)3, Z = 4, Dc= 1.607g/cm3, F(000) = 2026,μ(MoKa) = 0.736 mm-1. The final R and w,R factors are 0.0446 and 0. 1212 respectively with 8545 independent reflections. The title complex is composed of a discrete [CuL3 ]2+ cation, uncoordinated ClO4- anions, H2O and CH3CN molecules. The central Cu(Ⅱ) atom is six-coordinated by six nitrogen donors of three ligands. The coordination geometry of Cu(Ⅱ) could be considered as an approximately ideal octahedral configuration with little static Jahn-Teller distortion (the longest and shortest Cu- N bonds are 2. 102 vs 2. 139 (A。) with the mean length of 2. 122 (A。) ), which is very rare for a six-coordinated Cu(Ⅱ) complex.

  6. Synthesis, Crystal Structure and Luminescent Properties of a Novel Zinc(Ⅱ) Complex of N-Acetyl-L-glutamic Acid and Imidazole Ligands

    Institute of Scientific and Technical Information of China (English)

    CHENG Meng-Qi; MA Lu-Fang; WANG Li-Ya; WANG Jian-Ge

    2006-01-01

    A novel complex (Zn(Im)2(A-glu)·0.5H2O (Im = imidazole, A-glu = N-acetyl- L-glutamic acid) has been synthesized from the reaction of A-glu with Zn(CH3COO)2(2H2O in the presence of Im at 65 ℃, and structurally characterized by single-crystal X-ray diffraction. The complex crystallizes in tetragonal, space group P43212 with a = b = 8.9078(6), c = 43.458(6) (A), C26H36N10O11Zn2, Mr = 795.39, V = 3448.3(6) (A)3, Dc = 1.532 g/cm3, Z = 4, μ(MoK() = 1.461 mm(1, F(000) = 1640, the final R = 0.0453 and wR = 0.0992. X-ray analysis reveals that the crystal structure is constructed by mixed ligands. A-glu adopts the bis-monodentate coordination mode linking two adjacent metal ions to form a one-dimensional chain. Zinc(Ⅱ) ions are four-coordinated with a distorted tetrahedral geometry. Luminescent properties of the complex have been inves- tigated.

  7. Hydrothermal Synthesis,Crystal Structure and Thermal Stability of a Supramolecular Lead(II) Complex with 4-Nitrobenzoic Acid and 1,10-Phenanthroline

    Institute of Scientific and Technical Information of China (English)

    徐相君; 吴向阳; 徐婉珍; 周威; 闫永胜

    2012-01-01

    A new complex [Pb(phen)2(4-NBA)]2·2(NO3)·H2O(phen = 1,10-phenanthroline,4-NBA = 4-nitrobenzoate) has been hydrothermally synthesized and structurally determined by single-crystal X-ray diffraction,elemental analyses and IR spectroscopy.The complex crystallizes in monoclinic,space group P21/c with a = 13.416(3),b = 14.065(3),c = 16.845(3)(A°) ,β = 110.55(3)o,V = 2976.5(10)(A°)^3,Z = 2,Dc = 1.796 g/cm^3,F(000) = 1564,GOOF = 0.962,the final R = 0.0686 and wR = 0.1746.The crystal structure shows that the lead ion is coordinated with two carboxylate O atoms from the 4-NBA anion,and four N atoms from two phen molecules,forming a slightly distorted pentagonalbipyramidal coordination geometry.It is further extended by various supramo-lecular interactions to form a three-dimensional supramolecular network.The TG analysis result shows that this complex begins decomposing at 30 ℃ and decompounding completely at 733 ℃.

  8. Synthesis, crystal structure and magnetic properties of the binuclear copper (Ⅱ) complex of a new bis ( 1,4, 7, 10-tetraazacy-clododecane) ligand

    Institute of Scientific and Technical Information of China (English)

    XU, Qiang(徐强); DU, Miao(杜淼); ZHANG, Ruo-Hua(张若桦); SHEN, Hao-Yu(沈昊宇); BU, Xian-He(卜显和); BU, Wei-Ming(卜卫名)

    2000-01-01

    A new binucleating macrocyclic ligand 2,6-bis(1,4,7, 10-te-traazacyclododecan-10-ylmethyl)methoxy-benzene (L) and its binuclearcopper(Ⅱ) complex, [Cu2LBr2] (ClO4)2 · 3H2O (1), was prepared and the structure was determined by Xray crystallography. Complex 1 crystallizes in monoclinic crystal system, P21/n space group with a = 0.8206(3), b =2.0892(8), c=2.3053(7) nm, β=95.83(2)°, V=3.932nm3, Mr=1017.57, Z=4, Dc=1.692g/cm3, and R=0.0489, Rw=0.0552 for 6571 observed reflections with I≥2σ(Ⅰ). Both of the copper(Ⅱ) centers are coordinated by four amine nitrogen donors of cyclen subunits and a bromide anion, and each copper(H) ion is in a square-pyramidal coordination environment. Variable temperature magnetic susceptibility studies indicate that there exists weak intramolecular antiferro- magnetic coupling ( - 2J= 2.06 cm-1) between the two copper(Ⅱ) centers.Keyword Binuclear copper(Ⅱ) complex, crystal structure,antiferro-magnetic coupling, binucleating macrocyclic ligand

  9. Novel Isatin-Schiff Base Cu (H) and Ni(H) Complexes. X-ray Crystal Structure of Bis[3-(4-hexylphenylimino)-1H-indol-2(3H)-one]-dichlorocopper(H) Complex

    Institute of Scientific and Technical Information of China (English)

    Ayse ERCAG; Sema Oztürk YILDIRIM; Mehmet AKKURT; Mahmure Ustün OZGUR; Frank W. HEINEMANN

    2006-01-01

    Schiff base ligand (HL) derived from 4-hexylaniline with isatin (1H-indole-2,3-dione)and its complexes with Cu(Ⅱ), Ni(Ⅱ) were prepared and characterized by analytical, spectroscopic (IR, UV-Vis, Mass) techniques, electrical conductivity, magnetic and thermal measurements. The crystal and molecular structure of [Cu(HL)2Cl2] was determined by a single-crystal X-ray diffraction study. The molecular structure of the title compound has an inversion center on the Cu atom.

  10. Photonic band gap of 2D complex lattice photonic crystal

    Institute of Scientific and Technical Information of China (English)

    GUAN Chun-ying; YUAN Li-bo

    2009-01-01

    It is of great significance to present a photonic crystal lattice structure with a wide photonic bandgap. A two-dimension complex lattice photonic crystal is proposed. The photonic crystal is composed of complex lattices with triangular structure, and each single cell is surrounded by six scatterers in an hexagon. The photonic band gaps are calculated based on the plane wave expansion (PWE) method. The results indicate that the photonic crystal has tunable large TM polarization band gap, and a gap-midgap ratio of up to 45.6%.

  11. SYNTHESIS, CRYSTAL AND MOLECULAR-STRUCTURES, UV-VIS SPECTROSCOPY AND ELECTROCHEMICAL PROPERTIES OF 2 IRON(III) PHENOLATE COMPLEXES

    NARCIS (Netherlands)

    LUBBEN, M; MEETSMA, A; VANBOLHUIS, F; FERINGA, BL; HAGE, R

    1994-01-01

    The synthesis and molecular structures of two iron(III) phenolate complexes [(L(1))FeCl] (1) and [(L(2))(2)Fe][BPh(4)] (2) are described, where L(1)H(2) is 2,3-dimethyl-2,3-bis(3-tert-butylsalicylideneamino) butane and L(2)H is 2-(2-pyridyl)-1-salicylideneaminoethane. The complexes have been charact

  12. Frustrated polymer crystal structures

    Science.gov (United States)

    Lotz, B.; Strasbourg, 67083

    1997-03-01

    Several crystal structures or polymorphs of chiral or achiral polymers and biopolymers with three fold conformation of the helix have been found to conform to a common and -with one exception(Puterman, M. et al, J. Pol. Sci., Pol. Phys. Ed., 15, 805 (1977))- hitherto unsuspected packing scheme. The trigonal unit-cell contains three isochiral helices; the azimuthal setting of one helix differs significantly from that of the other two, leading to a so-called frustrated packing scheme, in which the environment of conformationally identical helices differs. Two variants of the frustrated scheme are analyzed. Similarities with frustrated two dimensional magnetic systems are underlined. Various examples of frustration in polymer crystallography are illustrated via the elucidation or reinterpretation of crystal phases or polymorphs of polyolefins, polyesters, cellulose derivatives and polypeptides. Structural manifestations (including AFM evidence) and morphological consequences of frustration are presented, which help diagnose the existence of this original packing of polymers.(Work done with L. Cartier, D. Dorset, S. Kopp, T. Okihara, M. Schumacher, W. Stocker.)

  13. Synthesis, crystal structure, spectroscopic investigations and DFT calculations of the copper(II) complex of 4-(Trifluoromethyl)pyridine-2-carboxylic acid

    Science.gov (United States)

    Vural, Hatice; Orbay, Metin

    2017-10-01

    A novel polymeric complex of Cu(II) ion, [Cu(tfpc)2]n [tfpc: 4-(Trifluoromethyl)pyridine-2-carboxylate] has been prepared and characterized spectroscopically (by FT-IR) and structurally (by single-crystal XRD). The geometry around the Cu(II) center can be described as square planar made by tfpc ligand having nitrogen and oxygen atoms. Additionally, the Cu(II) complex has a one-dimensional double-bridged polymeric structure in which Cu(II) ions are bridged by two oxygen atoms of adjacent planes. The crystal packing has been stabilized by Csbnd H⋯O intra and intermolecular hydrogen bonds. The molecular structure of the Cu(II) complex has been optimized using the Density Functional Theory (DFT) B3LYP, B3PW91 and PBEPBE levels with 6-311+G(d,p) basis set. The calculated electronic spectra have been explained using the time dependent DFT (TD-DFT) method by applying the polarized continuum model (PCM). The vibrational spectral data have been calculated and compared with experimental ones. The non-linear optical (NLO) properties of the title compound have been investigated using the DFT method with three different levels. Natural Bond Orbital (NBO) property of the Cu(II) complex has been performed by the B3LYP density functional and the 6-311+G(d,p) basis set.

  14. Preparation of platinum(IV) complexes with dipeptide and diimine. X-ray crystal structure and 195Pt NMR spectra.

    Science.gov (United States)

    Watabe, Masatoshi; Fukuda, Hiroto; Kitsukawa, Koichiro; Nakajima, Hiroshi; Yukawa, Yasuhiko; Igarashi, Satoshi; Fujii, Yuki; Takayama, Toshio

    2006-10-01

    We prepared platinum(IV) complexes containing dipeptide and diimine or diamine, the [PtCl(dipeptide-N,N,O)(diimine or diamine)]Cl complex, where -N,N,O means dipeptide coordinated as a tridentate chelate, dipeptide=glycylglycine (NH(2)CH(2)CON(-)CH(2)COO(-), digly, where two protons of dipeptide are detached when the dipeptide coordinates to metal ion as a tridentate chelate), glycyl-L-alanine (NH(2)CH(2)CON(-)CHCH(3)COO(-), gly-L-ala), L-alanylglycine (NH(2)CH CH(3)CON(-)CH(2)COO(-), L-alagly), or L-alanyl-L-alanine (NH(2)CHCH(3)CON(-)CHCH(3)COO(-), dil-ala), and diimine or diamine=bipyridine (bpy), ethylenediamine (en), N-methylethylenediamine (N-Me-en), or N,N'-dimethylethylenediamine (N,N'-diMe-en). In the complexes containing gly-L-ala or dil-ala, two separate peaks of the (195)Pt NMR spectra of the [PtCl(dipeptide-N,N,O)(diimine or diamine)]Cl complexes appeared in, but in the complexes containing digly or L-alagly, one peak which contained two overlapped signals appeared. One of the two complexes containing gly-L-ala and bpy, [PtCl(gly-L-ala-N,N,O)(bpy)]NO(3), crystallized and was analyzed. This complex has the monoclinic space group P2(1)2(1)2(1) with unit cell dimensions of a=9.7906(3)A, b=11.1847(2)A, c=16.6796(2)A, Z=4. The crystal data revealed that this [PtCl(gly-L-ala-N,N,O)(bpy)]NO(3) complex has the near- (Cl, CH(3)) configuration of two possible isomers. Based on elemental analysis, the other complex must have the near- (Cl, CH(3))-[PtCl(gly-L-ala-N,N,O)(bpy)]NO(3) configuration. The (195)Pt NMR chemical shifts of the near- (Cl, CH(3))-[PtCl(gly-L-ala-N,N,O)(bpy)]NO(3) complex and the far- (Cl, CH(3))-[PtCl(gly-L-ala-N,N,O)(bpy)]NO(3) complex are 0 ppm and -19 ppm, respectively (0 ppm for the Na(2)[PtCl(6)] signal). The additive property of the (195)Pt NMR chemical shift is discussed. The (195)Pt NMR chemical shifts of [PtCl(dipeptide-N,N,O)(bpy)]Cl appeared at a higher field when the H attached to the dipeptide carbon atom was replaced with a

  15. Modelling the metal atom positions of the Photosystem II water oxidising complex: a density functional theory appraisal of the 1.9 Å resolution crystal structure.

    Science.gov (United States)

    Petrie, Simon; Gatt, Phillip; Stranger, Rob; Pace, Ron J

    2012-08-28

    Density functional theory (DFT) calculations are reported for a set of model compounds intended to represent the structure of the Photosystem II (PSII) water oxidising complex (WOC) as determined by the recent 1.9 Å resolution single crystal X-ray diffraction (XRD) study of Umena et al. In contrast with several other theoretical studies addressing this structure, we find that it is not necessary to invoke photoreduction of the crystalline sample below the S(1)'resting state' in order to rationalise the observed WOC geometry. Our results are consistent with crystallised PSII in the S(1) state, with S(1) corresponding to either (Mn(III))(4) or (Mn(III))(2)(Mn(IV))(2) as required by the two competing paradigms for the WOC oxidation state pattern. Of these two paradigms, the 'low-oxidation-state' paradigm provides a better match for the crystal structure, with the comparatively long Mn(2)-Mn(3) distance in particular proving difficult to reconcile with the 'high-oxidation-state' model. Best agreement with the set of metal-metal distances is obtained with a S(1) model featuring μ-O, μ-OH bridging between Mn(3) and Mn(4) and deprotonation of one water ligand on Mn(4). Theoretical modelling of the 1.9 Å structure is an important step in assessing the validity of this recent crystal structure, with implications for our understanding of the mechanism of water oxidation by PSII.

  16. Crystal structures of a therapeutic single chain antibody in complex with two drugs of abuse-Methamphetamine and 3,4-methylenedioxymethamphetamine.

    Science.gov (United States)

    Celikel, Reha; Peterson, Eric C; Owens, S Michael; Varughese, Kottayil I

    2009-11-01

    Methamphetamine (METH) is a major drug threat in the United States and worldwide. Monoclonal antibody (mAb) therapy for treating METH abuse is showing exciting promise and the understanding of how mAb structure relates to function will be essential for future development of these important therapies. We have determined crystal structures of a high affinity anti-(+)-METH therapeutic single chain antibody fragment (scFv6H4, K(D)= 10 nM) derived from one of our candidate mAb in complex with METH and the (+) stereoisomer of another abused drug, 3,4-methylenedioxymethamphetamine (MDMA), known by the street name "ecstasy." The crystal structures revealed that scFv6H4 binds to METH and MDMA in a deep pocket that almost completely encases the drugs mostly through aromatic interactions. In addition, the cationic nitrogen of METH and MDMA forms a salt bridge with the carboxylate group of a glutamic acid residue and a hydrogen bond with a histidine side chain. Interestingly, there are two water molecules in the binding pocket and one of them is positioned for a C--H...O interaction with the aromatic ring of METH. These first crystal structures of a high affinity therapeutic antibody fragment against METH and MDMA (resolution = 1.9 A, and 2.4 A, respectively) provide a structural basis for designing the next generation of higher affinity antibodies and also for carrying out rational humanization.

  17. Crystal Structure of Mouse Thymidylate Synthase in Tertiary Complex with dUMP and Raltitrexed Reveals N-Terminus Architecture and Two Different Active Site Conformations

    Directory of Open Access Journals (Sweden)

    Anna Dowierciał

    2014-01-01

    Full Text Available The crystal structure of mouse thymidylate synthase (mTS in complex with substrate dUMP and antifolate inhibitor Raltitrexed is reported. The structure reveals, for the first time in the group of mammalian TS structures, a well-ordered segment of 13 N-terminal amino acids, whose ordered conformation is stabilized due to specific crystal packing. The structure consists of two homodimers, differing in conformation, one being more closed (dimer AB and thus supporting tighter binding of ligands, and the other being more open (dimer CD and thus allowing weaker binding of ligands. This difference indicates an asymmetrical effect of the binding of Raltitrexed to two independent mTS molecules. Conformational changes leading to a ligand-induced closing of the active site cleft are observed by comparing the crystal structures of mTS in three different states along the catalytic pathway: ligand-free, dUMP-bound, and dUMP- and Raltitrexed-bound. Possible interaction routes between hydrophobic residues of the mTS protein N-terminal segment and the active site are also discussed.

  18. Crystal structure of mouse thymidylate synthase in tertiary complex with dUMP and raltitrexed reveals N-terminus architecture and two different active site conformations.

    Science.gov (United States)

    Dowierciał, Anna; Wilk, Piotr; Rypniewski, Wojciech; Rode, Wojciech; Jarmuła, Adam

    2014-01-01

    The crystal structure of mouse thymidylate synthase (mTS) in complex with substrate dUMP and antifolate inhibitor Raltitrexed is reported. The structure reveals, for the first time in the group of mammalian TS structures, a well-ordered segment of 13 N-terminal amino acids, whose ordered conformation is stabilized due to specific crystal packing. The structure consists of two homodimers, differing in conformation, one being more closed (dimer AB) and thus supporting tighter binding of ligands, and the other being more open (dimer CD) and thus allowing weaker binding of ligands. This difference indicates an asymmetrical effect of the binding of Raltitrexed to two independent mTS molecules. Conformational changes leading to a ligand-induced closing of the active site cleft are observed by comparing the crystal structures of mTS in three different states along the catalytic pathway: ligand-free, dUMP-bound, and dUMP- and Raltitrexed-bound. Possible interaction routes between hydrophobic residues of the mTS protein N-terminal segment and the active site are also discussed.

  19. Synthesis, crystal and solution structures and antimicrobial screening of palladium(II) complexes with 2-(phenylselanylmethyl)oxolane and 2-(phenylselanylmethyl)oxane as ligands.

    Science.gov (United States)

    Bugarčić, Zorica M; Divac, Vera M; Kostić, Marina D; Janković, Nenad Ž; Heinemann, Frank W; Radulović, Niko S; Stojanović-Radić, Zorica Z

    2015-02-01

    Two novel Pd(II) complexes with 2-(phenylselanylmethyl)oxolane and 2-(phenylselanylmethyl)oxane as ligands were synthesized. The crystal and molecular structure of the complexes has been determined by single crystal X-ray diffraction. It turned out for both complexes that the two ligands are coordinated to Pd via Se atoms in a trans-fashion and the other two trans-positions are occupied by Cl ions. Detailed 1D- and 2D-NMR analyses revealed the existence of equilibrating trans-diastereomeric species differing in the configuration at four chiral centers (selenium and carbon) in the solution of the complexes. A computational study was also undertaken to assess the relative stabilities of the mentioned stereoisomeric species. The antimicrobial properties of the complexes were investigated against a series of human pathogenic bacterial and fungal strains. The complexes were shown to possess promising broad spectrum moderate antimicrobial activity that is more pronounced against fungal organisms. The noted activity could be completely attributed to the Pd(II) center, whereas the ligands probably mediate the transportation of a Pd(II) species across cell membranes.

  20. Crystal-chemical and physicochemical properties of complex cadmium oxides with pyrochlore and columbite type of structure

    Energy Technology Data Exchange (ETDEWEB)

    Samigullina, R.F., E-mail: rina@ihim.uran.ru [Russian Academy of Sciences, Ural Branch, Institute of Solid State Chemistry, Ekaterinburg 620990 (Russian Federation); Krasnenko, T.I.; Rotermel, M.V.; Tyutyunnik, A.P. [Russian Academy of Sciences, Ural Branch, Institute of Solid State Chemistry, Ekaterinburg 620990 (Russian Federation); Titova, S.G.; Fedorova, O.M. [Russian Academy of Sciences, Ural Branch, Institute of Metallurgy, Ekaterinburg 620016 (Russian Federation)

    2015-11-15

    Single-phase samples of cadmium pyroniobate and metaniobate were successfully prepared by solid-state synthesis. The crystal structures of cadmium niobates were refined by full-profile fitting of X-ray powder diffraction patterns. The thermal behavior of cadmium niobates in air was studied by thermogravimetric (TG), differential thermal analysis (DTA) and X-ray powder diffraction at elevated temperatures. Found that CdNb{sub 2}O{sub 6} is stable in air up to 1150 °C, Cd{sub 2}Nb{sub 2}O{sub 7} – up to 1120 °C. Above these temperatures these niobates undergoes a solid state decay with volatilization of cadmium oxide, resulting in formation of metaniobate CdNb{sub 2}O{sub 6} from Cd{sub 2}Nb{sub 2}O{sub 7}, and niobium oxide Nb{sub 2}O{sub 5} from CdNb{sub 2}O{sub 6}. - Highlights: • The crystal structures of cadmium niobates were refined. • Linear thermal expansion coefficients of cadmium niobates Cd{sub 2}Nb{sub 2}O{sub 7} and CdNb{sub 2}O{sub 6} were determined. • The limits of thermal stability of both oxides in the air were found.

  1. A Hirshfeld surface analysis, crystal structure and spectroscopic properties of new Zn(II) complex with N-aminoethylpiperazine ligand

    Science.gov (United States)

    El Glaoui, Maroua; El Glaoui, Maher; Jelsch, Christian; Aubert, Emmanuel; Lefebvre, Frédéric; Ben Nasr, Chérif

    2017-04-01

    A new organic-inorganic hybrid material, 1-amonioethylpiperazine-1, 4-diium tetrachloridozincate(II) chloride, (C6H18N3)[ZnCl4]Cl, has been synthesized and characterized by various physicochemical techniques including UV-visible absorption, Infra-Red (IR), Raman and NMR spectroscopies. The compound crystallizes in the monoclinic system and P21 space group with Z = 2 and the following unit cell dimensions: a = 7.1728 (6), b = 12.4160 (11), c = 8.0278 (7) Å, β = 97.513 (1)°, V = 708.80 (11) Å3. In this structure, the Zn2+ ion, surrounded by four chlorides, adopts a distorted tetrahedral coordination geometry. The structure of this compound consists of monomeric 1-amonioethylpiperazine-1, 4-diium trications and monomeric [ZnCl4]2- and Cl- anions. These entities are interconnected by means of hydrogen bonding contacts [Nsbnd H⋯Cl, Csbnd H⋯Cl], forming a three-dimensional network. Intermolecular interactions were investigated by Hirshfeld surfaces. More than three quarters of the interaction surface in the crystal packing is constituted by attractive and favored H⋯Cl hydrogen bonds. The 13C and 15N CP-MAS NMR spectra are discussed and the vibrational absorption bands were identified by infrared and Raman spectroscopy.

  2. On the complex structure of the optical spectra of a tetragonal calomel single crystal in a wide energy range

    Energy Technology Data Exchange (ETDEWEB)

    Sobolev, V. V., E-mail: sobolev@uni.udm.ru [Udmurt State University (Russian Federation); Sobolev, V. Val. [Izhevsk State Technical University (Russian Federation); Anisimov, D. V. [Udmurt State University (Russian Federation)

    2016-01-15

    The spectral complex of optical functions of the calomel Hg{sub 2}Cl{sub 2} single crystal is determined in the range 0–20 eV at 300 K in unpolarized light. The spectra of the imaginary part of the permittivity ε{sub 2}(E), the bulk–Imε{sup –1} and the surface–Im(1 + ε){sup –1} electron energy losses are decomposed into elementary bands. Their main parameters, including energies and oscillator strengths of the transition bands are determined. Calculations are performed on the basis of the experimental reflectance spectrum of the crystal cleavage. Computer programs based on Kramers–Kronig relations, analytical formulas, and the advanced parameterfree method of combined Argand diagrams are used. The main features of the spectral set of optical functions and the parameters of expansion band components ε{sub 2}(E),–Imε{sup –1}, and–Im(1 + ε){sup –1} are determined.

  3. Synthesis, Crystal Structure and Luminescent Property of a Novel Pt(II) Complex with Weak Metal-metal Interaction

    Institute of Scientific and Technical Information of China (English)

    YUE Cheng-Yang; JIANG Fei-Long; FENG Rui; HONG Mao-Chun

    2008-01-01

    The title complex cis-bis(tetrahydrothiophene)-bis(nitrate) platinum(II), (tht)2Pt(NO3)2, was the reducing product from potassium hexachloroplatinate(IV) K2PtCl6 where the platinum is tetra-valenced. Crystal data for C8H16N2O6PtS2: monoclinic, space group P21/c, a = 9.8833(5), b = 8.6744(4), c = 18.6407(9) (A), β = 114.401(3)°, V = 1455.35(12) (A)3, Z = 4, Mr = 495.44, Dc = 2.261 g/cm3, F(000) = 944, μ = 9.950 mm-1, λ(MoKα) = 0.71073 (A), T = 293(2) K, 2θmax = 54.96o, GOOF = 1.033, R = 0.0350 and wR = 0.0785 for 2572 observed reflections with I > 2σ(I). X-ray diffraction studies reveal that the title complex has interesting weak metal-metal interactions and two molecules linked by metal-metal interaction exist as a group. Luminescent spectrum illuminates red emission of the complex at room temperature.

  4. Crystal structures of two mononuclear complexes of terbium(III) nitrate with the tripodal alcohol 1,1,1-tris-(hy-droxy-meth-yl)propane.

    Science.gov (United States)

    Gregório, Thaiane; Giese, Siddhartha O K; Nunes, Giovana G; Soares, Jaísa F; Hughes, David L

    2017-02-01

    Two new mononuclear cationic complexes in which the Tb(III) ion is bis-chelated by the tripodal alcohol 1,1,1-tris-(hy-droxy-meth-yl)propane (H3L(Et), C6H14O3) were prepared from Tb(NO3)3·5H2O and had their crystal and mol-ecular structures solved by single-crystal X-ray diffraction analysis after data collection at 100 K. Both products were isolated in reasonable yields from the same reaction mixture by using different crystallization conditions. The higher-symmetry complex dinitratobis[1,1,1-tris-(hy-droxy-meth-yl)propane]-terbium(III) nitrate di-meth-oxy-ethane hemisolvate, [Tb(NO3)2(H3L(Et))2]NO3·0.5C4H10O2, 1, in which the lanthanide ion is 10-coordinate and adopts an s-bicapped square-anti-prismatic coordination geometry, contains two bidentate nitrate ions bound to the metal atom; another nitrate ion functions as a counter-ion and a half-mol-ecule of di-meth-oxy-ethane (completed by a crystallographic twofold rotation axis) is also present. In product aqua-nitratobis[1,1,1-tris-(hy-droxy-meth-yl)propane]-terbium(III) dinitrate, [Tb(NO3)(H3L(Et))2(H2O)](NO3)2, 2, one bidentate nitrate ion and one water mol-ecule are bound to the nine-coordinate terbium(III) centre, while two free nitrate ions contribute to charge balance outside the tricapped trigonal-prismatic coordination polyhedron. No free water mol-ecule was found in either of the crystal structures and, only in the case of 1, di-meth-oxy-ethane acts as a crystallizing solvent. In both mol-ecular structures, the two tripodal ligands are bent to one side of the coordination sphere, leaving room for the anionic and water ligands. In complex 2, the methyl group of one of the H3L(Et) ligands is disordered over two alternative orientations. Strong hydrogen bonds, both intra- and inter-molecular, are found in the crystal structures due to the number of different donor and acceptor groups present.

  5. Crystal structure of bis(1,3-dimethoxyimidazolin-2-ylidenesilver(I hexafluoridophosphate, N-heterocyclic carbene (NHC complex

    Directory of Open Access Journals (Sweden)

    Barbara Rietzler

    2015-12-01

    Full Text Available The title salt, [Ag(C5H8N2O22]PF6, was obtained by deprotonation and metalation of 1,3-dimethoxyimidazolium hexafluoridophosphate using silver(I oxide in methanol. The C—Ag—C angle in the cation is 178.1 (2°, and the N—C—N angles are 101.1 (4 and 100.5 (4°. The methoxy groups adopt an anti conformation. In the crystal, anions (A are sandwiched between cations (C in a layered arrangement {C…A…C}n stacked along [001]. Within a C…A…C layer, the hexafluoridophosphate anions accept several C—H...F hydrogen bonds from the cationic complex.

  6. Synthesis, Crystal Structure and Thermoanalysis of Complex of Zn(Ⅱ) with Aminomethanesulfonic Acid-5-bromosalicylaldelyde Schiff Base

    Institute of Scientific and Technical Information of China (English)

    DENG Yi-Fang; KUANG Dai-Zhi; ZHANG Chun-Hua; CHEN Man-Sheng; PENG Yun-Lin; YANG Ying-Qun; LI Wei

    2006-01-01

    The title complex [Zn(L)(phen)(CH3OH)] (L= C8H6BrO4NS, aminomethanesulfonic acid 5-bromo-salicylaldelyde schiff base; phen = 1,10-phenanthroline) has been synthesized and characterized by X-ray diffraction method. The crystal belongs to monoclinic, space group P21/c with a = 1.8712(3), b = 1.38008(19), c = 0.83685(12) nm, β = 97.791 (2)°, Mr = 569.72, V = 2.1411(5)nm3,Z= 4, Dc = 1.767 g/cm3, μ = 3.151 mm-1, F(000) = 1144, the final R = 0.0402 and wR = 0.0885. The central Zn(Ⅱ) is six-coordinated by one nitrogen and two oxygen atoms from the Schiff base, two nitrogen atoms from 1,10-phenanthroline and one oxygen from methanol to form a distorted octahedral coordination geometry.

  7. Synthesis and Crystal Structure of the Copper Complex of 7,16-Bis(2-hydroxy-5-methylbenzyl)-1,4,10,13-tetraoxa-7,16-diazacyclooctadecane

    Institute of Scientific and Technical Information of China (English)

    MA,Shu-Lan(马淑兰); ZHU,Wen-Xiang(朱文祥); GUO,Qian-Ling(郭倩玲); LIU,Ying-Chun(刘迎春); XU,Miao-Qiong(许妙琼)

    2004-01-01

    A lariat crown ether ligand 7,16-bis (2-hydroxy-5-methylbenzyl)-1,4,10,13-tetraoxa-7,16-diazacyclooctadecane (L1) has been prepared via one-pot Mannich reaction. Its copper(II) complex Cu-L1 was synthesized and characterized by elemental analysis, IR and UV-visible spectroscopy. The crystal structure of the complex has been determined by X-ray diffraction analysis. The result shows that the copper(II) ion is six-coordinated by two nitrogen and four oxygen atoms, two from the crown ether and the other two from the deprotonated phenolate anions, forming an elongated octahedral complex. Electrochemical study indicates that the complex undergoes reversible reduction in DMF solution.

  8. Synthesis, crystal structure and EPR studies of vanadyl doped [Co(2-nbH)2(ina)2(H2O)] complex

    Science.gov (United States)

    Bozkurt, Esat; Çelik, Yunus; Çöpür, Fatma; Dege, Necmi; Topcu, Yıldıray; Karabulut, Bünyamin

    2016-08-01

    A novel aquabis(isonicotinamide-κN1)bis(2-nitrobenzoato-κ2O,O‧;κO)cobalt(II), (hereafter [Co(2-nbH)2(ina)2(H2O)]; 2-nbH: 2-nitrobenzoic acid; ina: isonicotinamide), complex was synthesized and characterized by using various techniques. The crystal structure was determined by X-ray diffraction (XRD) method. The magnetic properties of VO2+ doped [Co(2-nbH)2(ina)2(H2O)] complex were obtained by electron paramagnetic resonance (EPR) technique. The angular variation of EPR spectra shows that two different VO2+ complexes are present in the lattice. The FT-IR spectra of this compound were discussed in relation to other compounds containing 2-nitrobenzoato or isonicotinamide ligands. Thermal stability and reactivity of this complex were also studied by thermal analysis methods (TG/DTG/DTA).

  9. Cyanide- and phenoxo-bridged heterobimetallic Fe(III)-Mn(III) complexes: Synthesis, crystal structures and magnetic properties

    Indian Academy of Sciences (India)

    Daopeng Zhang; Ping Wang; Kexun Chen; Xia Chen

    2014-11-01

    By employing two -tricyanidoiron(III) precursors [Ph4P][FeIII(pcq)(CN)3] and [Ph4P][FeIII (pzq)(CN)3] as building blocks and a salen-tpye Schiff-basemanganese (III) compound as assembling segment, two tetranuclear cyanide- and phenoxo- bridged heterobimetallic Fe(III)-Mn(III) complexes {[Mn(saltmen)] [Fe(pcq)(CN)3]}2·2CH3OH (1) and {[Mn(saltmen)] [Fe(pzq)(CN)3]}2·2CH3OH (2) (pcq = 8-(pyridine-2-carboxamido, pzq = 8-(pyrazine-2-carboxamido, saltmen2− = N,N′-(1,1,2,2-tetramethylethylene)bis(salicylideneaminato) dianion) have been synthesized and characterized by elemental analysis, IR spectroscopy and X-ray structure determination. Single x-ray analysis reveals their isostructural cyanide-bridged Fe(III)-Mn(III) binuclear structure. The binuclear entity is self-complementary through phenoxo oxygen from the neighbouring complex, giving cyanide- and phenoxo- bridged tetranuclear structure. Furthermore, under the help of the intermolecular - interaction, these two complexes can be constructed into 1D infinite chain supramolecular structure. Investigation over magnetic susceptibilities reveals the overall ferromagnetic coupling between the adjacent Fe(III) and Mn(III) ions bridged by cyanide group with = 5.34 cm-1 and 5.55 cm-1 for complexes 1 and 2, respectively.

  10. Pendant—armed Unsymmetrical Aza—macrocycles:Syntheses,Coordination Behavior and Crystal Structure of a Dinuclear Cadmium Complex

    Institute of Scientific and Technical Information of China (English)

    陶京朝; 廖新成; 等

    2002-01-01

    Two unsymmetridcal tetradentate aza-macrocycles with side arms attached to whte Nsp3 atoms ,L1 and L2 ,as well as their complexes with different metal cations were synthesized and characterized by EA,UV IR ,1H NMR and MS spectra ,Both the two ligands can efficiently transport alkai and transition metal cations across an organic membrane with high selectivity ratio.The structure of a dinuclear Cd(Ⅱ) complex [L1.(CdCl2)2] was elucidated by X-ray crystallography and was solved by the heavy-atom method to a final R value of 0.029 for 3084 reflections with |F|>3σ(I), In the exo-structure of the dinuclear complex each cadmium atom is five-coordinated,bonding to three N atoms and two chlorine atoms.

  11. Mre11-Rad50 complex crystals suggest molecular calisthenics

    NARCIS (Netherlands)

    C. Wyman (Claire); J.H.G. Lebbink (Joyce); R. Kanaar (Roland)

    2011-01-01

    textabstractRecently published crystal structures of different Mre11 and Rad50 complexes show the arrangement of these proteins and imply dramatic ligand-induced rearrangements with important functional consequences.

  12. Inorganic Crystal Structure Database (ICSD)

    Science.gov (United States)

    SRD 84 FIZ/NIST Inorganic Crystal Structure Database (ICSD) (PC database for purchase)   The Inorganic Crystal Structure Database (ICSD) is produced cooperatively by the Fachinformationszentrum Karlsruhe(FIZ) and the National Institute of Standards and Technology (NIST). The ICSD is a comprehensive collection of crystal structure data of inorganic compounds containing more than 140,000 entries and covering the literature from 1915 to the present.

  13. New Supramolecular Complex Assembled through Hydrogen Bonds.Crystal Structure of Co(PMBP-tsc)2·2DMF·2H2O

    Institute of Scientific and Technical Information of China (English)

    UU,Lang(刘浪); JIA,Dian-Zeng(贾殿赠); QIAO,Yong-Min(乔永民); YU,Kai-Bei(郁开北)

    2002-01-01

    The structure of the complex [Co(PMBP-tsc)2.2DMF@2H2O]( PMBP-tsc= 1-phenyl-3-methyl-4-benzoylpyrazol-5-one-thiosemicarbazone) has been determined by X-ray crystallography. It crystallizes in the orthorhombic system, space group Pna21, with lattice parameters a=2.1170(3) nm, b =1.2780(10) nm, c = 1.8956(2) nm, V= 4.5258(9) nm3 and Z=4. The structure shows that Co2+ in the complex is hexacoordinated with a distorted octahedral coordination sphere.The water molecules bridge the adjacent stacks through hydrogen bonds and lead to supramolecular formation with three-dimensional network structure.

  14. Synthesis, Crystal Structure and Electrochemistry Properties of a (N,N'-Ethylene-bis(salicylaldiminato)) Nickel(Ⅱ) Complex, [Ni2(salen)2]·NCS-NH4

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    A new Ni(Ⅱ) complex [Ni2(salen)2]·(NCS)·NH4 (salen = N,N'-bis(salicylidenea-mino)ethanato) has been prepared and structurally characterized by elemental analysis, IR spectra and single crystal X-ray diffraction. It crystallizes in the orthorhombic system, space group Pbca with a = 16.8725(13), b = 19.0046(15), c = 20.0583(16) (A), Z = 8, V = 6431.8(9) (A)3, C33H32N6Ni2O4S1, Mr= 726.13, Dc = 1.500 g/cm3, F(000) = 3008, μ = 1.284 mm-1, the final R = 0.0394 and wR = 0.0767 for 4449 observed reflections with Ⅰ>2σ(Ⅰ). The complex involves a N,N'-ethylene-bis(salicylaldiminato) Schiff base, an isothiocyanato anion and an ammonium cation. The nickle(Ⅱ) ion adopts a distorted square coordination geometry with N2O2 set of Schiff base ligand. The complexes are linked into a dimmer via intermolecular hydrogen bonds and the [Ni(salen)] moieties are connected together to form a 2-D layer structure by intermolecular N-H…O hydrogen bonds and π-π stacking. Cyclic-voltammetry method was used to characterize electrochemically the complex.

  15. Synthesis, Characterization, Crystal Structure and Antibacterial Activities of Transition Metal(II Complexes of the Schiff Base 2-[(4-Methylphenyliminomethyl]-6-methoxyphenol

    Directory of Open Access Journals (Sweden)

    Guo-Liang Zhao

    2009-05-01

    Full Text Available Five transition metal(II complexes, [ML2Cl2] 1~5, were synthesized from the reaction of MCl2·nH2O (M = Mn, Co, Ni, Cu, Cd and the Schiff base ligand 2-[(4-methylphenyliminomethyl]-6-methoxyphenol (C15H15NO2, L, obtained by condensation of o-vanillin (2-hydroxy-3-methoxybenzaldehyde with p-toluidine. They were characterized by elemental analysis, molar conductance, FT-IR spectra, thermal analysis. The structure of complex 1 was determined by single-crystal X-ray diffraction. Its crystal structure is of monoclinic system, space group P21/c with a = 9.0111(18 Å, b = 11.222(2 Å, c =28.130 (6 Å, α = 90 º, β = 92.29(3 º, γ = 90 º, V = 2867.6(10 Å3, Z = 4. The Mn atom is six-coordinate and displays distorted octahedral geometry.The Schiff base ligand and its complexes have been tested in vitro to evaluate their antibacterial activity against bacteria, viz., Escherichia coli, Staphylococcus aureus and Bacillus subtilis. It has been found that the complexes have higher activity than the corresponding free Schiff base ligand against the same bacteria.

  16. Synthesis, crystal structure, spectroscopic characterization and nonlinear optical properties of manganese (II) complex of picolinate: A combined experimental and computational study

    Science.gov (United States)

    Tamer, Ömer; Avcı, Davut; Atalay, Yusuf; Çoşut, Bünyemin; Zorlu, Yunus; Erkovan, Mustafa; Yerli, Yusuf

    2016-02-01

    A novel manganese (II) complex with picolinic acid (pyridine 2-carboxylic acid, Hpic), namely, [Mn(pic)2(H2O)2] was prepared and its crystal structure was fully characterized by using single crystal X-ray diffraction. Picolinate (pic) ligands were coordinated to the central manganese(II) ion as bidentate N,O-donors through the nitrogen atoms of pyridine rings and the oxygen atoms of carboxylate groups forming five-membered chelate rings. The spectroscopic characterization of Mn(II) complex was performed by the applications of FT-IR, Raman, UV-vis and EPR techniques. In order to support these studies, density functional theory (DFT) calculations were carried out by using B3LYP level. IR and Raman spectra were simulated at B3LYP level, and obtained results indicated that DFT calculations generally give compatible results to the experimental ones. The electronic structure of the Mn(II) complex was predicted using time dependent DFT (TD-DFT) method with polarizable continuum model (PCM). Molecular stability, hyperconjugative interactions, intramolecular charge transfer (ICT) and bond strength were investigated by applying natural bond orbital (NBO) analysis. Nonlinear optical properties of Mn(II) complex were investigated by the determining of molecular polarizability (α) and hyperpolarizability (β) parameters.

  17. Two-dimensional Network Crown Ether Complex. Synthesis and Crystal Structure of 18-Crown-6 Complex: [K(18-C-6) ]2[Cd-(mnt)2

    Institute of Scientific and Technical Information of China (English)

    WANG,Da-Qi(王大奇); YU,Qing-Jiang(于清江); DOU,Jian-Min(窦建民)

    2002-01-01

    The novel complex [K(18-C-6)]2[Cd(mnt)2] [18-C-6=18-crown-6, mnt= 1, 2-dicyanoethen-1, 2-dithiolate, C2S2-(CN)2- 2] was synthesized and characterized by elemental analysis,IR spectrum and X-ray diffraction analysis. The complex displays two-dimensional network structure of [ K(18-C-6)] complex segments and [Cd(mnt)2] complex segment bridged by S-K-S, S-K-N and N-K-N interactions between adjacent [K(18-C-6)] and [Cd(mnt)2] units.

  18. Crystal structure of β-cyclodextrin-4-chlorobenzoic acid complex:Unusual C-Cl...π interaction between 4-chlorobenzoic acids in β-cyclodextrin dimer

    Institute of Scientific and Technical Information of China (English)

    En Ju Wang; Guang Ying Chen

    2011-01-01

    The inclusion complex of β-cyclodextrin (β-CD) with 4-chlorobenzoic acid was synthesized and its crystal structure was determined by single crystal X-ray diffraction under cryogenic condition. The complex contains two β-CDs, two 4-chlorobenzoic acids and twenty-nine water molecules in the asymmetric unit, and can be formulated as 2(C42H70O35)-2(C7H5O2Cl)·29(H2O). In the crystal lattice, two β-CDs form a face-to-face dimer jointed together through hydrogen bonding between the secondary hydroxyl groups of β-CDs. Two 4-chlorobenzoic acid molecules which contact by C-Cl…π interactions are included in the β-CD dimer cavity. The β-CD dimers are arranged in brickwork-like pattern along the crystallographic a-axis. The effect of guest molecule length on the inclusion geometry was discussed by comparative study of some β-CD complexes containing similar guests.

  19. Synthesis and Crystal Structure of a Cyano-bridged Bimetallic Complex: [NdFe(CN)6(DMF)4(H2O)3]·H2O

    Institute of Scientific and Technical Information of China (English)

    李建荣; 郭国聪; 王明盛; 周国伟; 卜显和; 黄锦顺

    2003-01-01

    A new bimetallic cyano-bridged complex, [NdFe(CN)6(DMF)4(H2O)3]@H2O (DMF= N,N-dimethylformamide) 1, has been obtained by the reaction of hexacyanoferrate potassium with neodymium (Ⅲ) chloride in H2O/EtOH/DMF (volume ratio: 2:2:1), and its structure was determined by means of single-crystal X-ray diffraction. The compound crystallizes in space group P21/n of monoclinic system with cell parameters: a = 17.646(1), b = 8.9011(3), c = 19.945(1) A, β = 95.835(2)°, V= 3116.6(3) A3, Z = 4, Dc = 1.536 g/cm3, Mr = 720.66, F(000) = 1456, μ = 2.166 mm-1, R = 0.0386, wR = 0.1120 and S = 1.061. The central Nd (Ⅲ) ion is coordinated by seven oxygen atoms of four DMF molecules and three water molecules and one nitrogen atom of the bridging cyanide in a slightly distorted square-antiprism arrangement, and the Fe (Ⅲ) ion is in an almost octahedral environment coordinated to six cyano-ligands, of which one cyanide ligand bridges the Nd (Ⅲ) ion to form a bimetallic complex. Molecules of complexes in the crystal lattice are held together by hydrogen bonding, forming a three-dimensional framework.

  20. Crystal structures of two nickel compounds comprising neutral Ni(II) hydrazone complexes and di-carb-oxy-lic acids.

    Science.gov (United States)

    Nakanishi, Takumi; Sato, Osamu

    2017-02-01

    Two isostructural Ni(II) compounds, bis-{N-[1-(pyridin-2-yl-κN)eth-ylidene]pyridine-4-carbohydrazonato-κ(2)N',O}nickel(II)-2,5-di-chloro-terephthalic acid (1/1), [Ni(C13H11N4O)2](C8H4Cl2O4), and bis-{N-[1-(pyridin-2-yl-κN)eth-ylidene]pyridine-4-carbohydrazonato-κ(2)N',O}nickel(II)-2,5-di-bromo-terephthalic acid (1/1), [Ni(C13H11N4O)2](C8H4Br2O4), were synthesized and their crystal structures determined. The pair of N,N',O-tridentate N-[1-(pyridin-2-yl-κN)eth-yl]pyridine-4-carbohydrazonate L ligands result in a cis-NiO2N4 octa-hedral coordination sphere for the metal ions. The asymmetric units consist of two half-mol-ecules of the di-carb-oxy-lic acids, which are completed by crystallographic inversion symmetry. In the respective crystals, the 2,5-di-chloro-terephthalic acid (H2Cl2TPA, 1-Cl) mol-ecules form zigzag hydrogen-bonded chains with the [Ni(L)2] mol-ecules, with the hydrogen-bond distances in 1-Br slightly longer than those in 1-Cl. The packing is consolidated by aromatic π-π stacking between the di-carb-oxy-lic acid mol-ecules and terminal pyridine rings in [Ni(L)2] and short halogen-halogen inter-actions are also observed. The qualitative prediction of the H-atom position from the C-N-C angles of the terminal pyridine rings in L and the C-O distances in the carboxyl groups show that 1-Cl and 1-Br are co-crystals rather than salts.

  1. Structure-based lead discovery for protein kinase C zeta inhibitor design by exploiting kinase-inhibitor complex crystal structure data and potential therapeutics for preterm labour.

    Science.gov (United States)

    Shao, Qing-Chun; Zhang, Cui-Juan; Li, Jie

    2014-10-14

    The protein kinase C (PKC) is a family of serine/threonine kinases with a broad range of cellular targets. Members of the PKC family participate at the diverse biological events involved in cellular proliferation, differentiation and survival. The PKC isoform zeta (PKCζ) is an atypical member that has recently been found to play an essential role in promoting human uterine contractility and thus been raised as a new target for treating preterm labour and other tocolytic diseases. In this study, an integrative protocol was described to graft hundreds of inhibitor ligands from their complex crystal structures with cognate kinases into the active pocket of PKCζ and, based on the modeled structures, to evaluate the binding strength of these inhibitors to the non-cognate PKCζ receptor by using a consensus scoring strategy. A total of 32 inhibitors with top score were compiled, and eight out of them were tested for inhibitory potency against PKCζ. Consequently, five compounds, i.e. CDK6 inhibitor fisetin, PIM1 inhibitor myricetin, CDK9 inhibitor flavopiridol and PknB inhibitor mitoxantrone as well as the promiscuous kinase inhibitor staurosporine showed high or moderate inhibitory activity on PKCζ, with IC50 values of 58 ± 9, 1.7 ± 0.4, 108 ± 17, 280 ± 47 and 0.019 ± 0.004 μM, respectively, while other three compounds, including two marketed drugs dasatinib and sunitinib as well as the Rho inhibitor fasudil, have not been detected to possess observable activity. Next, based on the modeled structure data we modified three flavonoid kinase inhibitors, i.e. fisetin, myricetin and flavopiridol, to generate a number of more potential molecular entities, two of which were found to have a moderately improved activity as compared to their parent compounds.

  2. Crystal structure of ruthenocenecarbonitrile

    Directory of Open Access Journals (Sweden)

    Frank Strehler

    2015-04-01

    Full Text Available The molecular structure of ruthenocenecarbonitrile, [Ru(η5-C5H4C[triple-bond]N(η5-C5H5], exhibits point group symmetry m, with the mirror plane bisecting the molecule through the C[triple-bond]N substituent. The RuII atom is slightly shifted from the η5-C5H4 centroid towards the C[triple-bond]N substituent. In the crystal, molecules are arranged in columns parallel to [100]. One-dimensional intermolecular π–π interactions [3.363 (3 Å] between the C[triple-bond]N carbon atom and one carbon of the cyclopentadienyl ring of the overlaying molecule are present.

  3. Crystal structure of propaquizafop

    Directory of Open Access Journals (Sweden)

    Youngeun Jeon

    2014-12-01

    Full Text Available The title compound, C22H22ClN3O5 {systematic name: 2-(propan-2-ylideneaminooxyethyl (R-2-[4-(6-chloroquinoxalin-2-yloxyphenoxy]propionate}, is a herbicide. The asymmetric unit comprises two independent molecules in which the dihedral angles between the phenyl ring and the quinoxaline ring plane are 75.93 (7 and 82.77 (8°. The crystal structure features C—H...O, C—H...N, and C—H...Cl hydrogen bonds, as well as weak π–π interactions [ring-centroid separation = 3.782 (2 and 3.5952 (19 Å], resulting in a three-dimensional architecture.

  4. Synthesis and Crystal Structure of a Cyano-bridged Bimetallic Complex [La(betaine)2(H2O)6Fe(CN)6]·2H2O

    Institute of Scientific and Technical Information of China (English)

    LIANG Shu-Hui; CHE Yun-Xia; ZHENG Ji-Min

    2005-01-01

    The title complex [La(betaine)2(H2O)6Fe(CN)6](2H2O (betaine = (CH3)3NCH2CO2) has been synthesized and characterized by X-ray single-crystal structure analysis. The crystal crystallizes in monoclinic, space group P21/n with a = 15.793(5), b = 8.927(3), c = 22.257(7) (A), β = 110.147(5)°, C16H38FeLaN8O12, Mr = 729.31, Z = 4, V = 2946.0(15) (A)3, Dc = 1.640 g/m3, μ(MoKα) = 1.988 mm-1, F(000) =1476, R = 0.0388 and wR = 0.0827 for 4237 observed reflections (I > 2σ(I)). The La3+ ion is nine-coordinated by one cyano nitrogen atom and eight oxygen atoms of two betaine and six water molecules. Each complex molecule is connected to form a 3D network structure by some O-H…O and O-H…N hydrogen bonds.

  5. Synthesis and Crystal Structure of a One-dimensional Infinite Chain Organotin Complex [(n-Bu)3Sn(OCOC5H4NO)]n

    Institute of Scientific and Technical Information of China (English)

    2005-01-01

    A novel organotin complex [(n-Bu)3Sn(OCOC5H4NO)]n has been synthesized and characterized by elemental analysis, IR and 1H NMR. The crystal structure has been determined by X-ray single-crystal diffraction. The crystal belongs to monoclinic, space group P21/c with a =8.982(2), b = 17.908(4), c = 13.219(3) A, β= 96.981 (4)°, Z = 4, V= 2110.6(8) A3, Dc = 1.347 g/cm3,μ(MoKα) = 12.23 cm-1, F(000) = 880, R = 0.0497 and wR = 0.1263. In the molecular structure of the title complex, the tin atoms are five-coordinated in a distorted trigonal bipyramidal geometry. A one-dimensional linear polymer is formed through an interaction between the O atoms of pyridine-3-carboxylic acid N-oxide and tin atoms of an adjacent molecule.

  6. Crystal structure of a complete ternary complex of T-cell receptor, peptide-MHC, and CD4

    Energy Technology Data Exchange (ETDEWEB)

    Yin, Yiyuan; Wang, Xin Xiang; Mariuzza, Roy A [Maryland

    2012-07-11

    Adaptive immunity depends on specific recognition by a T-cell receptor (TCR) of an antigenic peptide bound to a major histocompatibility complex (pMHC) molecule on an antigen-presenting cell (APC). In addition, T-cell activation generally requires binding of this same pMHC to a CD4 or CD8 coreceptor. Here, we report the structure of a complete TCR-pMHC-CD4 ternary complex involving a human autoimmune TCR, a myelin-derived self-peptide bound to HLA-DR4, and CD4. The complex resembles a pointed arch in which TCR and CD4 are each tilted ~65° relative to the T-cell membrane. By precluding direct contacts between TCR and CD4, the structure explains how TCR and CD4 on the T cell can simultaneously, yet independently, engage the same pMHC on the APC. The structure, in conjunction with previous mutagenesis data, places TCR-associated CD3εγ and CD3εδ subunits, which transmit activation signals to the T cell, inside the TCR-pMHC-CD4 arch, facing CD4. By establishing anchor points for TCR and CD4 on the T-cell membrane, the complex provides a basis for understanding how the CD4 coreceptor focuses TCR on MHC to guide TCR docking on pMHC during thymic T-cell selection.

  7. Synthesis, crystal structure and interaction of L-valine Schiff base divanadium(V) complex containing a V2O3 core with DNA and BSA

    Science.gov (United States)

    Guo, Qiong; Li, Lianzhi; Dong, Jianfang; Liu, Hongyan; Xu, Tao; Li, Jinghong

    2013-04-01

    A divanadium(V) complex, [V2O3(o-van-val)2] (o-van-val = Schiff base derived from o-vanillin and L-valine), has been synthesized and structurally characterized. The crystal structure shows that both of the vanadium centers in the complex have a distorted octahedral coordination environment composed of tridentate Schiff base ligand. A V2O3 core in molecular structure adopts intermediate between cis and trans configuration with the O1dbnd V1⋯V1Adbnd O1A torsion angle 115.22 (28)° and the V1⋯V1A distance 3.455 Å. The binding properties of the complex with calf thymus DNA (CT-DNA) have been investigated by UV-vis absorption, fluorescence, CD spectra and viscosity measurement. The results indicate that the complex binds to CT-DNA in non-classical intercalative mode. Meanwhile, the interaction of the complex with bovine serum albumin (BSA) has been studied by UV-vis absorption, fluorescence and CD spectra. Results indicated that the complex can markedly quench the intrinsic fluorescence of BSA via a static quenching process, and cause its conformational change. The calculated apparent binding constant Kb was 1.05 × 106 M-1 and the binding site number n was 1.18.

  8. Synthesis, crystal structure and interaction of L-valine Schiff base divanadium(V) complex containing a V2O3 core with DNA and BSA.

    Science.gov (United States)

    Guo, Qiong; Li, Lianzhi; Dong, Jianfang; Liu, Hongyan; Xu, Tao; Li, Jinghong

    2013-04-01

    A divanadium(V) complex, [V2O3(o-van-val)2] (o-van-val=Schiff base derived from o-vanillin and L-valine), has been synthesized and structurally characterized. The crystal structure shows that both of the vanadium centers in the complex have a distorted octahedral coordination environment composed of tridentate Schiff base ligand. A V2O3 core in molecular structure adopts intermediate between cis and trans configuration with the O1V1⋯V1AO1A torsion angle 115.22 (28)° and the V1⋯V1A distance 3.455Å. The binding properties of the complex with calf thymus DNA (CT-DNA) have been investigated by UV-vis absorption, fluorescence, CD spectra and viscosity measurement. The results indicate that the complex binds to CT-DNA in non-classical intercalative mode. Meanwhile, the interaction of the complex with bovine serum albumin (BSA) has been studied by UV-vis absorption, fluorescence and CD spectra. Results indicated that the complex can markedly quench the intrinsic fluorescence of BSA via a static quenching process, and cause its conformational change. The calculated apparent binding constant Kb was 1.05×10(6)M(-1) and the binding site number n was 1.18.

  9. Crystal structures of d-alanine-d-alanine ligase from Xanthomonas oryzae pv. oryzae alone and in complex with nucleotides.

    Science.gov (United States)

    Doan, Thanh Thi Ngoc; Kim, Jin-Kwang; Ngo, Ho-Phuong-Thuy; Tran, Huyen-Thi; Cha, Sun-Shin; Min Chung, Kyung; Huynh, Kim-Hung; Ahn, Yeh-Jin; Kang, Lin-Woo

    2014-03-01

    D-Alanine-D-alanine ligase (DDL) catalyzes the biosynthesis of d-alanyl-d-alanine, an essential bacterial peptidoglycan precursor, and is an important drug target for the development of antibacterials. We determined four different crystal structures of DDL from Xanthomonas oryzae pv. oryzae (Xoo) causing Bacteria Blight (BB), which include apo, ADP-bound, ATP-bound, and AMPPNP-bound structures at the resolution between 2.3 and 2.0 Å. Similarly with other DDLs, the active site of XoDDL is formed by three loops from three domains at the center of enzyme. Compared with d-alanyl-d-alanine and ATP-bound TtDDL structure, the γ-phosphate of ATP in XoDDL structure was shifted outside toward solution. We swapped the ω-loop (loop3) of XoDDL with those of Escherichia coli and Helicobacter pylori DDLs, and measured the enzymatic kinetics of wild-type XoDDL and two mutant XoDDLs with the swapped ω-loops. Results showed that the direct interactions between ω-loop and other two loops are essential for the active ATP conformation for D-ala-phosphate formation.

  10. Crystal structures, DFT calculations and Hirshfeld surface analyses of three new cobalt(III) Schiff base complexes derived from meso-1,2-diphenyl-1,2-ethylenediamine

    Science.gov (United States)

    Masoudi, Mohaddeseh; Behzad, Mahdi; Arab, Ali; Tarahhomi, Atekeh; Rudbari, Hadi Amiri; Bruno, Giuseppe

    2016-10-01

    Three new Cobalt(III) Schiff base complexes were synthesized and characterized by spectroscopic methods and x-ray crystallography. The DFT optimized structures of the complexes agreed well with the corresponding x-ray structures. According to the calculated vibrational normal modes, the observed signals in the IR spectra of the complexes were assigned. The experimental UV-Vis spectra of the complexes were also discussed considering the calculated excited states and molecular orbitals. Hirshfeld surface analysis was carried out to study the inter-contact interactions in these complexes. These studies provided comprehensive description of such inter-contact interactions by means of an appealing graphical approach using 3D Hirshfeld surfaces and 2D fingerprint plots derived from the surfaces. It indicated the dominant role of various hydrogen intermolecular interactions such as H⋯H (above 60%), C⋯H/H⋯C (near 15%-20%), O⋯H/H⋯O (about 16% or 17% for structures with counter ion ClO4-) and H⋯F (17% for structure with counter ion PF6-) contacts into the crystal packing which are discussed in details.

  11. Crystal Structures of Nitroalkane Oxidase: Insights into the Reaction Mechanism of a Covalent Complex of the Flavoenzyme Trapped During Turnover

    Energy Technology Data Exchange (ETDEWEB)

    Nagpal,A.; Valley, M.; Fitzpatrick, P.; Orville, A.

    2006-01-01

    Nitroalkane oxidase (NAO) from Fusarium oxysporum catalyzes the oxidation of neutral nitroalkanes to the corresponding aldehydes or ketones with the production of H2O2 and nitrite. The flavoenzyme is a new member of the acyl-CoA dehydrogenase (ACAD) family, but it does not react with acyl-CoA substrates. We present the 2.2 Angstroms resolution crystal structure of NAO trapped during the turnover of nitroethane as a covalent N5-FAD adduct (ES*). The homotetrameric structure of ES* was solved by MAD phasing with 52 Se-Met sites in an orthorhombic space group. The electron density for the N5-(2-nitrobutyl)-1,5-dihydro-FAD covalent intermediate is clearly resolved. The structure of ES* was used to solve the crystal structure of oxidized NAO at 2.07 Angstroms resolution. The c axis for the trigonal space group of oxidized NAO is 485 Angstroms, and there are six subunits (11/2 holoenzymes) in the asymmetric unit. Four of the active sites contain spermine (EI), a weak competitive inhibitor, and two do not contain spermine (E{sup ox}). The active-site structures of E{sup ox}, EI, and ES* reveal a hydrophobic channel that extends from the exterior of the protein and terminates at Asp402 and the N5 position on the re face of the FAD. Thus, Asp402 is in the correct position to serve as the active-site base, where it is proposed to abstract the {alpha} proton from neutral nitroalkane substrates. The structures for NAO and various members of the ACAD family overlay with root-mean-square deviations between 1.7 and 3.1 Angstroms. The homologous region typically spans more than 325 residues and includes Glu376, which is the active-site base in the prototypical member of the ACAD family. However, NAO and the ACADs exhibit differences in hydrogen-bonding patterns between the respective active-site base, substrate molecules, and FAD. These likely differentiate NAO from the homologues and, consequently, are proposed to result in the unique reaction mechanism of NAO.

  12. Synthesis, crystal structures and photo- and electro-luminescence of copper(I) complexes containing electron-transporting diaryl-1,3,4-oxadiazole.

    Science.gov (United States)

    Yu, Tianzhi; Liu, Peng; Chai, Haifang; Kang, Jundan; Zhao, Yuling; Zhang, Hui; Fan, Duowang

    2014-05-01

    Two mononuclear Cu(I) complexes based on 2-(2-pyridyl)benzimidazolyl derivative ligand containing electron-transporting 1,3,4-oxadiazole group (L), [Cu(L)(PPh(3))2](BF(4)) and [Cu(L)(DPEphos)](BF(4)), where L = 1-(4-(5-(4-tert-butylphenyl)-1,3,4-oxadiazol-2-yl)benzyl)-2-(pyridin-2-yl)benzimidazole and DPEphos = bis[2-(diphenylphosphino)phenyl]ether, have been successfully synthesized and characterized. The X-ray crystal structure analyses of the ligand L and the complex [Cu(L)(PPh(3))2](BF(4)) were described. The photophysical properties of the complexes were examined by using UV-vis, photoluminescence spectroscopic analysis. The doped light-emitting devices using the Cu(I) complexes as dopants were fabricated. With no electron transporting layers employed in the devices, yellow electroluminescence from Cu(I) complexes were observed. The devices based on the complex [Cu(L)(DPEphos)](BF4) possess better performance as compared with the devices fabricated by the complex [Cu(L)(PPh(3))2](BF(4)). The devices with the structure of ITO/MoO(3) (2 nm)/NPB (40 nm)/CBP:[Cu(L)(DPEphos)](BF(4)) (8 wt%, 30 nm)/BCP (30 nm)/LiF (1 nm)/Al (150 nm) exhibit a maximum efficiency of 3.04 cd/A and a maximum brightness of 4,758 cd/m(2).

  13. Synthesis and Crystal Structure of Binuclear Silver(Ⅰ)Complex with 2-nitro-(2-pyridylsulfanylmethyl)benzene

    Institute of Scientific and Technical Information of China (English)

    2005-01-01

    The reaction of 2-nitro-(2-pyridylsulfanylmethyl)benzene L with silver nitrate produces a centrosymmetric binuclear complex bis(2-nitro-(2-pyridylsulfanylmethyl)benzene-N,S)-bis(nitrato-O,O)-disilver(Ⅰ), [AgLNO3]2 1. The crystal is of triclinic, space group P1, with a = 7.383(3), b = 8.340(3), c = 12.003(4) A, a = 95.069(6), β = 93.498(5), γ = 102.734(6)°, C24H2oAg2N6-O10S2, Mr= 832.32, V= 715.6(4) A3, Z = 1, Dc = 1.931 g/cm3, F(000) = 412, μ = 1.581 mm-1, R=0.0351 and wR = 0.0749 Each silver atom is tetrahedrally coordinated by two O atoms from bidentate nitrate, one S atom from a ligand and one N atom from another ligand. Furthermore, AgAg interactions have been observed in the complex.

  14. Synthesis, crystal structures and properties of two novel macrocyclic nickel(II) and copper(II) complexes

    Science.gov (United States)

    Su, Yan-Hui; Liu, Jie; Li, Jia; Si, Xue-Zhi

    2007-06-01

    Two new 14-membered hexaaza macrocyclic complexes with the formulae [NiL](ClO 4) 2·CH 3COCH 3 ( 1) and [CuL](ClO 4) 2·CH 3COCH 3 ( 2), where L = 3,10-bis(2-thiophenemethyl)-1,3,5,8,10,12-hexaazacyclotetradecane, have been synthesized and characterized by elemental analyses, single-crystal X-ray diffraction analyses, electronic spectra, IR and TG-DTA. In 1, the nickel(II) ion is four-coordinated with four nitrogen atoms from the macrocycle and forms a square-planar coordination geometry. In 2, the copper(II) ion is six-coordinated with four nitrogen atoms from the macrocyclic ligand in the equatorial plane and two oxygen atoms from the perchlorate anions in the axial position exhibiting an elongated octahedron coordination geometry. The two complexes present two different molecular arrangements in which the [ML] 2+ (M = Ni, Cu) cation arrays in the manner of M(1)M(2)M(1)… in sequence. The pendant thiophene groups of the neighboring macrocycles have no π⋯π interactions. All the ClO4- anions and acetone molecules are involved in hydrogen-bonding interactions with the macrocyclic ligand.

  15. Syntheses, crystal structures and antioxidant study of Zn(II) complexes with morin-5'-sulfonic acid (MSA).

    Science.gov (United States)

    Pieniążek, Elżbieta; Kalembkiewicz, Jan; Dranka, Maciej; Woźnicka, Elżbieta

    2014-12-01

    The study of modified synthetic procedure of water soluble morin-5'-sulfonic acid sodium salt (NaMSA) involving less aggressive chemicals and carried out at mild conditions was described. The NaMSA salt is a convenient source of anionic morin-5'-sulfonic ligand (MSA) in ion exchange reactions. The coordination ability of MSA ligand towards the zinc cations was investigated in aqueous solution and in solid state. Novel zinc complexes of morin-5'-sulfonate were obtained by a reaction of Zn(NO3)2 with morin-5'-sulfonate in water. Resulting compounds were characterized by single-crystal X-ray diffraction analysis, as well as spectral and thermal methods. The coordination interaction, hydrogen bond and π-π stacking lead to the formation of a 1D chain or 3D coordination polymers. The antioxidant activity of the Zn(II)-MSA complexes was evaluated by means of 1,1-diphenyl-2-picrylhydrazyl (DPPH) radical scavenging method. In this work, we have shown that the studied compounds are more effective free radical scavengers than the natural flavonoids like plain morin.

  16. Synthesis, crystal structure and antitumor effect of a novel copper(II) complex bearing zoledronic acid derivative.

    Science.gov (United States)

    Qiu, Ling; Lv, Gaochao; Guo, Liubin; Chen, Liping; Luo, Shineng; Zou, Meifen; Lin, Jianguo

    2015-01-07

    A great majority of Cu(II) complexes currently studied in the anticancer research field exert their antiproliferative activities through ligand exchange. In this work, we present the synthesis and structural characterization of two novel Cu(II) complexes, {[Cu3(ZL)2(H2O)6]·6H2O}n (1) (ZL = 1-hydroxy-2-(1H-imidazol-1-yl)ethane-1,1-diyldiphosphonic acid) and [Cu(IPrDP)2]·3H2O (2) (IPrDP = 1-hydroxy-3-(1H-imidazol-1-yl)propane-1,1-diyldiphosphonic acid). Due to the insolubility of polymer 1 in common solvents, only the biological activities of complex 2 were investigated. The antitumor activity of complex 2 was evaluated against a panel of human cancer cell lines, including U2OS, A549, HCT116, MDA-MB-231 and HepG2. Complex 2 exhibited comparable cytotoxic effect to cisplatin (CDDP) against the human colon carcinoma cells HCT116, and superior selectivity for inhibiting human hepatocarcinoma cells rather than normal liver cells. The cell cycle distribution analysis indicates that complex 2 inhibits human carcinoma cells by inducing the cell cycle arrest at the G2/M phase, showing a similar mechanism of action to that of CDDP. The binding interaction of complex 2 with calf thymus DNA (CT-DNA) has been explored by UV-vis absorption and circular dichroism (CD), demonstrating complex 2 has a moderate binding affinity for DNA through intercalation.

  17. Crystal Structure of Chiral Acetato-bridged Binuclear Cyclopalladated complex[Pd(μ-O2CM3)(S-C6H4CHMeNH2)]2

    Institute of Scientific and Technical Information of China (English)

    杨帆; 李一平; 聂娟; 汤杰; 何鸣元

    2003-01-01

    Reaction of (S)-α-methylbenzylamine with Pd(OAc)2 in anhydrous HOAc produced the chiral complex[Pd(μ-O2CMe)(S-C6H4CHMeNH2)]2.(1).The complex was characterized by 1H NMR spectroscopy,elemental analysis and a single-crystal Xray analysis.The X-ray crystal structure analysis revealed that complex 1 has four isomers:two outer and two inner isomers.

  18. Crystal structure of CotA laccase complexed with 2,2-azinobis-(3-ethylbenzothiazoline-6-sulfonate) at a novel binding site

    Energy Technology Data Exchange (ETDEWEB)

    Liu, Zhongchuan; Xie, Tian [Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu 610041, People’s Republic of (China); Key Laboratory of Environmental Microbiology of Sichuan Province, Chengdu 610041, People’s Republic of (China); Zhong, Qiuping [Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu 610041, People’s Republic of (China); Key Laboratory of Environmental Microbiology of Sichuan Province, Chengdu 610041, People’s Republic of (China); University of Chinese Academy of Sciences, Beijing 100049, People’s Republic of (China); Wang, Ganggang, E-mail: wanggg@cib.ac.cn [Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu 610041, People’s Republic of (China); Key Laboratory of Environmental Microbiology of Sichuan Province, Chengdu 610041, People’s Republic of (China)

    2016-03-24

    The crystal structure of CotA complexed with 2,2-azinobis-(3-ethylbenzothiazoline-6-sulfonate) in a hole motif has been solved; this novel binding site could be a potential structure-based target for protein engineering of CotA laccase. The CotA laccase from Bacillus subtilis is an abundant component of the spore outer coat and has been characterized as a typical laccase. The crystal structure of CotA complexed with 2,2-azinobis-(3-ethylbenzothiazoline-6-sulfonate) (ABTS) in a hole motif has been solved. The novel binding site was about 26 Å away from the T1 binding pocket. Comparison with known structures of other laccases revealed that the hole is a specific feature of CotA. The key residues Arg476 and Ser360 were directly bound to ABTS. Site-directed mutagenesis studies revealed that the residues Arg146, Arg429 and Arg476, which are located at the bottom of the novel binding site, are essential for the oxidation of ABTS and syringaldazine. Specially, a Thr480Phe variant was identified to be almost 3.5 times more specific for ABTS than for syringaldazine compared with the wild type. These results suggest this novel binding site for ABTS could be a potential target for protein engineering of CotA laccases.

  19. Crystal structure of U2 snRNP SF3b components: Hsh49p in complex with Cus1p-binding domain.

    Science.gov (United States)

    van Roon, Anne-Marie M; Oubridge, Chris; Obayashi, Eiji; Sposito, Benedetta; Newman, Andrew J; Séraphin, Bertrand; Nagai, Kiyoshi

    2017-06-01

    Spliceosomal proteins Hsh49p and Cus1p are components of SF3b, which together with SF3a, Msl1p/Lea1p, Sm proteins, and U2 snRNA, form U2 snRNP, which plays a crucial role in pre-mRNA splicing. Hsh49p, comprising two RRMs, forms a heterodimer with Cus1p. We determined the crystal structures of Saccharomyces cerevisiae full-length Hsh49p as well as its RRM1 in complex with a minimal binding region of Cus1p (residues 290-368). The structures show that the Cus1 fragment binds to the α-helical surface of Hsh49p RRM1, opposite the four-stranded β-sheet, leaving the canonical RNA-binding surface available to bind RNA. Hsh49p binds the 5' end region of U2 snRNA via RRM1. Its affinity is increased in complex with Cus1(290-368)p, partly because an extended RNA-binding surface forms across the protein-protein interface. The Hsh49p RRM1-Cus1(290-368)p structure fits well into cryo-EM density of the B(act) spliceosome, corroborating the biological relevance of our crystal structure. © 2017 van Roon et al.; Published by Cold Spring Harbor Laboratory Press for the RNA Society.

  20. Pendant-armed Unsymmetrical Aza-macrocycles: Syntheses,Coordination Behavior and Crystal Structure of a Dinuclear Cadmium Complex

    Institute of Scientific and Technical Information of China (English)

    TAO,Jing-Chao(陶京朝); LIAO,Xin-Cheng(廖新成); WANG,Xing-Wang(王兴旺); DU,Chen-Xia(杜晨霞)

    2002-01-01

    Two nsymmetrical tetradentate aza-macrocycles with side arms attached to the N3sp atoms, L1 and L2, as well as their complexes with different metal cations were synthesized and characterized by EA, UV, IR, 1H NMR and MS spectra. Both the two ligands can efficiently transport alkali and transition metal cations across an organic membrane with high selectivity ratio. The structure of a dinuclear Cd(Ⅱ)complex [L1@(CdCl2)2] was elucdated by X-ray crystallography and was solved by the heavy-atom method to afinal R value of 0.029 for 3084reflections with |F| >3σ(I). In the exo-structore of the dinuclear complex each cadmium atom is five-coordinated, bonding to three N atoms and two chlorine atoms.

  1. Crystal Structure of the Human Pol α B Subunit in Complex with the C-terminal Domain of the Catalytic Subunit.

    Science.gov (United States)

    Suwa, Yoshiaki; Gu, Jianyou; Baranovskiy, Andrey G; Babayeva, Nigar D; Pavlov, Youri I; Tahirov, Tahir H

    2015-06-05

    In eukaryotic DNA replication, short RNA-DNA hybrid primers synthesized by primase-DNA polymerase α (Prim-Pol α) are needed to start DNA replication by the replicative DNA polymerases, Pol δ and Pol ϵ. The C terminus of the Pol α catalytic subunit (p180C) in complex with the B subunit (p70) regulates the RNA priming and DNA polymerizing activities of Prim-Pol α. It tethers Pol α and primase, facilitating RNA primer handover from primase to Pol α. To understand these regulatory mechanisms and to reveal the details of human Pol α organization, we determined the crystal structure of p70 in complex with p180C. The structured portion of p70 includes a phosphodiesterase (PDE) domain and an oligonucleotide/oligosaccharide binding (OB) domain. The N-terminal domain and the linker connecting it to the PDE domain are disordered in the reported crystal structure. The p180C adopts an elongated asymmetric saddle shape, with a three-helix bundle in the middle and zinc-binding modules (Zn1 and Zn2) on each side. The extensive p180C-p70 interactions involve 20 hydrogen bonds and a number of hydrophobic interactions resulting in an extended buried surface of 4080 Å(2). Importantly, in the structure of the p180C-p70 complex with full-length p70, the residues from the N-terminal to the OB domain contribute to interactions with p180C. The comparative structural analysis revealed both the conserved features and the differences between the human and yeast Pol α complexes.

  2. Trialkylphosphine-stabilized copper(I) gallium(III) phenylchalcogenolate complexes: crystal structures and generation of ternary semiconductors by thermolysis.

    Science.gov (United States)

    Kluge, Oliver; Krautscheid, Harald

    2012-06-18

    A series of organometallic trialkylphosphine-stabilized copper gallium phenylchalcogenolate complexes [(R(3)P)(m)Cu(n)Me(2-x)Ga(EPh)(n+x+1)] (R = Me, Et, (i)Pr, (t)Bu; E = S, Se, Te; x = 0, 1) has been prepared and structurally characterized by X-ray diffraction. From their molecular structures three groups of compounds can be distinguished: ionic compounds, ring systems, and cage structures. All these complexes contain one gallium atom bound to one or two methyl groups, whereas the number of copper atoms, and therefore the nuclearity of the complexes, is variable and depends mainly on size and amount of phosphine ligand used in synthesis. The Ga-E bonds are relatively rigid, in contrast to flexible Cu-E bonds. The lengths of the latter are controlled by the coordination number and steric influences. The Ga-E bond lengths depend systematically on the number of methyl groups bound to the gallium atom, with somewhat shorter bonds in monomethyl compounds compared to dimethyl compounds. Quantum chemical computations reproduce this trend and show furthermore that the rotation of one phenyl group around the Ga-E bond is a low energy process with two distinct minima, corresponding to two different conformations found experimentally. Mixtures of different types of chalcogen atoms on molecular scale are possible, and then ligand exchange reactions in solution lead to mixed site occupation. In thermogravimetric studies the complexes were converted into the ternary semiconductors CuGaE(2). The thermolysis reaction is completed at temperatures between 250 and 400 °C, typically with lower temperatures for the heavier chalcogens. Because of significant release of Me(3)Ga during the thermolysis process, and especially in case of copper excess in the precursor complexes, binary copper chalcogenides are obtained as additional thermolysis products. Quaternary semiconductors can be obtained from mixed chalcogen precursors.

  3. Photonic Crystal Laser Accelerator Structures

    Energy Technology Data Exchange (ETDEWEB)

    Cowan, Benjamin M

    2003-05-21

    Photonic crystals have great potential for use as laser-driven accelerator structures. A photonic crystal is a dielectric structure arranged in a periodic geometry. Like a crystalline solid with its electronic band structure, the modes of a photonic crystal lie in a set of allowed photonic bands. Similarly, it is possible for a photonic crystal to exhibit one or more photonic band gaps, with frequencies in the gap unable to propagate in the crystal. Thus photonic crystals can confine an optical mode in an all-dielectric structure, eliminating the need for metals and their characteristic losses at optical frequencies. We discuss several geometries of photonic crystal accelerator structures. Photonic crystal fibers (PCFs) are optical fibers which can confine a speed-of-light optical mode in vacuum. Planar structures, both two- and three-dimensional, can also confine such a mode, and have the additional advantage that they can be manufactured using common microfabrication techniques such as those used for integrated circuits. This allows for a variety of possible materials, so that dielectrics with desirable optical and radiation-hardness properties can be chosen. We discuss examples of simulated photonic crystal structures to demonstrate the scaling laws and trade-offs involved, and touch on potential fabrication processes.

  4. Crystal structure of fipronil

    Directory of Open Access Journals (Sweden)

    Hyunjin Park

    2017-10-01

    Full Text Available The title compound, C12H4Cl2F6N4OS {systematic name: 5-amino-1-[2,6-dichloro-4-(trifluoromethylphenyl]-4-[(trifluoromethanesulfinyl]-1H-pyrazole-3-carbonitrile}, is a member of the phenylpyrazole group of acaricides, and one of the phenylpyrazole group of insecticides. The dihedral angle between the planes of the pyrazole and benzene rings is 89.03 (9°. The fluorine atoms of the trifluoromethyl substituent on the benzene ring are disordered over two sets of sites, with occupancy ratios 0.620 (15:0.380 (15. In the crystal, C—N...π interactions [N...ring centroid = 3.607 (4 Å] together with N—H...N and C—H...F hydrogen bonds form a looped chain structure along [10\\overline{1}]. Finally, N—H...O hydrogen bonds and C—Cl...π interactions [Cl...ring centroid = 3.5159 (16 Å] generate a three-dimensional structure. Additionally, there are a short intermolecular F... F contacts present.

  5. Synthesis, Crystal Structure and Electrochemical Properties of a Cadmium(II) Complex with α-Furoic Acid and 1,10-Phenanthroline

    Institute of Scientific and Technical Information of China (English)

    ZHANG Shao-Hua; LI Chang-Hong; LI Wei; YANG Ying-Qun

    2008-01-01

    A new cadmium complex [Cd(phen)3]·(ClO4)2·(α-FRA)·(H2O)3 was prepared by self-assembly of α-furoic acid, 1,10-phenanthroline (phen), and cadmium perchlorate. It crystal- lizes in the monoclinic system, space group P21/n, with a = 1.28130(15), b = 2.5957(3), c = 1.35449(16) nm, β = 109.395(2)o, V = 4.2492(9) nm3, Dc = 1.491 g/cm3, Z = 4, F(000) = 1926, GOOF = 1.023, the final R = 0.0729 and wR = 0.2086. The crystal structure analysis indicates that the cadmium ion is coordinated with six nitrogen atoms from six 1,10-phenanthroline molecules, giving a distorted octahedral coordination geometry. The cyclic voltametric behavior of the com- plex was also investigated.

  6. Synthesis, characterization, crystal structure, DNA- and HSA-binding studies of a dinuclear Schiff base Zn(II) complex derived from 2-hydroxynaphtaldehyde and 2-picolylamine

    Science.gov (United States)

    Kazemi, Zahra; Rudbari, Hadi Amiri; Mirkhani, Valiollah; Sahihi, Mehdi; Moghadam, Majid; Tangestaninejad, Sharam; Mohammadpoor-Baltork, Iraj

    2015-09-01

    A tridentate Schiff base ligand NNO donor (HL: 1-((E)-((pyridin-2-yl)methylimino)methyl)naphthalen-2-ol was synthesized from condensation of 2-hydroxynaphtaldehyde and 2-picolylamine. Zinc complex, Zn2L2(NO3)2, was prepared from reaction of Zn(NO3)2 and HL at ambient temperature. The ligand and complex were characterized by FT-IR, 1H NMR, 13C NMR and elemental analysis (CHN). Furthermore, the structure of dinuclear Zn(II) complex was determined by single crystal X-ray analysis. The complex, Zn2L2(NO3)2, is centrosymmetric dimer in which deprotonated phenolates bridge the two Zn(II) atoms and link the two halves of the dimer. In the structure, Zinc(II) ions have a highly distorted six-coordinate structure bonded to two oxygen atoms from a bidentate nitrate group, the pyridine nitrogen, an amine nitrogen and phenolate oxygens. The interaction of dinuclear Zn(II) complex with fish sperm DNA (FS-DNA) and HSA was investigated under physiological conditions using fluorescence quenching, UV-Vis spectroscopy, molecular dynamics simulation and molecular docking methods. The estimated binding constants for the DNA-complex and HSA-complex were (3.60 ± 0.18) × 104 M-1 and (1.35 ± 0.24) × 104 M-1, respectively. The distance between dinuclear Zn(II) complex and HSA was obtained based on the Förster's theory of non-radiative energy transfer. Molecular docking studies revealed the binding of dinuclear Zn(II) complex to the major groove of FS-DNA and IIA site of protein by formation of hydrogen bond, π-cation and hydrophobic interactions.

  7. Syntheses, crystal structures, and characterization of three 1D, 2D and 3D complexes based on mixed multidentate N- and O-donor ligands

    Energy Technology Data Exchange (ETDEWEB)

    Yang, Huai-Xia, E-mail: yanghuaixia886@163.com [Pharmacy College, Henan University of Traditional Chinese Medicine, Zhengzhou 450008 (China); Liang, Zhen; Hao, Bao-Lian [Pharmacy College, Henan University of Traditional Chinese Medicine, Zhengzhou 450008 (China); Meng, Xiang-Ru, E-mail: mxr@zzu.edu.cn [The College of Chemistry and Molecular Engineering, Zhengzhou University, Zhengzhou 450001 (China)

    2014-10-15

    Three new 1D to 3D complexes, namely, ([Ni(btec)(Himb){sub 2}(H{sub 2}O){sub 2}]·6H{sub 2}O){sub n} (1), ([Cd(btec){sub 0.5}(imb)(H{sub 2}O)]·1.5H{sub 2}O){sub n} (2), and ([Zn(btec){sub 0.5}(imb)]·H{sub 2}O){sub n} (3) (H{sub 4}btec=1,2,4,5-benzenetetracarboxylic acid, imb=2-(1H-imidazol-1-methyl)-1H-benzimidazole) have been synthesized by adjusting the central metal ions. Single-crystal X-ray diffraction analyses reveal that complex 1 possesses a 1D chain structure which is further extended into the 3D supramolecular architecture via hydrogen bonds. Complex 2 features a 2D network with Schla¨fli symbol (5{sup 3}·6{sup 2}·7)(5{sup 2}·6{sup 4}). Complex 3 presents a 3D framework with a point symbol of (4·6{sup 4}·8)(4{sup 2}·6{sup 2}·8{sup 2}). Moreover, their IR spectra, PXRD patterns, thermogravimetric curves, and luminescent emissions were studied at room temperature. - Graphical abstract: Three new 1D to 3D complexes with different structural and topological motifs have been obtained by modifying the central metal ions. Additionally, their IR, TG analyses and fluorescent properties are also investigated. - Highlights: • Three complexes based on mixed multidentate N- and O-donor ligands. • The complexes are characterized by IR, luminescence and TGA techniques. • Benzenetetracarboxylates display different coordination modes in complexes 1–3. • Changing the metal ions can result in complexes with completely different structures.

  8. Computational analysis of BACE1-ligand complex crystal structures and linear discriminant analysis for identification of BACE1 inhibitors with anti P-glycoprotein binding property.

    Science.gov (United States)

    Manoharan, Prabu; Chennoju, Kiranmai; Ghoshal, Nanda

    2017-01-12

    More than 100 years of research on Alzheimer's disease didn't yield a potential cure for this dreadful disease. Poor Blood Brain Barrier (BBB) permeability and P-glycoprotein binding of BACE1 inhibitors are the major causes for the failure of these molecules during clinical trials. The design of BACE1 inhibitors with a balance of sufficient affinity to the binding site and little or no interaction with P-glycoproteins is indispensable. Identification and understanding of protein-ligand interactions are essential for ligand optimization process. Structure-based drug design (SBDD) efforts led to a steady accumulation of BACE1-ligand crystal complexes in the PDB. This study focuses on analyses of 153 BACE1-ligand complexes for the direct contacts (hydrogen bonds and weak interactions) observed between protein and ligand and indirect contacts (water-mediated hydrogen bonds), observed in BACE1-ligand complex crystal structures. Intraligand hydrogen bonds were analyzed, with focus on ligand P-glycoprotein efflux. The interactions are dissected specific to subsites in the active site and discussed. The observed protein-ligand and intraligand interactions were used to develop the linear discriminant model for the identification of BACE1 inhibitors with less or no P-glycoprotein binding property. Excellent statistical results and model's ability to correctly predict a new data-set with an accuracy of 92% is achieved. The results are retrospectively analyzed to give input for the design of potential BACE1 inhibitors.

  9. Synthesis and crystal structure of the trimetallic erbium tetrahydride complex[Li(THF)4][{(ButCp)2Er(μ-H)}3-(μ3-H)

    Institute of Scientific and Technical Information of China (English)

    YAO Yingming; SONG Sheping; SHEN Qi; HU Jingyu; LIN Yonghua

    2004-01-01

    Reaction of [(ButCp)2Er(. Μ-Cl)]2 with ButLi in 1: 1 molar ratio in THF at -78C, after work-up, afforded the trimetallic erbium tetrahydride complex [Li(THF)4][{(ButCp)2Er(μ-H)}3(μ3-H)] (1) by β-hydrogen elimination reaction. Crystal structure determination reveals that complex 1 has discrete ion pair structure. The anion is composed of three (ButCp)2Er units to form a triangle array connected by three bridged hydrogen atoms, and the fourth hydrogen atom coordinated to three Er3+ ions. The coordination number for each Er3+ ion is 9.

  10. Tris dithiocarbamate of Co(III) complexes: Synthesis, characterization, thermal decomposition studies and experimental and theoretical studies on their crystal structures

    Science.gov (United States)

    Sonia, Ayyavoo Sait; Bhaskaran, Ramalingam

    2017-04-01

    New homoleptic complexes of the form [Co(L1)3] & [Co(L2)3] where L1 = (ethylaminoethanol dithiocarbamate) 1 and L2 = (methylaminoethanol dithiocarbamate) 2 have been prepared and characterized by elemental analysis, IR, UV-visible absorption spectra, Cyclic voltammetry,1H and C13 NMR. The thermal properties were studied using a simultaneous thermal analyzer, and showed two main steps of decomposition. In addition, structures for 1 and 2 have been elucidated by X-ray crystallography. The single-crystal X-ray analysis for both the complexes showed distorted octahedral geometry. The optimized molecular structure, natural bond orbital analysis, electrostatic potential map, HOMO-LUMO energies, molecular properties, and atomic charges of these molecules have been studied by performing DFT/B3LYP/6-31G(d,p) level of theory in gas phase.

  11. A novel copper (II) complex containing a tetradentate Schiff base: Synthesis, spectroscopy, crystal structure, DFT study, biological activity and preparation of its nano-sized metal oxide

    Science.gov (United States)

    Tohidiyan, Zeinab; Sheikhshoaie, Iran; Khaleghi, Mouj; Mague, Joel T.

    2017-04-01

    A new nano-sized copper (II) complex, [Cu(L)] with a tetra dentate Schiff base ligand, 2-((E)-(2-(E-5- bromo-2-hydroxybezenylideneamino) methyl)-4-bromophenol [H2L] was prepared by the reaction between of Cu (CH3COO)2·2H2O and (H2L) ligand with the ratio of 1:1, at the present of triethylamine by sonochemical method. The structure of [Cu (L)] complex was determined by FT-IR, UV-Vis, FESEM and molar conductivity. The structure of [Cu (L)] complex was characterized by single crystal X-ray diffraction. The geometry of [Cu (L)] complex was optimized using density functional theory (DFT) method with the B3LYP/6-31(d) level of theory. The calculated bond lengths and bond angles are in good agreement with the X-ray data. This complex was used as a novel precursor for preparing of CuO nano particles by the thermal decomposition method. The antibacterial activities of [H2L] ligand, nano-sized [Cu (L)] complex and nano-sized CuO have been screened against various strains of bacteria. According to the results, nano-sized CuO can be considered as an appropriate antibiotic agent.

  12. Metal Complexes of New Bioactive Pyrazolone Phenylhydrazones; Crystal Structure of 4-Acetyl-3-methyl-1-phenyl-2-pyrazoline-5-one phenylhydrazone Ampp-Ph

    Directory of Open Access Journals (Sweden)

    Omoruyi G. Idemudia

    2016-05-01

    Full Text Available The condensation reaction of phenylhydrazine and dinitrophenylhydrazine with 4-acetyl and 4-benzoyl pyrazolone precipitated air-stable acetyldinitrophenylhydrazone Ampp-Dh, benzoylphenylhydrazone Bmpp-Ph and benzoyldinitrophenylhydrazone Bmpp-Dh in their keto imine form; a study inspired by the burning interest for the development of new bioactive materials with novel properties that may become alternative therapeutic agents. Elemental analysis, FTIR, 1H, and 13C NMR, and mass spectroscopy have been used to justify their proposed chemical structures, which were in agreement with the single crystal structure of Bmpp-Dh earlier reported according to X-ray crystallography. The single crystal structure of 4-acetyl-3-methyl-1-phenyl--pyrazoline-5-one phenylhydrazone Ampp-Ph, which crystallizes in a triclinic crystal system with a P-1 (No. 2 space group is presented. Octahedral Mn(II, Ni(II, Co(II, and Cu(II complexes of these respective ligands with two molecules each of the bidentate Schiff base, coordinating to the metal ion through the azomethine nitrogen C=N and the keto oxygen C=O, which were afforded by the reaction of aqueous solutions of the corresponding metal salts with the ligands are also reported. Their identity and proposed structures were according to elemental analysis, FTIR spectroscopy, UV-VIS spectrophotometry (electronic spectra and Bohr magnetic moments, as well as thermogravimetric analysis (TGA results. A look at the antibacterial and antioxidant activities of synthesized compounds using the methods of the disc diffusion against some selected bacterial isolates and 1,1-diphenyl-2-picryl-hydrazil (DPPH respectively, showed biological activities in relation to employed standard medicinal drugs.

  13. Metal Complexes of New Bioactive Pyrazolone Phenylhydrazones; Crystal Structure of 4-Acetyl-3-methyl-1-phenyl-2-pyrazoline-5-one phenylhydrazone Ampp-Ph.

    Science.gov (United States)

    Idemudia, Omoruyi G; Sadimenko, Alexander P; Hosten, Eric C

    2016-05-18

    The condensation reaction of phenylhydrazine and dinitrophenylhydrazine with 4-acetyl and 4-benzoyl pyrazolone precipitated air-stable acetyldinitrophenylhydrazone Ampp-Dh, benzoylphenylhydrazone Bmpp-Ph and benzoyldinitrophenylhydrazone Bmpp-Dh in their keto imine form; a study inspired by the burning interest for the development of new bioactive materials with novel properties that may become alternative therapeutic agents. Elemental analysis, FTIR, ¹H, and (13)C NMR, and mass spectroscopy have been used to justify their proposed chemical structures, which were in agreement with the single crystal structure of Bmpp-Dh earlier reported according to X-ray crystallography. The single crystal structure of 4-acetyl-3-methyl-1-phenyl--pyrazoline-5-one phenylhydrazone Ampp-Ph, which crystallizes in a triclinic crystal system with a P-1 (No. 2) space group is presented. Octahedral Mn(II), Ni(II), Co(II), and Cu(II) complexes of these respective ligands with two molecules each of the bidentate Schiff base, coordinating to the metal ion through the azomethine nitrogen C=N and the keto oxygen C=O, which were afforded by the reaction of aqueous solutions of the corresponding metal salts with the ligands are also reported. Their identity and proposed structures were according to elemental analysis, FTIR spectroscopy, UV-VIS spectrophotometry (electronic spectra) and Bohr magnetic moments, as well as thermogravimetric analysis (TGA) results. A look at the antibacterial and antioxidant activities of synthesized compounds using the methods of the disc diffusion against some selected bacterial isolates and 1,1-diphenyl-2-picryl-hydrazil (DPPH) respectively, showed biological activities in relation to employed standard medicinal drugs.

  14. Cyanide bridged hetero-metallic polymeric complexes: Syntheses, vibrational spectra, thermal analyses and crystal structures of complexes [M(1,2-dmi)2Ni(μ-CN)4]n (M = Zn(II) and Cd(II))

    Science.gov (United States)

    Kürkçüoğlu, Güneş Süheyla; Sayın, Elvan; Şahin, Onur

    2015-12-01

    Two cyanide bridged hetero-metallic complexes of general formula, [M(1,2-dmi)2Ni(μ-CN)4]n (1,2-dmi = 1,2-dimethylimidazole and M = Zn(II) or Cd(II)) have been synthesized and characterized by vibrational (FT-IR and Raman) spectroscopy, single crystal X-ray diffraction, thermal analyses and elemental analyses. The crystallographic analyses reveal that the complexes, [Zn(1,2-dmi)2Ni(μ-CN)4] (1) and [Cd(1,2-dmi)2Ni(μ-CN)4] (2), have polymeric 2D networks. In the complexes, four cyanide groups of [Ni(CN)4]2- coordinated to the adjacent M(II) ions and distorted octahedral geometries of complexes are completed by two nitrogen atoms of trans 1,2-dmi ligands. The structures of 1 and 2 are similar and linked via intermolecular hydrogen bonding, C-H⋯Ni interactions to give rise to 3D networks. Vibration assignments are given for all the observed bands and the spectral features also supported to the crystal structures of heteronuclear complexes. The FT-IR and Raman spectra of the complexes are very much consistent with the structural data presented.

  15. The 1.4 Å Crystal Structure of the Class D [beta]-Lactamase OXA-1 Complexed with Doripenem

    Energy Technology Data Exchange (ETDEWEB)

    Schneider, Kyle D.; Karpen, Mary E.; Bonomo, Robert A.; Leonard, David A.; Powers, Rachel A.; (Grand Valley); (Case Western U.-Med)

    2010-01-12

    The clinical efficacy of carbapenem antibiotics depends on their resistance to the hydrolytic action of {beta}-lactamase enzymes. The structure of the class D {beta}-lactamase OXA-1 as an acyl complex with the carbapenem doripenem was determined to 1.4 {angstrom} resolution. Unlike most class A and class C carbapenem complexes, the acyl carbonyl oxygen in the OXA-1-doripenem complex is bound in the oxyanion hole. Interestingly, no water molecules were observed in the vicinity of the acyl linkage, providing an explanation for why carbapenems inhibit OXA-1. The side chain amine of K70 remains fully carboxylated in the acyl structure, and the resulting carbamate group forms a hydrogen bond to the alcohol of the 6{alpha}-hydroxyethyl moiety of doripenem. The carboxylate attached to the {beta}-lactam ring of doripenem is stabilized by a salt bridge to K212 and a hydrogen bond with T213, in lieu of the interaction with an arginine side chain found in most other {beta}-lactamase-{beta}-lactam complexes (e.g., R244 in the class A member TEM-1). This novel set of interactions with the carboxylate results in a major shift of the carbapenem's pyrroline ring compared to the structure of the same ring in meropenem bound to OXA-13. Additionally, bond angles of the pyrroline ring suggest that after acylation, doripenem adopts the {Delta}{sup 1} tautomer. These findings provide important insights into the role that carbapenems may have in the inactivation process of class D {beta}-lactamases.

  16. Crystal Structure of a Complex between Amino and Carboxy Terminal Fragments of mDia1: Insights into Autoinhibition of Diaphanous-Related Formins

    Energy Technology Data Exchange (ETDEWEB)

    Nezami, A.; Poy, F; Toms, A; Zheng, W; Eck, M

    2010-01-01

    Formin proteins direct the nucleation and assembly of linear actin filaments in a variety of cellular processes using their conserved formin homology 2 (FH2) domain. Diaphanous-related formins (DRFs) are effectors of Rho-family GTPases, and in the absence of Rho activation they are maintained in an inactive state by intramolecular interactions between their regulatory N-terminal region and a C-terminal segment referred to as the DAD domain. Although structures are available for the isolated DAD segment in complex with the interacting region in the N-terminus, it remains unclear how this leads to inhibition of actin assembly by the FH2 domain. Here we describe the crystal structure of the N-terminal regulatory region of formin mDia1 in complex with a C-terminal fragment containing both the FH2 and DAD domains. In the crystal structure and in solution, these fragments form a tetrameric complex composed of two interlocking N+C dimers. Formation of the tetramer is likely a consequence of the particular N-terminal construct employed, as we show that a nearly full-length mDia1 protein is dimeric, as are other autoinhibited N+C complexes containing longer N-terminal fragments. The structure provides the first view of the intact C-terminus of a DRF, revealing the relationship of the DAD to the FH2 domain. Delineation of alternative dimeric N+C interactions within the tetramer provides two general models for autoinhibition in intact formins. In both models, engagement of the DAD by the N-terminus is incompatible with actin filament formation on the FH2, and in one model the actin binding surfaces of the FH2 domain are directly blocked by the N-terminus.

  17. Synthesis, Crystal Structure and Characterization of a One-dimensional Supramolecular Rare Earth Complex of N-(6-(4-Methylpyridinyl))ketoacetamide

    Institute of Scientific and Technical Information of China (English)

    XU Li; TANG Kuan-Zhen; MA Yu-Fei; TANG Yu; TAN Min-Yu

    2007-01-01

    A one-dimensional (1D) supramolecular rare earth complex [Nd(NO3)2L2-(C3H6O)][NdL(NO3)4]} (L=N-(6-(4-methylpyridinyl))ketoacetamide) has been prepared and characterized by elemental analysis, IR and electronic spectroscopy, and single-crystal X-ray diffraction. The crystal crystallizes in the triclinic system, space group P-1 with a=0.9146(6), b=1.2581(8), c=2.2316(14) nm, α=99.352(10),β=97.209(9), γ=103.935(9)°, V=2.422(3) nm3, Dc=1.776 g/cm3, C33H42N12Nd2O25, Mr=1295.27, Z=2, F(000)=1288, μ=2.217 mm-1, R=0.0508and wR=0.1046 for 5173 observed reflections (I > 2σ(I)). In the structure of the title complex,one-dimensional supramolecular double-chains are formed by intermolecular hydrogen bonding interactions.

  18. Metal complexes of salicylhydroxamic acid (H2Sha), anthranilic hydroxamic acid and benzohydroxamic acid. Crystal and molecular structure of [Cu(phen)2(Cl)]Cl x H2Sha, a model for a peroxidase-inhibitor complex.

    Science.gov (United States)

    O'Brien, E C; Farkas, E; Gil, M J; Fitzgerald, D; Castineras, A; Nolan, K B

    2000-04-01

    Stability constants of iron(III), copper(II), nickel(II) and zinc(II) complexes of salicylhydroxamic acid (H2Sha), anthranilic hydroxamic acid (HAha) and benzohydroxamic acid (HBha) have been determined at 25.0 degrees C, I=0.2 mol dm(-3) KCl in aqueous solution. The complex stability order, iron(III) > copper(II) > nickel(II) approximately = zinc(II) was observed whilst complexes of H2Sha were found to be more stable than those of the other two ligands. In the preparation of ternary metal ion complexes of these ligands and 1,10-phenanthroline (phen) the crystalline complex [Cu(phen)2(Cl)]Cl x H2Sha was obtained and its crystal structure determined. This complex is a model for hydroxamate-peroxidase inhibitor interactions.

  19. Synthesis and Crystal Structure of a New 2D Honeycomb-like Cadmium(Ⅱ) Complex with Tripodal Ligand

    Institute of Scientific and Technical Information of China (English)

    SUN,Wei-Yin(孙为银); FAN,Jian(樊健); OKAMURA,Taka-aki(罔村高明); TANG,Wen-Xia(唐雯霞); UEYAMA,Norikazu(上山憲一)

    2002-01-01

    Anew cadmium(Ⅱ) coordination polymer, [Cd(TITMB)2]-(SO4) @ 21H2O, where TITMB = 1, 3, 5-tris (imidazol-1-yl-methyl)-2,4,6-trimethylbenzene, was obtained by self-assembly of tripodal ligand TITMB with CdSO4@2.7H2O in acetonitrile,and characterized by X-ray crystallography. The crystal data belongs to monoclinic space group Cc with cell parameters a =1.16891(4) nm, b =2.06671(6) nm, c =2.48185(7) nm, β=97.8560(10)°, R = 0.0487, wR = 0.1211. The results of structure analysis indicate that each TITMB ligand coordinates three metal atoms and in turn each Cd(Ⅱ) atom with octahedral coordination geometry connects six nitrogen atoms of imidazole group from six different TITMB ligands to produce a 2D honeycomb network structure. There are a lot of water molecules linked by hydrogen bonds and occupied the channels formed intra- and inter-sheets.

  20. Crystal structure of the human FOXO3a-DBD/DNA complex suggests the effects of post-translational modification.

    Science.gov (United States)

    Tsai, Kuang-Lei; Sun, Yuh-Ju; Huang, Cheng-Yang; Yang, Jer-Yen; Hung, Mien-Chie; Hsiao, Chwan-Deng

    2007-01-01

    FOXO3a is a transcription factor of the FOXO family. The FOXO proteins participate in multiple signaling pathways, and their transcriptional activity is regulated by several post-translational mechanisms, including phosphorylation, acetylation and ubiquitination. Because these post-translational modification sites are located within the C-terminal basic region of the FOXO DNA-binding domain (FOXO-DBD), it is possible that these post-translational modifications could alter the DNA-binding characteristics. To understand how FOXO mediate transcriptional activity, we report here the 2.7 A crystal structure of the DNA-binding domain of FOXO3a (FOXO3a-DBD) bound to a 13-bp DNA duplex containing a FOXO consensus binding sequence (GTAAACA). Based on a unique structural feature in the C-terminal region and results from biochemical and mutational studies, our studies may explain how FOXO-DBD C-terminal phosphorylation by protein kinase B (PKB) or acetylation by cAMP-response element binding protein (CBP) can attenuate the DNA-binding activity and thereby reduce transcriptional activity of FOXO proteins. In addition, we demonstrate that the methyl groups of specific thymine bases within the consensus sequence are important for FOXO3a-DBD recognition of the consensus binding site.

  1. Prediction of molecular crystal structures

    CERN Document Server

    Beyer, T

    2001-01-01

    The ab initio prediction of molecular crystal structures is a scientific challenge. Reliability of first-principle prediction calculations would show a fundamental understanding of crystallisation. Crystal structure prediction is also of considerable practical importance as different crystalline arrangements of the same molecule in the solid state (polymorphs)are likely to have different physical properties. A method of crystal structure prediction based on lattice energy minimisation has been developed in this work. The choice of the intermolecular potential and of the molecular model is crucial for the results of such studies and both of these criteria have been investigated. An empirical atom-atom repulsion-dispersion potential for carboxylic acids has been derived and applied in a crystal structure prediction study of formic, benzoic and the polymorphic system of tetrolic acid. As many experimental crystal structure determinations at different temperatures are available for the polymorphic system of parac...

  2. Crystal packing and hydrogen bonding in platinum(II) nucleotide complexes: X-ray crystal structure of [Pt(MeSCH(2)CH(2)SMe)(5'-GMP-N7)(2)].6H(2)O.

    Science.gov (United States)

    Djuran, Milos I; Milinkovic, Snezana U; Habtemariam, Abraha; Parsons, Simon; Sadler, Peter J

    2002-02-01

    We have synthesised the complex [Pt(CH(3)SCH(2)CH(2)SCH(3))(5'-GMP-N7)(2)].6H(2)O (1), where 5'-GMP is 5'-guanosine monophosphate, and determined its X-ray crystal structure. Pt(II) adopts a square-planar geometry in which the bases are coordinated head-to-tail (HT) in the Delta configuration. The nucleotide conformation in this complex is almost identical to that in the previously reported complex [Pt(en)(5'-GMP-N7)(2)].9H(2)O (2), in which there is outer sphere macrochelation via intramolecular H-bonding between the monoanionic phosphate groups and the coordinated ethylenediamine (en) NH. It is therefore apparent that intermolecular interactions rather than intramolecular H-bonding determines the orientation of the sugar-phosphate side-chain in these Pt(II) bisnucleotide complexes in the solid state.

  3. Synthesis, Crystal Structure and Nonlinear Optical Properties of Nickel(Ⅱ) Complex with Schiff-base Ligand

    Institute of Scientific and Technical Information of China (English)

    XUE Zhao-Ming(薛照明); ZHANG Xuan-Jun(张宣军); TIAN Yu-Peng(田玉鹏); WU Jie-Ying(吴杰颖); JIANG Min-Hua(蒋民华); FUN Hoong Kun

    2003-01-01

    The nickel(Ⅱ) complex with the new ligand of S-benzyl-β-N-[10-ethylphenothiazine-3-methylene]dithiocarbazate(HL) crystallizes in the triclinic system, space group P1-with a = 7.516(1), b = 11.322(1), c = 13.366(1) (A),α= 84.818(1),β= 81.688(1), y= 76.037(1)°, V= 1090.26(3) (A)3, Z = 1, Dc=1.413 g/cm3, F(000) = 482,μ(MoKα)= 0.774 mm-1 (λ= 0.7103(A)),R = 0.0573 and wR =0.1375 for 3357 observed reflections withⅠ≥ 2σ(Ⅰ). The HL has lost a proton from its tautomeric thiol form and acts as a single negatively charged bidentate ligand coordinating to the nickel ion via the mercapto sulfur and β-nitrogen atoms. The geometry around Ni(Ⅱ) is almost square-planar with two equivalent Ni-N and Ni-S bonds. The nonlinear absorption of HL and NiL2 solutions (in DMF) was measured by open-aperture Z-scan technique at the wavelength of 532 nm.

  4. Syntheses, characterization, crystal structure and manetic properties of copper(Ⅱ) a, b-unsaturated carboxylate complexes with trimethyl phosphate

    Institute of Scientific and Technical Information of China (English)

    2001-01-01

    Two ternary complexes Cu2A4[OP(OCH3)3]2 (A represents CH2== CH-COO- and CH2==C(CH3)-COO-) have been synthesized, and elemental analyses, IR, ESR, electronic reflectance spectra and magnetic studies were carried out. The single crystal X-ray diffraction shows that Cu2[CH2== C(CH3)-COO]4[OP(OCH3)3]2 is triclinic, with space group P, a = 1.05128(13), b = 1.7559(5), c = 1.94479(3) nm, α = 91.263(14)°, β = 102.559(6)°, γ = 106.339(13)°, Z = 4 and R = 0.0668. Two copper(Ⅱ) atoms are bridged by four a-methacrylate groups, and each copper(Ⅱ) atom is coordi-nated with a trimethyl phosphate molecule in the axial posi-tion, forming a distorted square pyramidal configuration. The symmetric center is between the two copper(Ⅱ) atoms, and the Cu-Cu bond distance is 0.26098(6) nm. The Cu-Cu distance and magnetic studies suggest that there exist an-tiferromagnetic interactions between the two copper(Ⅱ) atoms.

  5. Crystal structure, optical, magnetic, and photochemical properties of the complex pentakis(dimethyl sulfoxide) nitrosylchromium(2+) hexafluorophosphate

    DEFF Research Database (Denmark)

    Døssing, Anders Rørbæk; Kadziola, Anders; Dethlefsen, Johannes Wied

    2009-01-01

          The nitrosyl complex [Cr(dmso)5(NO)](PF6)2 (1) (dmso = dimethyl sulfoxide) has been prepared by the solvolysis of [Cr(NCCH3)5(NO)](PF6)2 in neat dmso. The compound 1 crystallizes in orthorhombic space group Pna21 with a = 11.3370(15), b = 24.0790(5), and c = 11.007(3) Å at 122 K...... with an almost linear Cr-N-O angle (176.45(13)°). The optical absorption spectrum of 1 in dmso shows maxima at 734, 567, 450, 413, and 337 nm. Continuous photolysis of 1 with l = 365 - 580 nm light in dmso solution results in a release of NO with quantum yield, F, in the range 0.034 - 0.108 mol×Einstein-1......, g¦ and g-: 1.96725, 1.91881(4) and 1.992763(2); Aiso(53Cr), A¦(53Cr) and A-(53Cr): 22.8´10-4, 39´10-4 and 15.8´10-4cm-1; Aiso(14N), A¦(14N) and A-(14N): 5.9´10-4, 2´10-4 and 7.540(4)´10-4 cm-1. The pseudo-first-order rate constant, k, for the substitution of the dmso ligands in 1 with dmso has been...

  6. Synthesis, crystal structure and spectroscopic properties of a supramolecular zinc(II) complex with N2O2 coordination sphere.

    Science.gov (United States)

    Dong, Wen-Kui; Zhang, Li-Sha; Sun, Yin-Xia; Zhao, Meng-Meng; Li, Gang; Dong, Xiu-Yan

    2014-01-01

    A new hexa-coordinated zinc(II) complex, namely [ZnL(H2O)2]n, with N2O2 coordination sphere (H2L=4,4'-dibromo-6,6'-dichloro-2,2'-[ethylenedioxybis(nitrilomethylidyne)]diphenol) has been synthesized and structurally characterized by elemental analyses, IR, UV-vis spectra and TG-DTA analyses, etc. Crystallographic data are monoclinic, space group P2(1)/c, a=24.634(2)Å, b=10.144(1)Å, c=7.9351(6)Å, β=91.371(2)°, V=1982.4(3)Å(3), Dc=2.099 g/cm(3), Z=4. The zinc(II) complex exhibits a slightly distorted octahedral geometry with halogen-substituted Salen-type bisoxime forming the basal N2O2 coordination sphere and two oxygen atoms from two coordinated water molecules in the axial position. The hydrogen-bonding and π-π stacking interactions have stabilized the zinc(II) complex molecules to form a self-assembling infinite dual metal-water chain-like structure with the nearest Zn⋯Zn distance of 4.954(4)Å.

  7. Synthesis, crystal structures, molecular docking, and in vitro biological activities evaluation of transition metal complexes with 4-(3,4-dichlorophenyl) piperazine-1-carboxylic acid

    Science.gov (United States)

    Chen, Zhi-Jian; Chen, Ya-Na; Xu, Chun-Na; Zhao, Shan-Shan; Cao, Qi-Yue; Qian, Shao-Song; Qin, Jie; Zhu, Hai-Liang

    2016-08-01

    Three novel mononuclear complexes, [MⅡ(L)2·2H2O], (M = Cu, Ni or Cd; HL = 4-(3,4-dichlorophenyl)piperazine-1-carboxylic acid)were synthesized and structurally determined by single-crystal X-ray diffraction. Molecular docking study preliminarily revealed that complex 1 had potential urease inhibitory activity. In accordance with the result of calculation, in vitro tests of the inhibitory activities of complexes 1-3 against jack bean urease showed complex 1 (IC50 = 8.17 ± 0.91 μM) had better inhibitory activities than the positive reference acetohydroxamic acid (AHA) (IC50 = 26.99 ± 1.43 μM), while complexes 2 and 3 showed no inhibitory activities., kinetics study was carried out to explore the mechanism of the inhibiting of the enzyme, and the result indicated that complex 1 was a competitive inhibitor of urease. Albumin binding experiment and in vitro toxicity evaluation of complex 1 were implemented to explore its Pharmacological properties.

  8. Pattern information extraction from crystal structures

    Science.gov (United States)

    Okuyan, Erhan; Güdükbay, Uğur; Gülseren, Oğuz

    2007-04-01

    Determining the crystal structure parameters of a material is an important issue in crystallography and material science. Knowing the crystal structure parameters helps in understanding the physical behavior of material. It can be difficult to obtain crystal parameters for complex structures, particularly those materials that show local symmetry as well as global symmetry. This work provides a tool that extracts crystal parameters such as primitive vectors, basis vectors and space groups from the atomic coordinates of crystal structures. A visualization tool for examining crystals is also provided. Accordingly, this work could help crystallographers, chemists and material scientists to analyze crystal structures efficiently. Program summaryTitle of program: BilKristal Catalogue identifier: ADYU_v1_0 Program summary URL:http://cpc.cs.qub.ac.uk/summaries/ADYU_v1_0 Program obtainable from: CPC Program Library, Queen's University of Belfast, N. Ireland Licensing provisions: None Programming language used: C, C++, Microsoft .NET Framework 1.1 and OpenGL Libraries Computer: Personal Computers with Windows operating system Operating system: Windows XP Professional RAM: 20-60 MB No. of lines in distributed program, including test data, etc.:899 779 No. of bytes in distributed program, including test date, etc.:9 271 521 Distribution format:tar.gz External routines/libraries: Microsoft .NET Framework 1.1. For visualization tool, graphics card driver should also support OpenGL Nature of problem: Determining crystal structure parameters of a material is a quite important issue in crystallography. Knowing the crystal structure parameters helps to understand physical behavior of material. For complex structures, particularly, for materials which also contain local symmetry as well as global symmetry, obtaining crystal parameters can be quite hard. Solution method: The tool extracts crystal parameters such as primitive vectors, basis vectors and identify the space group from

  9. Bowl adamanzanes--bicyclic tetraamines: syntheses and crystal structures of complexes with cobalt(III) and chelating coordinated oxo-anions.

    Science.gov (United States)

    Broge, Louise; Søtofte, Inger; Jensen, Kristian; Jensen, Nicolai; Pretzmann, Ulla; Springborg, Johan

    2007-09-14

    Seven cobalt(III) complexes of the macrobicyclic tetraamine ligand [2(4).3(1)]adamanzane ([2(4).3(1)]adz) are reported along with the crystal structure of six of these complexes. The solid state and solution structures are discussed, and a detailed assignment of the NMR spectra of the sulfato complex is provided. Four of the seven complexes contain a chelate coordinating oxo-anion (sulfate, formiate, nitrate, carbonate). Equilibration of these species with the corresponding diaqua complex is generally slow. The rates of equilibration in 5 mol dm(-3) perchloric acid at 25 degrees C have been measured, yielding half lives of 20 min, 10 min and 3 h for the sulfato, formiato and carbonato species respectively. The corresponding reaction for the nitrato complex occurs with a half life of less than 3 min. The concentration acid dissociation constant for the Co([2(4).3(1)]adz)(HCO(3))(2+) ion has been measured to K(a) = 0.33 mol dm(-3) [25 degrees C, I = 2 mol dm(-3)] and K(a) = 0.15 mol dm(-3) [25 degrees C, I = 5 mol dm(-3)]. The propensity for coordination of sulfate was found to be large enough for a quantitative conversion of the carbonato complex to the sulfato complex to occur in 3 mol dm(-3) triflic acid containing a small sulfate contamination. On this basis the decarboxylation in 5 mol dm(-3) triflic acid of the corresponding cobalt(III) carbonato complex of the larger macrobicyclic tetraamine ligand [3(5)]adz was reinvestigated and found to lead to the sulfato complex as well. The difference in exchange rate of the oxo-anion ligands for the cobalt(III) complexes of the two adamanzane ligands is discussed and attributed to fundamental differences in the molecular structure where an inverted configuration of the secondary non-bridged amine groups is seen for the complexes of the larger [3(5)]adz ligand. The high affinity for chelating coordination of oxo-anions for these two cobalt(iii)-adamanzane-moieties is rationalised on basis of the N-Co-N angles. N

  10. THE CRYSTAL STRUCTURE OF DIPHENYLTELLURIUM DIBROMIDE,

    Science.gov (United States)

    TELLURIUM COMPOUNDS, *ORGANOMETALLIC COMPOUNDS, CRYSTAL STRUCTURE , CRYSTAL STRUCTURE , BROMIDES, SYMMETRY(CRYSTALLOGRAPHY), X RAY DIFFRACTION, FOURIER ANALYSIS, LEAST SQUARES METHOD, MOLECULAR STRUCTURE, CHEMICAL BONDS.

  11. REFINEMENT OF THE CRYSTAL STRUCTURE OF GUANIDINIUM ALUMINUM SULFATE HEXAHYDRATE.

    Science.gov (United States)

    FERROELECTRIC CRYSTALS, * CRYSTAL STRUCTURE ), (*GUANIDINES, CRYSTAL STRUCTURE ), (*ALUMINUM COMPOUNDS, CRYSTAL STRUCTURE ), SULFATES, HYDRATES, X RAY DIFFRACTION, CHROMIUM COMPOUNDS, CRYSTAL LATTICES, CHEMICAL BONDS

  12. Demonstration of Crystal Structure.

    Science.gov (United States)

    Neville, Joseph P.

    1985-01-01

    Describes an experiment where equal parts of copper and aluminum are heated then cooled to show extremely large crystals. Suggestions are given for changing the orientation of crystals by varying cooling rates. Students are more receptive to concepts of microstructure after seeing this experiment. (DH)

  13. Crystal structure of oxamyl

    Directory of Open Access Journals (Sweden)

    Eunjin Kwon

    2016-12-01

    Full Text Available The title compound, C7H13N3O3S [systematic name: (Z-methyl 2-dimethylamino-N-(methylcarbamoyloxy-2-oxoethanimidothioate], is an oxime carbamate acaride, insecticide and nematicide. The asymmetric unit comprises two independent molecules, A and B. The dihedral angles between the mean planes [r.m.s. deviations = 0.0017 (A and 0.0016 Å (B] of the acetamide and oxyimino groups are 88.80 (8° for A and 87.05 (8° for B. In the crystal, N/C—H...O hydrogen bonds link adjacent molecules, forming chains along the a axis. The chains are further linked by C—H...O hydrogen bonds, resulting in a three-dimensional network with alternating rows of A and B molecules in the bc plane stacked along the a-axis direction. The structure was refined as an inversion twin with a final BASF parameter of 0.16 (9.

  14. Synthesis and Crystal Structure of a [Cu(HTren)Cl2]ClO4·H2O Complex (Tren = Tris(2-aminoethyl)amine)

    Institute of Scientific and Technical Information of China (English)

    NIU De-Zhong; MA Heng-Jun; GAO Feng; LU Zai-Sheng; CHEN Jiu-Tong

    2006-01-01

    The title complex [Cu(HTren)Cl2]ClO4·H2O (Tren = tris(2-aminoethyl)amine) was crystal (CuC6H21Cl3N4O5) is of triclinic, space group P-1, with a = 8.2689(2), b = 8.4503(3), c=11.6801(4)(A), a = 96.9350(10), β= 108.2440(10), γ = 90.7550(10)°, V= 768.32(4)(A)3, Z= 2, Mr=399.16, Dc= 1.725 g/cm3,μ= 1.962 mm-1, F(000) = 410, T= 293(2) K, the final R = 0.0479 and wR = 0.1339 for 2659 observed reflections with I > 2σ(I). X-ray single-crystal structure analysis reveals that the copper(Ⅱ) atom adopts a slightly distorted square-pyramidal geometry. The distances between Cu and N atoms (N(1), N(2), N(3)) range from 1.975(4) to 2.116(3)(A). The bond lengths of Cu-Cl(1) and Cu-Cl(2) are 2.309(10) and 2.591(10) (A), respectively. The whole crystal presents a three-dimensional network structure by hydrogen bonds.

  15. Mixed-ligand binuclear copper(II) complex of 5-methylsalicylaldehyde and 2,2'-bipyridyl: Synthesis, crystal structure, DNA binding and nuclease activity

    Indian Academy of Sciences (India)

    Perumal Gurumoorthy; Jayaram Ravichandran; Aziz Kalilur Rahiman

    2014-05-01

    A new mixed-ligand binuclear copper(II) complex [Cu(MS)(bpy)]2.(ClO4)2, built of 5-methylsalicylaldehyde and 2,2'-bipyridyl has been synthesized and characterized by using elemental analysis, IR and UV-Vis spectroscopy. Crystal structure of the complex shows that copper(II) ion lies in a square pyramidal coordination environment. The structure consists of two symmetrical half units in which the copper(II) ion of one half unit connected with the phenolate oxygen atom of other half unit along with one perchlorate anion in the crystal lattice as free molecule. Presence of uncoordinated perchlorate anion was also confirmed by IR spectroscopy. Absorption spectroscopy exhibits d-d transition at 628 nm, which further supports the square pyramidal geometry around the copper(II) ions. EPR spectrum of the copper(II) complex at room temperature shows a broad signal without any splitting pattern at ∥ = 2.26, ⊥ = 2.03 and the magnetic moment (eff = 1.31 BM) obtained at room temperature indicate a