Voltage-sensing phosphatase modulation by a C2 domain.
Castle, Paul M; Zolman, Kevin D; Kohout, Susy C
2015-01-01
The voltage-sensing phosphatase (VSP) is the first example of an enzyme controlled by changes in membrane potential. VSP has four distinct regions: the transmembrane voltage-sensing domain (VSD), the inter-domain linker, the cytosolic catalytic domain, and the C2 domain. The VSD transmits the changes in membrane potential through the inter-domain linker activating the catalytic domain which then dephosphorylates phosphatidylinositol phosphate (PIP) lipids. The role of the C2, however, has not been established. In this study, we explore two possible roles for the C2: catalysis and membrane-binding. The Ci-VSP crystal structures show that the C2 residue Y522 lines the active site suggesting a contribution to catalysis. When we mutated Y522 to phenylalanine, we found a shift in the voltage dependence of activity. This suggests hydrogen bonding as a mechanism of action. Going one step further, when we deleted the entire C2 domain, we found voltage-dependent enzyme activity was no longer detectable. This result clearly indicates the entire C2 is necessary for catalysis as well as for modulating activity. As C2s are known membrane-binding domains, we tested whether the VSP C2 interacts with the membrane. We probed a cluster of four positively charged residues lining the top of the C2 and suggested by previous studies to interact with phosphatidylinositol 4,5-bisphosphate [PI(4,5)P2] (Kalli et al., 2014). Neutralizing those positive charges significantly shifted the voltage dependence of activity to higher voltages. We tested membrane binding by depleting PI(4,5)P2 from the membrane using the 5HT2C receptor and found that the VSD motions as measured by voltage clamp fluorometry (VCF) were not changed. These results suggest that if the C2 domain interacts with the membrane to influence VSP function it may not occur exclusively through PI(4,5)P2. Together, this data advances our understanding of the VSP C2 by demonstrating a necessary and critical role for the C2 domain in
The twisted ion-permeation pathway of a resting voltage-sensing domain.
Tombola, Francesco; Pathak, Medha M; Gorostiza, Pau; Isacoff, Ehud Y
2007-02-01
Proteins containing voltage-sensing domains (VSDs) translate changes in membrane potential into changes in ion permeability or enzymatic activity. In channels, voltage change triggers a switch in conformation of the VSD, which drives gating in a separate pore domain, or, in channels lacking a pore domain, directly gates an ion pathway within the VSD. Neither mechanism is well understood. In the Shaker potassium channel, mutation of the first arginine residue of the S4 helix to a smaller uncharged residue makes the VSD permeable to ions ('omega current') in the resting conformation ('S4 down'). Here we perform a structure-guided perturbation analysis of the omega conductance to map its VSD permeation pathway. We find that there are four omega pores per channel, which is consistent with one conduction path per VSD. Permeating ions from the extracellular medium enter the VSD at its peripheral junction with the pore domain, and then plunge into the core of the VSD in a curved conduction pathway. Our results provide a model of the resting conformation of the VSD.
Voltage-gated proton (H(v)1) channels, a singular voltage sensing domain.
Castillo, Karen; Pupo, Amaury; Baez-Nieto, David; Contreras, Gustavo F; Morera, Francisco J; Neely, Alan; Latorre, Ramon; Gonzalez, Carlos
2015-11-14
The main role of voltage-gated proton channels (Hv1) is to extrude protons from the intracellular milieu when, mediated by different cellular processes, the H(+) concentration increases. Hv1 are exquisitely selective for protons and their structure is homologous to the voltage sensing domain (VSD) of other voltage-gated ion channels like sodium, potassium, and calcium channels. In clear contrast to the classical voltage-dependent channels, Hv1 lacks a pore domain and thus permeation necessarily occurs through the voltage sensing domain. Hv1 channels are activated by depolarizing voltages, and increases in internal proton concentration. It has been proposed that local conformational changes of the transmembrane segment S4, driven by depolarization, trigger the molecular rearrangements that open Hv1. However, it is still unclear how the electromechanical coupling is achieved between the VSD and the potential pore, allowing the proton flux from the intracellular to the extracellular side. Here we provide a revised view of voltage activation in Hv1 channels, offering a comparative scenario with other voltage sensing channels domains.
Structural interactions between lipids, water and S1-S4 voltage-sensing domains.
Krepkiy, Dmitriy; Gawrisch, Klaus; Swartz, Kenton J
2012-11-01
Membrane proteins serve crucial signaling and transport functions, yet relatively little is known about their structures in membrane environments or how lipids interact with these proteins. For voltage-activated ion channels, X-ray structures suggest that the mobile voltage-sensing S4 helix would be exposed to the membrane, and functional studies reveal that lipid modification can profoundly alter channel activity. Here, we use solid-state NMR to investigate structural interactions of lipids and water with S1-S4 voltage-sensing domains and to explore whether lipids influence the structure of the protein. Our results demonstrate that S1-S4 domains exhibit extensive interactions with lipids and that these domains are heavily hydrated when embedded in a membrane. We also find evidence for preferential interactions of anionic lipids with S1-S4 domains and that these interactions have lifetimes on the timescale of ≤ 10(-3)s. Arg residues within S1-S4 domains are well hydrated and are positioned in close proximity to lipids, exhibiting local interactions with both lipid headgroups and acyl chains. Comparative studies with a positively charged lipid lacking a phosphodiester group reveal that this lipid modification has only modest effects on the structure and hydration of S1-S4 domains. Taken together, our results demonstrate that Arg residues in S1-S4 voltage-sensing domains reside in close proximity to the hydrophobic interior of the membrane yet are well hydrated, a requirement for carrying charge and driving protein motions in response to changes in membrane voltage.
Regulation of Na(+) channel inactivation by the DIII and DIV voltage-sensing domains.
Hsu, Eric J; Zhu, Wandi; Schubert, Angela R; Voelker, Taylor; Varga, Zoltan; Silva, Jonathan R
2017-03-06
Functional eukaryotic voltage-gated Na(+) (NaV) channels comprise four domains (DI-DIV), each containing six membrane-spanning segments (S1-S6). Voltage sensing is accomplished by the first four membrane-spanning segments (S1-S4), which together form a voltage-sensing domain (VSD). A critical NaV channel gating process, inactivation, has previously been linked to activation of the VSDs in DIII and DIV. Here, we probe this interaction by using voltage-clamp fluorometry to observe VSD kinetics in the presence of mutations at locations that have been shown to impair NaV channel inactivation. These locations include the DIII-DIV linker, the DIII S4-S5 linker, and the DIV S4-S5 linker. Our results show that, within the 10-ms timeframe of fast inactivation, the DIV-VSD is the primary regulator of inactivation. However, after longer 100-ms pulses, the DIII-DIV linker slows DIII-VSD deactivation, and the rate of DIII deactivation correlates strongly with the rate of recovery from inactivation. Our results imply that, over the course of an action potential, DIV-VSDs regulate the onset of fast inactivation while DIII-VSDs determine its recovery.
Sun, Rui-Ning; Gong, Haipeng
2017-03-02
Voltage-gated sodium (NaV) channels play vital roles in the signal transduction of excitable cells. Upon activation of a NaV channel, the change of transmembrane voltage triggers conformational change of the voltage sensing domain, which then elicits opening of the pore domain and thus allows an influx of Na(+) ions. Description of this process with atomistic details is in urgent demand. In this work, we simulated the partial activation process of the voltage sensing domain of a prokaryotic NaV channel using a polarizable force field. We not only observed the conformational change of the voltage sensing domain from resting to preactive state, but also rigorously estimated the free energy profile along the identified reaction pathway. Comparison with the control simulation using an additive force field indicates that voltage-gating thermodynamics of NaV channels may be inaccurately described without considering the electrostatic polarization effect.
MOLECULAR PATHOPHYSIOLOGY AND PHARMACOLOGY OF THE VOLTAGE-SENSING DOMAIN OF NEURONAL ION CHANNELS
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Francesco eMiceli
2015-07-01
Full Text Available Voltage-gated ion channels (VGIC are membrane proteins that switch from a closed to open state in response to changes in membrane potential, thus enabling ion fluxes across the cell membranes. The mechanism that regulate the structural rearrangements occurring in VGIC in response to changes in membrane potential still remains one of the most challenging topic of modern biophysics. Na+, Ca2+ and K+ voltage-gated channels are structurally formed by the assembly of four similar domains, each comprising six transmembrane segments. Each domain can be divided in two main regions: the Pore Module (PM and the Voltage-Sensing Module (VSM. The PM (helices S5 and S6 and intervening linker is responsible for gate opening and ion selectivity; by contrast, the VSM, comprising the first four transmembrane helices (S1-S4, undergoes the first conformational changes in response to membrane voltage. In particular, the S4 segment of each domain, which contains several positively charged residues interspersed with hydrophobic amino acids, is located within the membrane electric field and plays an essential role in voltage sensing. In neurons, specific gating properties of each channel subtype underlie a variety of biological events, ranging from the generation and propagation of electrical impulses, to the secretion of neurotransmitters, to the regulation of gene expression. Given the important functional role played by the VSM in neuronal VGICs, it is not surprising that various VSM mutations affecting the gating process of these channels are responsible for human diseases, and that compounds acting on the VSM have emerged as important investigational tools with great therapeutic potential. In the present review we will briefly describe the most recent discoveries concerning how the VSM exerts its function, how genetically inherited diseases caused by mutations occurring in the VSM affects gating in VGICs, and how several classes of drugs and toxins selectively
Jaślan, D; Mueller, T D; Becker, D; Schultz, J; Cuin, T A; Marten, I; Dreyer, I; Schönknecht, G; Hedrich, R
2016-09-01
The two-pore cation channel TPC1 operates as a dimeric channel in animal and plant endomembranes. Each subunit consists of two homologous Shaker-like halves, with 12 transmembrane domains in total (S1-S6, S7-S12). In plants, TPC1 channels reside in the vacuolar membrane, and upon voltage stimulation, give rise to the well-known slow-activating SV currents. Here, we combined bioinformatics, structure modelling, site-directed mutagenesis, and in planta patch clamp studies to elucidate the molecular mechanisms of voltage-dependent channel gating in TPC1 in its native plant background. Structure-function analysis of the Arabidopsis TPC1 channel in planta confirmed that helix S10 operates as the major voltage-sensing site, with Glu450 and Glu478 identified as possible ion-pair partners for voltage-sensing Arg537. The contribution of helix S4 to voltage sensing was found to be negligible. Several conserved negative residues on the luminal site contribute to calcium binding, stabilizing the closed channel. During evolution of plant TPC1s from two separate Shaker-like domains, the voltage-sensing function in the N-terminal Shaker-unit (S1-S4) vanished.
Exploration of genetically encoded voltage indicators based on a chimeric voltage sensing domain
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Yukiko eMishina
2014-09-01
Full Text Available Deciphering how the brain generates cognitive function from patterns of electrical signals is one of the ultimate challenges in neuroscience. To this end, it would be highly desirable to monitor the activities of very large numbers of neurons while an animal engages in complex behaviours. Optical imaging of electrical activity using genetically encoded voltage indicators (GEVIs has the potential to meet this challenge. Currently prevalent GEVIs are based on the voltage-sensitive fluorescent protein (VSFP prototypical design or on the voltage dependent state transitions of microbial opsins.We recently introduced a new VSFP design in which the voltage-sensing domain (VSD is sandwiched between a FRET pair of fluorescent proteins (termed VSFP-Butterflies and also demonstrated a series of chimeric VSD in which portions of the VSD of Ciona intestinalis voltage-sensitive phosphatase (Ci-VSP are substituted by homologous portions of a voltage-gated potassium channel subunit. These chimeric VSD had faster sensing kinetics than that of the native Ci-VSD. Here, we describe a new set of VSFPs that combine chimeric VSD with the Butterfly structure. We show that these chimeric VSFP-Butterflies can report membrane voltage oscillations of up to 200 Hz in cultured cells and report sensory evoked cortical population responses in living mice. This class of GEVIs may be suitable for imaging of brain rhythms in behaving mammalians.
Transfer of Kv3.1 voltage sensor features to the isolated Ci-VSP voltage-sensing domain.
Mishina, Yukiko; Mutoh, Hiroki; Knöpfel, Thomas
2012-08-22
Membrane proteins that respond to changes in transmembrane voltage are critical in regulating the function of living cells. The voltage-sensing domains (VSDs) of voltage-gated ion channels are extensively studied to elucidate voltage-sensing mechanisms, and yet many aspects of their structure-function relationship remain elusive. Here, we transplanted homologous amino acid motifs from the tetrameric voltage-activated potassium channel Kv3.1 to the monomeric VSD of Ciona intestinalis voltage-sensitive phosphatase (Ci-VSP) to explore which portions of Kv3.1 subunits depend on the tetrameric structure of Kv channels and which properties of Kv3.1 can be transferred to the monomeric Ci-VSP scaffold. By attaching fluorescent proteins to these chimeric VSDs, we obtained an optical readout to establish membrane trafficking and kinetics of voltage-dependent structural rearrangements. We found that motifs extending from 10 to roughly 100 amino acids can be readily transplanted from Kv3.1 into Ci-VSP to form engineered VSDs that efficiently incorporate into the plasma membrane and sense voltage. Some of the functional features of these engineered VSDs are reminiscent of Kv3.1 channels, indicating that these properties do not require interactions between Kv subunits or between the voltage sensing and the pore domains of Kv channels.
Piao, Hong Hua; Rajakumar, Dhanarajan; Kang, Bok Eum; Kim, Eun Ha; Baker, Bradley J
2015-01-07
ArcLight is a genetically encoded fluorescent voltage sensor using the voltage-sensing domain of the voltage-sensing phosphatase from Ciona intestinalis that gives a large but slow-responding optical signal in response to changes in membrane potential (Jin et al., 2012). Fluorescent voltage sensors using the voltage-sensing domain from other species give faster yet weaker optical signals (Baker et al., 2012; Han et al., 2013). Sequence alignment of voltage-sensing phosphatases from different species revealed conserved polar and charged residues at 7 aa intervals in the S1-S3 transmembrane segments of the voltage-sensing domain, suggesting potential coil-coil interactions. The contribution of these residues to the voltage-induced optical signal was tested using a cassette mutagenesis screen by flanking each transmembrane segment with unique restriction sites to allow for the testing of individual mutations in each transmembrane segment, as well as combinations in all four transmembrane segments. Addition of a counter charge in S2 improved the kinetics of the optical response. A double mutation in the S4 domain dramatically reduced the slow component of the optical signal seen in ArcLight. Combining that double S4 mutant with the mutation in the S2 domain yielded a probe with kinetics voltage-sensing domain could potentially lead to fluorescent sensors capable of optically resolving neuronal inhibition and subthreshold synaptic activity.
Oide, Mao; Okajima, Koji; Kashojiya, Sachiko; Takayama, Yuki; Oroguchi, Tomotaka; Hikima, Takaaki; Yamamoto, Masaki; Nakasako, Masayoshi
2016-09-16
Phototropin1 is a blue light (BL) receptor in plants and shows BL-dependent kinase activation. The BL-excited light-oxygen-voltage-sensing domain 2 (LOV2) is primarily responsible for the activation of the kinase domain; however, the molecular mechanism by which conformational changes in LOV2 are transmitted to the kinase domain remains unclear. Here, we investigated BL-induced structural changes of a minimum functional fragment of Arabidopsis phototropin1 composed of LOV2, the kinase domain, and a linker connecting the two domains using small-angle x-ray scattering (SAXS). The fragment existed as a dimer and displayed photoreversible SAXS changes reflected in the radii of gyration of 42.9 Å in the dark and 48.8 Å under BL irradiation. In the dark, the molecular shape reconstructed from the SAXS profiles appeared as two bean-shaped lobes in a twisted arrangement that was 170 Å long, 80 Å wide, and 50 Å thick. The molecular shape under BL became slightly elongated from that in the dark. By fitting the crystal structure of the LOV2 dimer and a homology model of the kinase domain to their inferred shapes, the BL-dependent change could be interpreted as the positional shift in the kinase domain relative to that of the LOV2 dimer. In addition, we found that lysine 475, a functionally important residue, in the N-terminal region of LOV2 plays a critical role in transmitting the structural changes in LOV2 to the kinase domain. The interface between the domains is critical for signaling, suitably changing the structure to activate the kinase in response to conformational changes in the adjoining LOV2.
NMR investigation of the isolated second voltage-sensing domain of human Nav1.4 channel.
Paramonov, A S; Lyukmanova, E N; Myshkin, M Yu; Shulepko, M A; Kulbatskii, D S; Petrosian, N S; Chugunov, A O; Dolgikh, D A; Kirpichnikov, M P; Arseniev, A S; Shenkarev, Z O
2017-03-01
Voltage-gated Na(+) channels are essential for the functioning of cardiovascular, muscular, and nervous systems. The α-subunit of eukaryotic Na(+) channel consists of ~2000 amino acid residues and encloses 24 transmembrane (TM) helices, which form five membrane domains: four voltage-sensing (VSD) and one pore domain. The structural complexity significantly impedes recombinant production and structural studies of full-sized Na(+) channels. Modular organization of voltage-gated channels gives an idea for studying of the isolated second VSD of human skeletal muscle Nav1.4 channel (VSD-II). Several variants of VSD-II (~150a.a., four TM helices) with different N- and C-termini were produced by cell-free expression. Screening of membrane mimetics revealed low stability of VSD-II samples in media containing phospholipids (bicelles, nanodiscs) associated with the aggregation of electrically neutral domain molecules. The almost complete resonance assignment of (13)C,(15)N-labeled VSD-II was obtained in LPPG micelles. The secondary structure of VSD-II showed similarity with the structures of bacterial Na(+) channels. The fragment of S4 TM helix between the first and second conserved Arg residues probably adopts 310-helical conformation. Water accessibility of S3 helix, observed by the Mn(2+) titration, pointed to the formation of water-filled crevices in the micelle embedded VSD-II. (15)N relaxation data revealed characteristic pattern of μs-ms time scale motions in the VSD-II regions sharing expected interhelical contacts. VSD-II demonstrated enhanced mobility at ps-ns time scale as compared to isolated VSDs of K(+) channels. These results validate structural studies of isolated VSDs of Na(+) channels and show possible pitfalls in application of this 'divide and conquer' approach.
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Francesco eMiceli
2011-02-01
Full Text Available Understanding the molecular mechanisms underlying voltage-dependent gating in voltage-gated ion channels (VGICs has been a major effort over the last decades. In recent years, changes in the gating process have emerged as common denominators for several genetically-determined channelopathies affecting heart rhythm (arrhythmias, neuronal excitability (epilepsy, pain or skeletal muscle contraction (periodic paralysis. Moreover, gating changes appear as the main molecular mechanism by which several natural toxins from a variety of species affect ion channel function.In this work, we describe the pathophysiological and pharmacological relevance of the gating process in voltage-gated K+ channels encoded by the Kv7 gene family. After reviewing the current knowledge on the molecular mechanisms and on the structural models of voltage-dependent gating in VGICs, we describe the physiological relevance of these channels, with particular emphasis on those formed by Kv7.2-5 subunits having a well-established role in controlling neuronal excitability in humans. In fact, genetically-determined alterations in Kv7.2 and Kv7.3 genes are responsible for benign familial neonatal convulsions, a rare seizure disorder affecting newborns, and the pharmacological activation of Kv7.2/3 channels can exert antiepileptic activity in humans. Both mutation-triggered channel dysfunction and drug-induced channel activation can occur by impeding or facilitating, respectively, channel sensitivity to membrane voltage and can affect overlapping molecular sites within the voltage-sensing domain of these channels. Thus, understanding the molecular steps involved in voltage-sensing in Kv7 channels will allow to better define the pathogenesis of rare human epilepsy, and to design innovative pharmacological strategies for the treatment of epilepsies and, possibly, other human diseases characterized by neuronal hyperexcitability.
Subbotina, Julia; Yarov-Yarovoy, Vladimir; Lees-Miller, James; Durdagi, Serdar; Guo, Jiqing; Duff, Henry J; Noskov, Sergei Yu
2010-11-01
The hERG1 gene (Kv11.1) encodes a voltage-gated potassium channel. Mutations in this gene lead to one form of the Long QT Syndrome (LQTS) in humans. Promiscuous binding of drugs to hERG1 is known to alter the structure/function of the channel leading to an acquired form of the LQTS. Expectably, creation and validation of reliable 3D model of the channel have been a key target in molecular cardiology and pharmacology for the last decade. Although many models were built, they all were limited to pore domain. In this work, a full model of the hERG1 channel is developed which includes all transmembrane segments. We tested a template-driven de-novo design with ROSETTA-membrane modeling using side-chain placements optimized by subsequent molecular dynamics (MD) simulations. Although backbone templates for the homology modeled parts of the pore and voltage sensors were based on the available structures of KvAP, Kv1.2 and Kv1.2-Kv2.1 chimera channels, the missing parts are modeled de-novo. The impact of several alignments on the structure of the S4 helix in the voltage-sensing domain was also tested. Herein, final models are evaluated for consistency to the reported structural elements discovered mainly on the basis of mutagenesis and electrophysiology. These structural elements include salt bridges and close contacts in the voltage-sensor domain; and the topology of the extracellular S5-pore linker compared with that established by toxin foot-printing and nuclear magnetic resonance studies. Implications of the refined hERG1 model to binding of blockers and channels activators (potent new ligands for channel activations) are discussed.
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Alisher M. Kariev
2015-01-01
Full Text Available The gating mechanism of voltage sensitive ion channels is generally considered to be the motion of the S4 transmembrane segment of the voltage sensing domains (VSD. The primary supporting evidence came from R→C mutations on the S4 transmembrane segment of the VSD, followed by reaction with a methanethiosulfonate (MTS reagent. The cys side chain is –SH (reactive form –S−; the arginine side chain is much larger, leaving space big enough to accommodate the MTS sulfonate head group. The cavity created by the mutation has space for up to seven more water molecules than were present in wild type, which could be displaced irreversibly by the MTS reagent. Our quantum calculations show there is major reorientation of three aromatic residues that face into the cavity in response to proton displacement within the VSD. Two phenylalanines reorient sufficiently to shield/unshield the cysteine from the intracellular and extracellular ends, depending on the proton positions, and a tyrosine forms a hydrogen bond to the cysteine sulfur with its side chain –OH. These could produce the results of the experiments that have been interpreted as evidence for physical motion of the S4 segment, without physical motion of the S4 backbone. The computations strongly suggest that the interpretation of cysteine substitution reaction experiments be re-examined in the light of these considerations.
Cheng, Lan; Sanguinetti, Michael C
2009-05-01
Niflumic acid, 2-[[3-(trifluoromethyl)phenyl]amino]pyridine-3-carboxylic acid (NFA), is a nonsteroidal anti-inflammatory drug that also blocks or modifies the gating of many ion channels. Here, we investigated the effects of NFA on hyperpolarization-activated cyclic nucleotide-gated cation (HCN) pacemaker channels expressed in X. laevis oocytes using site-directed mutagenesis and the two-electrode voltage-clamp technique. Extracellular NFA acted rapidly and caused a slowing of activation and deactivation and a hyperpolarizing shift in the voltage dependence of HCN2 channel activation (-24.5 +/- 1.2 mV at 1 mM). Slowed channel gating and reduction of current magnitude was marked in oocytes treated with NFA, while clamped at 0 mV but minimal in oocytes clamped at -100 mV, indicating the drug preferentially interacts with channels in the closed state. NFA at 0.1 to 3 mM shifted the half-point for channel activation in a concentration-dependent manner, with an EC(50) of 0.54 +/- 0.068 mM and a predicted maximum shift of -38 mV. NFA at 1 mM also reduced maximum HCN2 conductance by approximately 20%, presumably by direct block of the pore. The rapid onset and state-dependence of NFA-induced changes in channel gating suggests an interaction with the extracellular region of the S4 transmembrane helix, the primary voltage-sensing domain of HCN2. Neutralization (by mutation to Gln) of any three of the outer four basic charged residues in S4, but not single mutations, abrogated the NFA-induced shift in channel activation. We conclude that NFA alters HCN2 gating by interacting with the extracellular end of the S4 voltage sensor domains.
Tuluc, Petronel; Benedetti, Bruno; Coste de Bagneaux, Pierre; Grabner, Manfred; Flucher, Bernhard E
2016-06-01
Alternative splicing of the skeletal muscle CaV1.1 voltage-gated calcium channel gives rise to two channel variants with very different gating properties. The currents of both channels activate slowly; however, insertion of exon 29 in the adult splice variant CaV1.1a causes an ∼30-mV right shift in the voltage dependence of activation. Existing evidence suggests that the S3-S4 linker in repeat IV (containing exon 29) regulates voltage sensitivity in this voltage-sensing domain (VSD) by modulating interactions between the adjacent transmembrane segments IVS3 and IVS4. However, activation kinetics are thought to be determined by corresponding structures in repeat I. Here, we use patch-clamp analysis of dysgenic (CaV1.1 null) myotubes reconstituted with CaV1.1 mutants and chimeras to identify the specific roles of these regions in regulating channel gating properties. Using site-directed mutagenesis, we demonstrate that the structure and/or hydrophobicity of the IVS3-S4 linker is critical for regulating voltage sensitivity in the IV VSD, but by itself cannot modulate voltage sensitivity in the I VSD. Swapping sequence domains between the I and the IV VSDs reveals that IVS4 plus the IVS3-S4 linker is sufficient to confer CaV1.1a-like voltage dependence to the I VSD and that the IS3-S4 linker plus IS4 is sufficient to transfer CaV1.1e-like voltage dependence to the IV VSD. Any mismatch of transmembrane helices S3 and S4 from the I and IV VSDs causes a right shift of voltage sensitivity, indicating that regulation of voltage sensitivity by the IVS3-S4 linker requires specific interaction of IVS4 with its corresponding IVS3 segment. In contrast, slow current kinetics are perturbed by any heterologous sequences inserted into the I VSD and cannot be transferred by moving VSD I sequences to VSD IV. Thus, CaV1.1 calcium channels are organized in a modular manner, and control of voltage sensitivity and activation kinetics is accomplished by specific molecular mechanisms
Offset Correction Techniques for Voltage Sense Amplifiers
Groeneveld, S.
2006-01-01
This report deals with offset correction techniques for voltage sense amplifiers and is divided into two different parts: 1) mismatch and 2) offset correction techniques. First a literature study is done on the subject mismatch with specially focus on the future. Mismatch of a transistor is determin
Alicia Lundby; Hiroki Mutoh; Dimitar Dimitrov; Walther Akemann; Thomas Knöpfel
2008-01-01
Ci-VSP contains a voltage-sensing domain (VSD) homologous to that of voltage-gated potassium channels. Using charge displacement ('gating' current) measurements we show that voltage-sensing movements of this VSD can occur within 1 ms in mammalian membranes. Our analysis lead to development of a genetically encodable fluorescent protein voltage sensor (VSFP) in which the fast, voltage-dependent conformational changes of the Ci-VSP voltage sensor are transduced to similarly fast fluorescence re...
DEFF Research Database (Denmark)
Lundby, Alicia; Mutoh, Hiroki; Dimitrov, Dimitar
2008-01-01
Ci-VSP contains a voltage-sensing domain (VSD) homologous to that of voltage-gated potassium channels. Using charge displacement ('gating' current) measurements we show that voltage-sensing movements of this VSD can occur within 1 ms in mammalian membranes. Our analysis lead to development of a g...... of a genetically encodable fluorescent protein voltage sensor (VSFP) in which the fast, voltage-dependent conformational changes of the Ci-VSP voltage sensor are transduced to similarly fast fluorescence read-outs....
The S4-S5 linker couples voltage sensing and activation of pacemaker channels.
Chen, J; Mitcheson, J S; Tristani-Firouzi, M; Lin, M; Sanguinetti, M C
2001-09-25
Voltage-gated channels are normally opened by depolarization and closed by repolarization of the membrane. Despite sharing significant sequence homology with voltage-gated K(+) channels, the gating of hyperpolarization-activated, cyclic-nucleotide-gated (HCN) pacemaker channels has the opposite dependence on membrane potential: hyperpolarization opens, whereas depolarization closes, these channels. The mechanism and structural basis of the process that couples voltage sensor movement to HCN channel opening and closing is not understood. On the basis of our previous studies of a mutant HERG (human ether-a-go-go-related gene) channel, we hypothesized that the intracellular linker that connects the fourth and fifth transmembrane domains (S4-S5 linker) of HCN channels might be important for channel gating. Here, we used alanine-scanning mutagenesis of the HCN2 S4-S5 linker to identify three residues, E324, Y331, and R339, that when mutated disrupted normal channel closing. Mutation of a basic residue in the S4 domain (R318Q) prevented channel opening, presumably by disrupting S4 movement. However, channels with R318Q and Y331S mutations were constitutively open, suggesting that these channels can open without a functioning S4 domain. We conclude that the S4-S5 linker mediates coupling between voltage sensing and HCN channel activation. Our findings also suggest that opening of HCN and related channels corresponds to activation of a gate located near the inner pore, rather than recovery of channels from a C-type inactivated state.
电压感受蛋白的保守基序及其序列分析%Conserved motifs in voltage sensing proteins
Institute of Scientific and Technical Information of China (English)
王昌河; 谢振丽; 吕建伟; 于志丹; 邵淑丽
2012-01-01
本文旨在研究电压感受蛋白(voltage sensing proteins,VSPs)的保守基序、分析其序列特点并组建其电压感受模型.在UniProt数据库中的检索结果显示,现有的VSPs主要为电压门控型离子通道及电压依赖性磷酸激酶,其共同特点是均含有一个4次跨膜区,分别称为S1～S4 (Segment 1-4).S1区主要负责其上膜与转运,S2～S4区是其感知膜电位变化的核心.profile-to-profile序列比对结果表明VSPs各跨膜区的保守基序非常相似,尤其是S4跨膜区均含基序[RK]-X(2)-R-X(2)-R-X(2)-[RK],其特点是带正电荷的精氨酸残基(R)与两个疏水性或不带电荷的氨基酸残基交替排列,这是VSPs感知膜电位变化的核心区域.同时,四个跨膜区内均含大量具有较高α-螺旋结构形成倾向性的疏水性氨基酸残基,这可能是VSPs(尤其是带有大量正电荷的S4区域)能在胞膜上稳定存在的主要原因.此外,S3区内带负电荷的天冬氨酸残基(D)的保守性对VSPs感知膜电位变化具有重要意义,天冬氨酸残基与S4区的静电作用还可增加S4区在膜上的稳定性.%This paper was aimed to study conserved motifs of voltage sensing proteins (VSPs) and establish a voltage sensing model. All VSPs were collected from the Uniprot database using a comprehensive keyword search followed by manual curation, and the results indicated that there are only two types of known VSPs, voltage gated ion channels and voltage dependent phosphatases. All the VSPs have a common domain of four helical transmembrane segments (TMS, S1-S4), which constitute the voltage sensing module of the VSPs. The S1 segment was shown to be responsible for membrane targeting and insertion of these proteins, while S2-S4 segments, which can sense membrane potential, for protein properties. Conserved motifs/residues and their functional significance of each TMS were identified using profile-to-profile sequence alignments. Conserved motifs in these four segments
Life sciences domain analysis model.
Freimuth, Robert R; Freund, Elaine T; Schick, Lisa; Sharma, Mukesh K; Stafford, Grace A; Suzek, Baris E; Hernandez, Joyce; Hipp, Jason; Kelley, Jenny M; Rokicki, Konrad; Pan, Sue; Buckler, Andrew; Stokes, Todd H; Fernandez, Anna; Fore, Ian; Buetow, Kenneth H; Klemm, Juli D
2012-01-01
Meaningful exchange of information is a fundamental challenge in collaborative biomedical research. To help address this, the authors developed the Life Sciences Domain Analysis Model (LS DAM), an information model that provides a framework for communication among domain experts and technical teams developing information systems to support biomedical research. The LS DAM is harmonized with the Biomedical Research Integrated Domain Group (BRIDG) model of protocol-driven clinical research. Together, these models can facilitate data exchange for translational research. The content of the LS DAM was driven by analysis of life sciences and translational research scenarios and the concepts in the model are derived from existing information models, reference models and data exchange formats. The model is represented in the Unified Modeling Language and uses ISO 21090 data types. The LS DAM v2.2.1 is comprised of 130 classes and covers several core areas including Experiment, Molecular Biology, Molecular Databases and Specimen. Nearly half of these classes originate from the BRIDG model, emphasizing the semantic harmonization between these models. Validation of the LS DAM against independently derived information models, research scenarios and reference databases supports its general applicability to represent life sciences research. The LS DAM provides unambiguous definitions for concepts required to describe life sciences research. The processes established to achieve consensus among domain experts will be applied in future iterations and may be broadly applicable to other standardization efforts. The LS DAM provides common semantics for life sciences research. Through harmonization with BRIDG, it promotes interoperability in translational science.
Sakata, Souhei; Jinno, Yuka; Kawanabe, Akira; Okamura, Yasushi
2016-07-05
The cytoplasmic region of voltage-sensing phosphatase (VSP) derives the voltage dependence of its catalytic activity from coupling to a voltage sensor homologous to that of voltage-gated ion channels. To assess the conformational changes in the cytoplasmic region upon activation of the voltage sensor, we genetically incorporated a fluorescent unnatural amino acid, 3-(6-acetylnaphthalen-2-ylamino)-2-aminopropanoic acid (Anap), into the catalytic region of Ciona intestinalis VSP (Ci-VSP). Measurements of Anap fluorescence under voltage clamp in Xenopus oocytes revealed that the catalytic region assumes distinct conformations dependent on the degree of voltage-sensor activation. FRET analysis showed that the catalytic region remains situated beneath the plasma membrane, irrespective of the voltage level. Moreover, Anap fluorescence from a membrane-facing loop in the C2 domain showed a pattern reflecting substrate turnover. These results indicate that the voltage sensor regulates Ci-VSP catalytic activity by causing conformational changes in the entire catalytic region, without changing their distance from the plasma membrane.
Generic domain models in software engineering
Maiden, Neil
1992-01-01
This paper outlines three research directions related to domain-specific software development: (1) reuse of generic models for domain-specific software development; (2) empirical evidence to determine these generic models, namely elicitation of mental knowledge schema possessed by expert software developers; and (3) exploitation of generic domain models to assist modelling of specific applications. It focuses on knowledge acquisition for domain-specific software development, with emphasis on tool support for the most important phases of software development.
Introduction to the Integrated Domain Modeling Toolset
Directory of Open Access Journals (Sweden)
Slihte Armands
2014-12-01
Full Text Available This paper describes the Integrated Domain Modeling approach and introduces the supporting toolset as a solution to the complex domain-modeling task. This approach integrates artificial intelligence (AI and system analysis by exploiting ontology, natural language processing (NLP, use cases and model-driven architecture (MDA for knowledge engineering and domain modeling. The IDM toolset provides the opportunity to automatically generate the initial AS-IS model from the formally defined domain knowledge. In this paper, we describe in detail the scope, architecture and implementation of the toolset.
A low-voltage sense amplifier with two-stage operational amplifier clamping for flash memory
Guo, Jiarong
2017-04-01
A low-voltage sense amplifier with reference current generator utilizing two-stage operational amplifier clamp structure for flash memory is presented in this paper, capable of operating with minimum supply voltage at 1 V. A new reference current generation circuit composed of a reference cell and a two-stage operational amplifier clamping the drain pole of the reference cell is used to generate the reference current, which avoids the threshold limitation caused by current mirror transistor in the traditional sense amplifier. A novel reference voltage generation circuit using dummy bit-line structure without pull-down current is also adopted, which not only improves the sense window enhancing read precision but also saves power consumption. The sense amplifier was implemented in a flash realized in 90 nm flash technology. Experimental results show the access time is 14.7 ns with power supply of 1.2 V and slow corner at 125 °C. Project supported by the National Natural Science Fundation of China (No. 61376028).
Yamaguchi, Shinji; Kurokawa, Tatsuki; Taira, Ikuko; Aoki, Naoya; Sakata, Souhei; Okamura, Yasushi; Homma, Koichi J
2014-04-01
Voltage-sensing phosphatase, VSP, consists of the transmembrane domain, operating as the voltage sensor, and the cytoplasmic domain with phosphoinositide-phosphatase activities. The voltage sensor tightly couples with the cytoplasmic phosphatase and membrane depolarization induces dephosphorylation of several species of phosphoinositides. VSP gene is conserved from urochordate to human. There are some diversities among VSP ortholog proteins; range of voltage of voltage sensor motions as well as substrate selectivity. In contrast with recent understandings of biophysical mechanisms of VSPs, little is known about its physiological roles. Here we report that chick ortholog of VSP (designated as Gg-VSP) induces morphological feature of cell process outgrowths with round cell body in DF-1 fibroblasts upon its forced expression. Expression of the voltage sensor mutant, Gg-VSPR153Q with shifted voltage dependence to a lower voltage led to more frequent changes of cell morphology than the wild-type protein. Coexpression of PTEN that dephosphorylates PI(3,4)P2 suppressed this effect by Gg-VSP, indicating that the increase of PI(3,4)P2 leads to changes of cell shape. In addition, visualization of PI(3,4)P2 with the fluorescent protein fused with the TAPP1-derived pleckstrin homology (PH) domain suggested that Gg-VSP influenced the distribution of PI(3,4)P2 . These findings raise a possibility that one of the VSP's functions could be to regulate cell morphology through voltage-sensitive tuning of phosphoinositide profile.
Neural network models of protein domain evolution
Sylvia Nagl
2000-01-01
Protein domains are complex adaptive systems, and here a novel procedure is presented that models the evolution of new functional sites within stable domain folds using neural networks. Neural networks, which were originally developed in cognitive science for the modeling of brain functions, can provide a fruitful methodology for the study of complex systems in general. Ethical implications of developing complex systems models of biomolecules are discussed, with particular reference to molecu...
Doczi, Judit; Torocsik, Beata; Echaniz-Laguna, Andoni; Mousson de Camaret, Bénédicte; Starkov, Anatoly; Starkova, Natalia; Gál, Aniko; Molnár, Mária J; Kawamata, Hibiki; Manfredi, Giovanni; Adam-Vizi, Vera; Chinopoulos, Christos
2016-05-25
The probability of mitochondrial permeability transition (mPT) pore opening is inversely related to the magnitude of the proton electrochemical gradient. The module conferring sensitivity of the pore to this gradient has not been identified. We investigated mPT's voltage-sensing properties elicited by calcimycin or H2O2 in human fibroblasts exhibiting partial or complete lack of ANT1 and in C2C12 myotubes with knocked-down ANT1 expression. mPT onset was assessed by measuring in situ mitochondrial volume using the 'thinness ratio' and the 'cobalt-calcein' technique. De-energization hastened calcimycin-induced swelling in control and partially-expressing ANT1 fibroblasts, but not in cells lacking ANT1, despite greater losses of mitochondrial membrane potential. Matrix Ca(2+) levels measured by X-rhod-1 or mitochondrially-targeted ratiometric biosensor 4mtD3cpv, or ADP-ATP exchange rates did not differ among cell types. ANT1-null fibroblasts were also resistant to H2O2-induced mitochondrial swelling. Permeabilized C2C12 myotubes with knocked-down ANT1 exhibited higher calcium uptake capacity and voltage-thresholds of mPT opening inferred from cytochrome c release, but intact cells showed no differences in calcimycin-induced onset of mPT, irrespective of energization and ANT1 expression, albeit the number of cells undergoing mPT increased less significantly upon chemically-induced hypoxia than control cells. We conclude that ANT1 confers sensitivity of the pore to the electrochemical gradient.
Modeling Multiple Risks: Hidden Domain of Attraction
Mitra, Abhimanyu
2011-01-01
Hidden regular variation is a sub-model of multivariate regular variation and facilitates accurate estimation of joint tail probabilities. We generalize the model of hidden regular variation to what we call hidden domain of attraction. We exhibit examples that illustrate the need for a more general model and discuss detection and estimation techniques.
Keum, Dongil; Kruse, Martin; Kim, Dong-Il; Hille, Bertil; Suh, Byung-Chang
2016-06-28
Voltage-sensing phosphatases (VSPs) are homologs of phosphatase and tensin homolog (PTEN), a phosphatidylinositol 3,4-bisphosphate [PI(3,4)P2] and phosphatidylinositol 3,4,5-trisphosphate [PI(3,4,5)P3] 3-phosphatase. However, VSPs have a wider range of substrates, cleaving 3-phosphate from PI(3,4)P2 and probably PI(3,4,5)P3 as well as 5-phosphate from phosphatidylinositol 4,5-bisphosphate [PI(4,5)P2] and PI(3,4,5)P3 in response to membrane depolarization. Recent proposals say these reactions have differing voltage dependence. Using Förster resonance energy transfer probes specific for different PIs in living cells with zebrafish VSP, we quantitate both voltage-dependent 5- and 3-phosphatase subreactions against endogenous substrates. These activities become apparent with different voltage thresholds, voltage sensitivities, and catalytic rates. As an analytical tool, we refine a kinetic model that includes the endogenous pools of phosphoinositides, endogenous phosphatase and kinase reactions connecting them, and four exogenous voltage-dependent 5- and 3-phosphatase subreactions of VSP. We show that apparent voltage threshold differences for seeing effects of the 5- and 3-phosphatase activities in cells are not due to different intrinsic voltage dependence of these reactions. Rather, the reactions have a common voltage dependence, and apparent differences arise only because each VSP subreaction has a different absolute catalytic rate that begins to surpass the respective endogenous enzyme activities at different voltages. For zebrafish VSP, our modeling revealed that 3-phosphatase activity against PI(3,4,5)P3 is 55-fold slower than 5-phosphatase activity against PI(4,5)P2; thus, PI(4,5)P2 generated more slowly from dephosphorylating PI(3,4,5)P3 might never accumulate. When 5-phosphatase activity was counteracted by coexpression of a phosphatidylinositol 4-phosphate 5-kinase, there was accumulation of PI(4,5)P2 in parallel to PI(3,4,5)P3 dephosphorylation
Structuring very large domain models
DEFF Research Database (Denmark)
Störrle, Harald
2010-01-01
View/Viewpoint approaches like IEEE 1471-2000, or Kruchten's 4+1-view model are used to structure software architectures at a high level of granularity. While research has focused on architectural languages and with consistency between multiple views, practical questions such as the structuring a...
Impact of Domain Modeling Techniques on the Quality of Domain Model: An Experiment
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Hiqmat Nisa
2016-10-01
Full Text Available The unified modeling language (UML is widely used to analyze and design different software development artifacts in an object oriented development. Domain model is a significant artifact that models the problem domain and visually represents real world objects and relationships among them. It facilitates the comprehension process by identifying the vocabulary and key concepts of the business world. Category list technique identifies concepts and associations with the help of pre defined categories, which are important to business information systems. Whereas noun phrasing technique performs grammatical analysis of use case description to recognize concepts and associations. Both of these techniques are used for the construction of domain model, however, no empirical evidence exists that evaluates the quality of the resultant domain model constructed via these two basic techniques. A controlled experiment was performed to investigate the impact of category list and noun phrasing technique on quality of the domain model. The constructed domain model is evaluated for completeness, correctness and effort required for its design. The obtained results show that category list technique is better than noun phrasing technique for the identification of concepts as it avoids generating unnecessary elements i.e. extra concepts, associations and attributes in the domain model. The noun phrasing technique produces a comprehensive domain model and requires less effort as compared to category list. There is no statistically significant difference between both techniques in case of correctness.
Impact of Domain Modeling Techniques on the Quality of Domain Model: An Experiment
Directory of Open Access Journals (Sweden)
Hiqmat Nisa
2016-11-01
Full Text Available The unified modeling language (UML is widely used to analyze and design different software development artifacts in an object oriented development. Domain model is a significant artifact that models the problem domain and visually represents real world objects and relationships among them. It facilitates the comprehension process by identifying the vocabulary and key concepts of the business world. Category list technique identifies concepts and associations with the help of pre defined categories, which are important to business information systems. Whereas noun phrasing technique performs grammatical analysis of use case description to recognize concepts and associations. Both of these techniques are used for the construction of domain model, however, no empirical evidence exists that evaluates the quality of the resultant domain model constructed via these two basic techniques. A controlled experiment was performed to investigate the impact of category list and noun phrasing technique on quality of the domain model. The constructed domain model is evaluated for completeness, correctness and effort required for its design. The obtained results show that category list technique is better than noun phrasing technique for the identification of concepts as it avoids generating unnecessary elements i.e. extra concepts, associations and attributes in the domain model. The noun phrasing technique produces a comprehensive domain model and requires less effort as compared to category list. There is no statistically significant difference between both techniques in case of correctness.
Modeling Network Traffic in Wavelet Domain
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Sheng Ma
2004-12-01
Full Text Available This work discovers that although network traffic has the complicated short- and long-range temporal dependence, the corresponding wavelet coefficients are no longer long-range dependent. Therefore, a "short-range" dependent process can be used to model network traffic in the wavelet domain. Both independent and Markov models are investigated. Theoretical analysis shows that the independent wavelet model is sufficiently accurate in terms of the buffer overflow probability for Fractional Gaussian Noise traffic. Any model, which captures additional correlations in the wavelet domain, only improves the performance marginally. The independent wavelet model is then used as a unified approach to model network traffic including VBR MPEG video and Ethernet data. The computational complexity is O(N for developing such wavelet models and generating synthesized traffic of length N, which is among the lowest attained.
Domain Theory, Its Models and Concepts
DEFF Research Database (Denmark)
Andreasen, Mogens Myrup; Howard, Thomas J.; Bruun, Hans Peter Lomholt
2014-01-01
Domain Theory is a systems approach for the analysis and synthesis of products. Its basic idea is to view a product as systems of activities, organs and parts and to define structure, elements, behaviour and function in these domains. The theory is a basis for a long line of research contributions...... and industrial applications especially for the DFX areas (not reported here) and for product modelling. The theory therefore contains a rich ontology of interrelated concepts. The Domain Theory is not aiming to create normative methods but the creation of a collection of concepts related to design phenomena......, which can support design work and to form elements of designers’ mindsets and thereby their practice. The theory is a model-based theory, which means it is composed of concepts and models, which explains certain design phenomena. Many similar theories are described in the literature with differences...
Domain-Specific Modelling Languages in Bigraphs
DEFF Research Database (Denmark)
Perrone, Gian David
" of models, in order to improve the utility of the models we build, and to ease the process of model construction by moving the languages we use to express such models closer to their respective domains. This thesis is concerned with the study of bigraphical reactive systems as a host for domain......-specic modelling languages. We present a number of novel technical developments, including a new complete meta-calculus presentation of bigraphical reactive systems, an abstract machine that instantiates to an abstract machine for any instance calculus, and a mechanism for dening declarative sorting predicates...... that always give rise to wellbehaved sortings. We explore bigraphical renement relations that permit formalisation of the relationship between dierent languages instantiated as bigraphical reactive systems. We detail a prototype verication tool for instance calculi, and provide a tractable heuristic...
User Requirements and Domain Model Engineering
Specht, Marcus; Glahn, Christian
2006-01-01
Specht, M., & Glahn, C. (2006). User requirements and domain model engineering. Presentation at International Workshop in Learning Networks for Lifelong Competence Development. March, 30-31, 2006. Sofia, Bulgaria: TENCompetence Conference. Retrieved June 30th, 2006, from http://dspace.learningnetwor
User Requirements and Domain Model Engineering
Specht, Marcus; Glahn, Christian
2006-01-01
Specht, M., & Glahn, C. (2006). User requirements and domain model engineering. Presentation at International Workshop in Learning Networks for Lifelong Competence Development. March, 30-31, 2006. Sofia, Bulgaria: TENCompetence Conference. Retrieved June 30th, 2006, from http://dspace.learningnetwor
ISO 19512: The land administration domain model
Lemmen, C.H.J.; Van Oosterom, P.J.M.
2011-01-01
Focus of this paper is on the Land Administration Domain Model which is under development as an International Standard at ISO. This development is an initiative of the International Federation of Surveyors – FIG. The International Standard is expected to be published in 2012. Why is this development
Developing a Domain Model for Relay Circuits
DEFF Research Database (Denmark)
Haxthausen, Anne Elisabeth
2009-01-01
the statics as well as the dynamics of relay circuits, i.e. how a relay circuit can be composed legally from electrical components as well as how the components may change state over time. Finally the circuit model is transformed into an executable model, and we show how a concrete circuit can be defined......In this paper we stepwise develop a domain model for relay circuits as used in railway control systems. First we provide an abstract, property-oriented model of networks consisting of components that can be glued together with connectors. This model is strongly inspired by a network model...... for railways madeby Bjørner et.al., however our model is more general: the components can be of any kind and can later be refined to e.g. railway components or circuit components. Then we show how the abstract network model can be refined into an explicit model for relay circuits. The circuit model describes...
Towards Clone Detection in UML Domain Models
DEFF Research Database (Denmark)
Störrle, Harald
2013-01-01
Code clones (i.e., duplicate fragments of code) have been studied for long, and there is strong evidence that they are a major source of software faults. Anecdotal evidence suggests that this phenomenon occurs similarly in models, suggesting that model clones are as detrimental to model quality...... as they are to code quality. However, programming language code and visual models have significant differences that make it difficult to directly transfer notions and algorithms developed in the code clone arena to model clones. In this article, we develop and propose a definition of the notion of “model clone” based...... on the thorough analysis of practical scenarios. We propose a formal definition of model clones, specify a clone detection algorithm for UML domain models, and implement it prototypically. We investigate different similarity heuristics to be used in the algorithm, and report the performance of our approach. While...
Domain decomposition for implicit solvation models.
Cancès, Eric; Maday, Yvon; Stamm, Benjamin
2013-08-07
This article is the first of a series of papers dealing with domain decomposition algorithms for implicit solvent models. We show that, in the framework of the COSMO model, with van der Waals molecular cavities and classical charge distributions, the electrostatic energy contribution to the solvation energy, usually computed by solving an integral equation on the whole surface of the molecular cavity, can be computed more efficiently by using an integral equation formulation of Schwarz's domain decomposition method for boundary value problems. In addition, the so-obtained potential energy surface is smooth, which is a critical property to perform geometry optimization and molecular dynamics simulations. The purpose of this first article is to detail the methodology, set up the theoretical foundations of the approach, and study the accuracies and convergence rates of the resulting algorithms. The full efficiency of the method and its applicability to large molecular systems of biological interest is demonstrated elsewhere.
On frequency and time domain models of traveling wave tubes
Théveny, Stéphane; Elskens, Yves
2016-01-01
We discuss the envelope modulation assumption of frequency-domain models of traveling wave tubes (TWTs) and test its consistency with the Maxwell equations. We compare the predictions of usual frequency-domain models with those of a new time domain model of the TWT.
Molecular mechanism of voltage sensing in voltage-gated proton channels
Rebolledo, Santiago; Perez, Marta E.
2013-01-01
Voltage-gated proton (Hv) channels play an essential role in phagocytic cells by generating a hyperpolarizing proton current that electrically compensates for the depolarizing current generated by the NADPH oxidase during the respiratory burst, thereby ensuring a sustained production of reactive oxygen species by the NADPH oxidase in phagocytes to neutralize engulfed bacteria. Despite the importance of the voltage-dependent Hv current, it is at present unclear which residues in Hv channels are responsible for the voltage activation. Here we show that individual neutralizations of three charged residues in the fourth transmembrane domain, S4, all reduce the voltage dependence of activation. In addition, we show that the middle S4 charged residue moves from a position accessible from the cytosolic solution to a position accessible from the extracellular solution, suggesting that this residue moves across most of the membrane electric field during voltage activation of Hv channels. Our results show for the first time that the charge movement of these three S4 charges accounts for almost all of the measured gating charge in Hv channels. PMID:23401575
Itsuki, Kyohei; Imai, Yuko; Okamura, Yasushi; Abe, Kihachiro; Inoue, Ryuji; Mori, Masayuki X
2012-01-01
TRPC3/C6/C7 channels, a subgroup of classical/canonical TRP channels, are activated by diacylglycerol produced via activation of phospholipase C (PLC)-coupled receptors. Recognition of the physiological importance of these channels has been steadily growing, but the mechanism by which they are regulated remains largely unknown. We recently used a membrane-resident danio rerio voltage-sensing phosphatase (DrVSP) to study TRPC3/C6/C7 regulation and found that the channel activity was controlled by PtdIns(4,5)P(2)-DAG signaling in a self-limiting manner (Imai Y et al., the Journal of Physiology, 2012). In this addendum, we present the advantages of using DrVSP as a molecular tool to study PtdIns(4,5)P(2) regulation. DrVSP should be readily applicable for studying phosphoinositide metabolism-linked channel regulation as well as lipid dynamics. Furthermore, in comparison to other modes of self-limiting ion channel regulation, the regulation of TRPC3/C6/C7 channels seems highly susceptible to activation signal strength, which could potentially affect both open duration and the time to peak activation and inactivation. Dysfunction of such self-limiting regulation may contribute to the pathology of the cardiovascular system, gastrointestinal tract and brain, as these channels are broadly distributed and affected by numerous neurohormonal agonists.
A Review of Domain Modelling and Domain Imaging Techniques in Ferroelectric Crystals
Directory of Open Access Journals (Sweden)
John E. Huber
2011-02-01
Full Text Available The present paper reviews models of domain structure in ferroelectric crystals, thin films and bulk materials. Common crystal structures in ferroelectric materials are described and the theory of compatible domain patterns is introduced. Applications to multi-rank laminates are presented. Alternative models employing phase-field and related techniques are reviewed. The paper then presents methods of observing ferroelectric domain structure, including optical, polarized light, scanning electron microscopy, X-ray and neutron diffraction, atomic force microscopy and piezo-force microscopy. Use of more than one technique for unambiguous identification of the domain structure is also described.
Multilayered temporal modeling for the clinical domain.
Lin, Chen; Dligach, Dmitriy; Miller, Timothy A; Bethard, Steven; Savova, Guergana K
2016-03-01
To develop an open-source temporal relation discovery system for the clinical domain. The system is capable of automatically inferring temporal relations between events and time expressions using a multilayered modeling strategy. It can operate at different levels of granularity--from rough temporality expressed as event relations to the document creation time (DCT) to temporal containment to fine-grained classic Allen-style relations. We evaluated our systems on 2 clinical corpora. One is a subset of the Temporal Histories of Your Medical Events (THYME) corpus, which was used in SemEval 2015 Task 6: Clinical TempEval. The other is the 2012 Informatics for Integrating Biology and the Bedside (i2b2) challenge corpus. We designed multiple supervised machine learning models to compute the DCT relation and within-sentence temporal relations. For the i2b2 data, we also developed models and rule-based methods to recognize cross-sentence temporal relations. We used the official evaluation scripts of both challenges to make our results comparable with results of other participating systems. In addition, we conducted a feature ablation study to find out the contribution of various features to the system's performance. Our system achieved state-of-the-art performance on the Clinical TempEval corpus and was on par with the best systems on the i2b2 2012 corpus. Particularly, on the Clinical TempEval corpus, our system established a new F1 score benchmark, statistically significant as compared to the baseline and the best participating system. Presented here is the first open-source clinical temporal relation discovery system. It was built using a multilayered temporal modeling strategy and achieved top performance in 2 major shared tasks. © The Author 2015. Published by Oxford University Press on behalf of the American Medical Informatics Association. All rights reserved. For Permissions, please email: journals.permissions@oup.com.
DEFF Research Database (Denmark)
Sosnovsky, Sergey; Dolog, Peter; Henze, Nicola;
2007-01-01
argue that the implementation of underlying knowledge models in a sharable format, as domain ontologies - along with application of automatic ontology mapping techniques for model alignment - can help to overcome the "new-user" problem and will greatly widen opportunities for student model translation....... Moreover, it then becomes possible for systems from relevant domains to rely on knowledge transfer and reuse those portions of the student models that are related to overlapping concepts....
Domain Endurants: An Analysis and Description Process Model
DEFF Research Database (Denmark)
Bjørner, Dines
2014-01-01
We present a summary, Sect. 2, of a structure of domain analysis and description concepts: techniques and tools. And we link, in Sect. 3, these concepts, embodied in domain analysis prompts and domain description prompts, in a model of how a diligent domain analyser cum describer would use them. ...... claim that both sections, Sects. 2–3, contribute to a methodology of software engineering.......We present a summary, Sect. 2, of a structure of domain analysis and description concepts: techniques and tools. And we link, in Sect. 3, these concepts, embodied in domain analysis prompts and domain description prompts, in a model of how a diligent domain analyser cum describer would use them. We...
An Integrated Model of Information Literacy, Based upon Domain Learning
Thompson, Gary B.; Lathey, Johnathan W.
2013-01-01
Introduction. Grounded in Alexander's model of domain learning, this study presents an integrated micro-model of information literacy. It is predicated upon the central importance of domain learning for the development of the requisite research skills by students. Method. The authors reviewed previous models of information literacy and…
The SHOCT domain: a widespread domain under-represented in model organisms.
Directory of Open Access Journals (Sweden)
Ruth Y Eberhardt
Full Text Available We have identified a new protein domain, which we have named the SHOCT domain (Short C-terminal domain. This domain is widespread in bacteria with over a thousand examples. But we found it is missing from the most commonly studied model organisms, despite being present in closely related species. It's predominantly C-terminal location, co-occurrence with numerous other domains and short size is reminiscent of the Gram-positive anchor motif, however it is present in a much wider range of species. We suggest several hypotheses about the function of SHOCT, including oligomerisation and nucleic acid binding. Our initial experiments do not support its role as an oligomerisation domain.
DSRM: An Ontology Driven Domain Scientific Data Retrieval Model
Directory of Open Access Journals (Sweden)
Jianghua Li
2013-09-01
Full Text Available With the development of information technology, a large number of domain scientific data have been accumulated with the characteristics of distribution and heterogeneity. It has important significance to acquire exact scientific data from multiple data sources for cooperative research. The existing data integration and information retrieval techniques cannot solve the problems of data semantic heterogeneity and retrieval inaccuracy very well. In this paper, an ontology driven domain scientific data retrieval model is proposed, which uses domain ontology to describe user query and queried data. User query is posed on domain ontology schema. Data retrieval for distributed and heterogeneous data sources is realized through constructing mapping relations between them and domain ontology schema. We developed a prototype for material scientific data, and the experimental results show that the proposed model is effective. Our model can also provide some means of use for reference to other domain scientific data retrieval.
Estimated Frequency Domain Model Uncertainties used in Robust Controller Design
DEFF Research Database (Denmark)
Tøffner-Clausen, S.; Andersen, Palle; Stoustrup, Jakob;
1994-01-01
This paper deals with the combination of system identification and robust controller design. Recent results on estimation of frequency domain model uncertainty are......This paper deals with the combination of system identification and robust controller design. Recent results on estimation of frequency domain model uncertainty are...
Interoperable domain models: The ISO land administration domain model LADM and its external classes
Lemmen, C.H.J.; Van Oosterom, P.J.M.; Uitermark, H.T.; Zevenbergen, J.A.; Cooper, A.K.
2011-01-01
This paper provides a brief overview of one of the first spatial domain standards: a standard for the domain of Land Administration (LA). This standard is in the draft stage of development now (May 2011). The development of domain standards is a logical follow up after domain-independent standards,
Organization Domain Modeling (ODM): Extending systematic D-AME beyond software domains
Energy Technology Data Exchange (ETDEWEB)
Simos, M.A. [Organon Motives, Inc., Belmont, MA (United States)
1996-12-31
The emerging discipline of domain analysis, modeling, and engineering, or D-AME, has received most attention from the field of systematic software reuse, where the term {open_quotes}domain{close_quotes} usually denotes a well-scoped area of functionality within a set or class of software systems. A central challenge in D-AME research has been in defining processes and representations sufficiently general to apply in the diverse organizational and technical environments in which D-AME can make useful contribution. The systematic reuse community has established ambitious goals for what a D-AME process should address, such as the ability to support design for reuse for all products and processes of the software life cycle, and applicability beyond software domains: e.g., to domains such as business processes, product variability models, or more generally, domains of shared knowledge about particular technical areas of expertise. In practice, though, the search for generalized domain analysis processes and methods has been fraught. with difficulties. Obstacles include: adoption of a too-narrow conception of the nature of {open_quotes}domains{close_quotes}; tight coupling of D-AME process and methods with software engineering representations; and a consequent lack of understanding of the unique aspects of D-AME as a qualitative process. This paper discusses the goals for the extensibility of D-AME, the primary barriers to achieving these goals, and specific features of the Organization Domain Modeling (ODM) methodology that address these issues. ODM is structured as a core life cycle process model which is broadly applicable to diverse domains and organizational contexts. The core process is augmented by a set of supporting methods which facilitate tailorability, for example, by encapsulating commitments to specific software design representations and processes.
The Land Administration Domain Model Standard
Lemmen, C.H.J.; Van Oosterom, P.J.M.
2013-01-01
LADM is a international standard for the land administration domain. It will stimulate the development of software applications and will accelerate the implementation of proper land administration systems that will support sustainable development. The LADM covers basic information-related components
Prediction of VH-VL domain orientation for antibody variable domain modeling.
Bujotzek, Alexander; Dunbar, James; Lipsmeier, Florian; Schäfer, Wolfgang; Antes, Iris; Deane, Charlotte M; Georges, Guy
2015-04-01
The antigen-binding site of antibodies forms at the interface of their two variable domains, VH and VL, making VH-VL domain orientation a factor that codetermines antibody specificity and affinity. Preserving VH-VL domain orientation in the process of antibody engineering is important in order to retain the original antibody properties, and predicting the correct VH-VL orientation has also been recognized as an important factor in antibody homology modeling. In this article, we present a fast sequence-based predictor that predicts VH-VL domain orientation with Q(2) values ranging from 0.54 to 0.73 on the evaluation set. We describe VH-VL orientation in terms of the six absolute ABangle parameters that have recently been proposed as a means to separate the different degrees of freedom of VH-VL domain orientation. In order to assess the impact of adjusting VH-VL orientation according to our predictions, we use the set of antibody structures of the recently published Antibody Modeling Assessment (AMA) II study. In comparison to the original AMAII homology models, we find an improvement in the accuracy of VH-VL orientation modeling, which also translates into an improvement in the average root-mean-square deviation with regard to the crystal structures.
Topic modelling in the information warfare domain
CSIR Research Space (South Africa)
De Waal, A
2013-11-01
Full Text Available In this paper the authors provide context to Topic Modelling as an Information Warfare technique. Topic modelling is a technique that discovers latent topics in unstructured and unlabelled collection of documents. The topic structure can be searched...
Time domain modeling of tunable response of graphene
DEFF Research Database (Denmark)
Prokopeva, Ludmila; Emani, Naresh K.; Boltasseva, Alexandra
2013-01-01
We present a causal numerical model for time domain simulations of the optical response of graphene. The dielectric function is approximated with a conductivity term, a Drude term and a number of the critical points terms.......We present a causal numerical model for time domain simulations of the optical response of graphene. The dielectric function is approximated with a conductivity term, a Drude term and a number of the critical points terms....
Denoising in Wavelet Domain Using Probabilistic Graphical Models
Directory of Open Access Journals (Sweden)
Maham Haider
2016-11-01
Full Text Available Denoising of real world images that are degraded by Gaussian noise is a long established problem in statistical signal processing. The existing models in time-frequency domain typically model the wavelet coefficients as either independent or jointly Gaussian. However, in the compression arena, techniques like denoising and detection, states the need for models to be non-Gaussian in nature. Probabilistic Graphical Models designed in time-frequency domain, serves the purpose for achieving denoising and compression with an improved performance. In this work, Hidden Markov Model (HMM designed with 2D Discrete Wavelet Transform (DWT is proposed. A comparative analysis of proposed method with different existing techniques: Wavelet based and curvelet based methods in Bayesian Network domain and Empirical Bayesian Approach using Hidden Markov Tree model for denoising has been presented. Results are compared in terms of PSNR and visual quality.
Visualisation of Domain-Specific Modelling Languages Using UML
Graaf, B.; Van Deursen, A.
2006-01-01
Currently, general-purpose modelling tools are often only used to draw diagrams for the documentation. The introduction of model-driven software development approaches involves the definition of domain-specific modelling languages that allow code generation. Although graphical representations of the
Multislice behavioral modeling based on envelope domain for power amplifiers
Institute of Scientific and Technical Information of China (English)
Wang Huadong; Bao Jingfu; Wu Zhengde
2009-01-01
An envelope domain multislice behavioral modeling is introduced. The tradition AM-AM and AM-PM characteristics of power amplifiers are extended to envelope domain and base-band filter is applied to distortion complex envelope signal for description of the envelope memory effect. Using traditional one and two-tone tests, the coefficients of nonlinear model and the FIR filter can be extracted. At last the model has been applied to a 10 W WCDMA power amplifier to predict its output signal. And simulation results show that the model output conforms very well to the traditional transistor level simulation results.
Modeling human response errors in synthetic flight simulator domain
Ntuen, Celestine A.
1992-01-01
This paper presents a control theoretic approach to modeling human response errors (HRE) in the flight simulation domain. The human pilot is modeled as a supervisor of a highly automated system. The synthesis uses the theory of optimal control pilot modeling for integrating the pilot's observation error and the error due to the simulation model (experimental error). Methods for solving the HRE problem are suggested. Experimental verification of the models will be tested in a flight quality handling simulation.
Towards Clone Detection in UML Domain Models
DEFF Research Database (Denmark)
Störrle, Harald
2010-01-01
Code clones - that is, duplicate fragments of code - have been studied for a long time. There is strong evidence that code clones are a major source of software faults. Anecdotal evidence suggests that this phenomenon is not restricted to code, but occurs in models in a very similar way. So it is...
Domain Model Structure - SAHG | LSDB Archive [Life Science Database Archive metadata
Lifescience Database Archive (English)
Full Text Available List Contact us SAHG Domain Model Structure Data detail Data name Domain Model Structure DOI 10.18908/lsdba....Download License Update History of This Database Site Policy | Contact Us Domain Model Structure - SAHG | LSDB Archive ...
On Automatic Modeling and Use of Domain-specific Ontologies
DEFF Research Database (Denmark)
Andreasen, Troels; Knappe, Rasmus; Bulskov, Henrik
2005-01-01
is a specific lattice-based concept algebraic language by which ontologies are inherently generative. The modeling of a domain specific ontology is based on a general ontology built upon common knowledge resources as dictionaries and thesauri. Based on analysis of concept occurrences in the object document......-based navigation. Finally, a measure of concept similarity is derived from the domain specific ontology based on occurrences, commonalities, and distances in the ontology....
Decaying Domain Walls in an Extended Gravity Model and Cosmology
Shiraishi, Kiyoshi
2013-01-01
We investigate cosmological consequences of an extended gravity model which belongs to the same class studied by Accetta and Steinhardt in an extended inflationary scenario. But we do not worry about inflation in our model; instead, we focus on a topological object formed during cosmological phase transitions. Although domain walls appear during first-order phase transitions such as QCD transition, they decay at the end of the phase transition. Therefore the "domain wall problem" does not exist in the suitable range of pameters and, on the contrary, the "fragments" of walls may become seeds of dark matter. A possible connection to "oscillating universe" model offered by Morikawa et al. is also discussed.
Small signal frequency domain model of an HVDC converter
Energy Technology Data Exchange (ETDEWEB)
Osauskas, C.M.; Hume, D.J.; Wood, A.R. [UnIversity of Canterbury, Christchurch (New Zealand). Dept. of Electrical and Electronic Engineering
2001-11-01
A small-signal analytic frequency domain model of a 6-pulse HVDC converter is presented. The model consists of a set of explicit algebraic equations which relate the transfer of distortion from AC voltage, DC current and firing angle modulation, to AC current and DC voltage. The equations represent the linearisation of the transfers around a base operating point, and are derived from a piecewise linear description of the AC current and DC voltage waveforms. The model provides an understanding of the transfer of distortion by the converter and is in excellent agreement with time domain simulations. (author)
High Precision Time Domain Forward Modeling for Crosshole Electromagnetic Tomography
Institute of Scientific and Technical Information of China (English)
Lin Shuhai; Zhao Liying
2007-01-01
To improve the resolution of crosshole electromagnetic tomography, high precision of forward modeling is necessary. A pseudo-spectral time domain (PSTD) forward modeling was used to simulate electromagnetic wave propagation between two boreholes. The PSTD algorithm is based on the finite difference time domain (FDTD) method and uses the fast Fourier transform (FFT) algorithm for spatial derivatives in Maxwell's equations. Besides having the strongpoint of the FDTD method, the calculation precision of the PSTD algorithm is higher than that of the FDTD method under the same calculation condition. The forward modeling using the PSTD method will play an important role in enhancing the resolution of crosshole electromagnetic tomography.
A Separated Domain-Based Kernel Model for Trusted Computing
Institute of Scientific and Technical Information of China (English)
FANG Yanxiang; SHEN Changxiang; XU Jingdong; WU Gongyi
2006-01-01
This paper fist gives an investigation on trusted computing on mainstream operation system (OS). Based on the observations, it is pointed out that Trusted Computing cannot be achieved due to the lack of separation mechanism of the components in mainstream OS. In order to provide a kind of separation mechanism, this paper proposes a separated domain-based kernel model (SDBKM), and this model is verified by non-interference theory. By monitoring and simplifying the trust dependence between domains, this model can solve problems in trust measurement such as deny of service (DoS) attack, Host security, and reduce the overhead of measurement.
Modeling Microwave Structures in Time Domain Using Laguerre Polynomials
Directory of Open Access Journals (Sweden)
Z. Raida
2006-09-01
Full Text Available The paper is focused on time domain modeling of microwave structures by the method of moments. Two alternative schemes with weighted Laguerre polynomials are presented. Thanks to their properties, these schemes are free of late time oscillations. Further, the paper is aimed to effective and accurate evaluation of Green's functions integrals within these schemes. For this evaluation, a first- and second-order polynomial approximation is developed. The last part of the paper deals with modeling microstrip structures in the time domain. Conditions of impedance matching are derived, and the proposed approach is verified by modeling a microstrip filter.
Industrial application of formal models generated from domain specific languages
Hooman, J.
2016-01-01
Domain Specific Languages (DSLs) provide a lightweight approach to incorporate formal techniques into the industrial workflow. From DSL instances, formal models and other artefacts can be generated, such as simulation models and code. Having a single source for all artefacts improves maintenance and
Using Built-In Domain-Specific Modeling Support to Guide Model-Based Test Generation
Kanstrén, Teemu; 10.4204/EPTCS.80.5
2012-01-01
We present a model-based testing approach to support automated test generation with domain-specific concepts. This includes a language expert who is an expert at building test models and domain experts who are experts in the domain of the system under test. First, we provide a framework to support the language expert in building test models using a full (Java) programming language with the help of simple but powerful modeling elements of the framework. Second, based on the model built with this framework, the toolset automatically forms a domain-specific modeling language that can be used to further constrain and guide test generation from these models by a domain expert. This makes it possible to generate a large set of test cases covering the full model, chosen (constrained) parts of the model, or manually define specific test cases on top of the model while using concepts familiar to the domain experts.
Using Built-In Domain-Specific Modeling Support to Guide Model-Based Test Generation
Directory of Open Access Journals (Sweden)
Teemu Kanstrén
2012-02-01
Full Text Available We present a model-based testing approach to support automated test generation with domain-specific concepts. This includes a language expert who is an expert at building test models and domain experts who are experts in the domain of the system under test. First, we provide a framework to support the language expert in building test models using a full (Java programming language with the help of simple but powerful modeling elements of the framework. Second, based on the model built with this framework, the toolset automatically forms a domain-specific modeling language that can be used to further constrain and guide test generation from these models by a domain expert. This makes it possible to generate a large set of test cases covering the full model, chosen (constrained parts of the model, or manually define specific test cases on top of the model while using concepts familiar to the domain experts.
Factorized domain wall partition functions in trigonometric vertex models
Foda, O; Zuparic, M
2007-01-01
We obtain factorized domain wall partition functions for two sets of trigonometric vertex models: 1. The N-state Deguchi-Akutsu models, for N = {2, 3, 4} (and conjecture the result for all N >= 5), and 2. The sl(r+1|s+1) Perk-Schultz models, for {r, s = \\N}, where (given the symmetries of these models) the result is independent of {r, s}.
Hybrid time/frequency domain modeling of nonlinear components
DEFF Research Database (Denmark)
Wiechowski, Wojciech Tomasz; Lykkegaard, Jan; Bak, Claus Leth
2007-01-01
model is used as a basis for its implementation. First, the linear network part is replaced with an ideal voltage source and a time domain (EMT) simulation is performed. During the initial oscillations, harmonic content of the converter currents is calculated at every period by a fast Fourier transform...... and the periodic steady state is identified. Obtained harmonic currents are assigned to current sources and used in the frequency domain calculation in the linear network. The obtained three-phase bus voltage is then inverse Fourier transformed and assigned to the voltage source and the time domain simulation...... is performed again. This process is repeated until the change in the magnitudes and phase angles of the fundamental and low order characteristic harmonics of the bus voltage is smaller then predefined precision indexes. The method is verified against precise time domain simulation. The convergence properties...
Qi, Feng; Tavakol, Vahid; Ocket, Ilja; Xu, Peng; Schreurs, Dominique; Wang, Jinkuan; Nauwelaers, Bart
2010-01-01
Active millimeter wave imaging systems have become a promising candidate for indoor security applications and industrial inspection. However, there is a lack of simulation tools at the system level. We introduce and evaluate two modeling approaches that are applied to active millimeter wave imaging systems. The first approach originates in Fourier optics and concerns the calculation in the spatial frequency domain. The second approach is based on wave propagation and corresponds to calculation in the spatial domain. We compare the two approaches in the case of both rough and smooth objects and point out that the spatial frequency domain calculation may suffer from a large error in amplitude of 50% in the case of rough objects. The comparison demonstrates that the concepts of point-spread function and f-number should be applied with careful consideration in coherent millimeter wave imaging systems. In the case of indoor applications, the near-field effect should be considered, and this is included in the spatial domain calculation.
Time-domain fitting of battery electrochemical impedance models
Alavi, S. M. M.; Birkl, C. R.; Howey, D. A.
2015-08-01
Electrochemical impedance spectroscopy (EIS) is an effective technique for diagnosing the behaviour of electrochemical devices such as batteries and fuel cells, usually by fitting data to an equivalent circuit model (ECM). The common approach in the laboratory is to measure the impedance spectrum of a cell in the frequency domain using a single sine sweep signal, then fit the ECM parameters in the frequency domain. This paper focuses instead on estimation of the ECM parameters directly from time-domain data. This may be advantageous for parameter estimation in practical applications such as automotive systems including battery-powered vehicles, where the data may be heavily corrupted by noise. The proposed methodology is based on the simplified refined instrumental variable for continuous-time fractional systems method ('srivcf'), provided by the Crone toolbox [1,2], combined with gradient-based optimisation to estimate the order of the fractional term in the ECM. The approach was tested first on synthetic data and then on real data measured from a 26650 lithium-ion iron phosphate cell with low-cost equipment. The resulting Nyquist plots from the time-domain fitted models match the impedance spectrum closely (much more accurately than when a Randles model is assumed), and the fitted parameters as separately determined through a laboratory potentiostat with frequency domain fitting match to within 13%.
Reduced Order Internal Models in the Frequency Domain
Laakkonen, Petteri; Paunonen, Lassi
2016-01-01
The internal model principle states that all robustly regulating controllers must contain a suitably reduplicated internal model of the signal to be regulated. Using frequency domain methods, we show that the number of the copies may be reduced if the class of perturbations in the problem is restricted. We present a two step design procedure for a simple controller containing a reduced order internal model achieving robust regulation. The results are illustrated with an example of a five tank...
Conical-Domain Model for Estimating GPS Ionospheric Delays
Sparks, Lawrence; Komjathy, Attila; Mannucci, Anthony
2009-01-01
The conical-domain model is a computational model, now undergoing development, for estimating ionospheric delays of Global Positioning System (GPS) signals. Relative to the standard ionospheric delay model described below, the conical-domain model offers improved accuracy. In the absence of selective availability, the ionosphere is the largest source of error for single-frequency users of GPS. Because ionospheric signal delays contribute to errors in GPS position and time measurements, satellite-based augmentation systems (SBASs) have been designed to estimate these delays and broadcast corrections. Several national and international SBASs are currently in various stages of development to enhance the integrity and accuracy of GPS measurements for airline navigation. In the Wide Area Augmentation System (WAAS) of the United States, slant ionospheric delay errors and confidence bounds are derived from estimates of vertical ionospheric delay modeled on a grid at regularly spaced intervals of latitude and longitude. The estimate of vertical delay at each ionospheric grid point (IGP) is calculated from a planar fit of neighboring slant delay measurements, projected to vertical using a standard, thin-shell model of the ionosphere. Interpolation on the WAAS grid enables estimation of the vertical delay at the ionospheric pierce point (IPP) corresponding to any arbitrary measurement of a user. (The IPP of a given user s measurement is the point where the GPS signal ray path intersects a reference ionospheric height.) The product of the interpolated value and the user s thin-shell obliquity factor provides an estimate of the user s ionospheric slant delay. Two types of error that restrict the accuracy of the thin-shell model are absent in the conical domain model: (1) error due to the implicit assumption that the electron density is independent of the azimuthal angle at the IPP and (2) error arising from the slant-to-vertical conversion. At low latitudes or at mid
ISO 19152: 2012, Land Administration Domain Model published by ISO
Van Oosterom, P.; Lemmen, C.; Uitermark, H.
2013-01-01
This paper describes the last developments of the Land Administration Domain Model (LADM). The Final Draft International Standard, ISO FDIS 19152, unanimously passed on 1 November 2012 the final vote towards becoming an International Standard (IS). After technical editing by ISO secretariat in Genev
Frequency-domain thermal modelling of power semiconductor devices
DEFF Research Database (Denmark)
Ma, Ke; Blaabjerg, Frede; Andresen, Markus
2015-01-01
to correctly predict the device temperatures, especially when considering the thermal grease and heat sink attached to the power semiconductor devices. In this paper, the frequency-domain approach is applied to the modelling of thermal dynamics for power devices. The limits of the existing RC lump...
Domain Modeling: NP_000271.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_000271.1 chr11 CRYSTAL STRUCTURE OF THE HUMAN PAX-6 PAIRED DOMAIN-DNA COMPLEX RE...VEALS A GENERAL MODEL FOR PAX PROTEIN-DNA INTERACTIONS c6paxa_ chr11/NP_000271.1/NP_000271.1_holo_4-136.pdb
Domain Modeling: NP_002323.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_002323.2 chr12 Haddock model of the complex between double module of LRP, CR56, ...and first domain of receptor associated protein, RAP-d1. p2fylb_ chr12/NP_002323.2/NP_002323.2_holo_2483-255
Modeling protein network evolution under genome duplication and domain shuffling
Directory of Open Access Journals (Sweden)
Isambert Hervé
2007-11-01
Full Text Available Abstract Background Successive whole genome duplications have recently been firmly established in all major eukaryote kingdoms. Such exponential evolutionary processes must have largely contributed to shape the topology of protein-protein interaction (PPI networks by outweighing, in particular, all time-linear network growths modeled so far. Results We propose and solve a mathematical model of PPI network evolution under successive genome duplications. This demonstrates, from first principles, that evolutionary conservation and scale-free topology are intrinsically linked properties of PPI networks and emerge from i prevailing exponential network dynamics under duplication and ii asymmetric divergence of gene duplicates. While required, we argue that this asymmetric divergence arises, in fact, spontaneously at the level of protein-binding sites. This supports a refined model of PPI network evolution in terms of protein domains under exponential and asymmetric duplication/divergence dynamics, with multidomain proteins underlying the combinatorial formation of protein complexes. Genome duplication then provides a powerful source of PPI network innovation by promoting local rearrangements of multidomain proteins on a genome wide scale. Yet, we show that the overall conservation and topology of PPI networks are robust to extensive domain shuffling of multidomain proteins as well as to finer details of protein interaction and evolution. Finally, large scale features of direct and indirect PPI networks of S. cerevisiae are well reproduced numerically with only two adjusted parameters of clear biological significance (i.e. network effective growth rate and average number of protein-binding domains per protein. Conclusion This study demonstrates the statistical consequences of genome duplication and domain shuffling on the conservation and topology of PPI networks over a broad evolutionary scale across eukaryote kingdoms. In particular, scale
Critical domain-wall dynamics of model B.
Dong, R H; Zheng, B; Zhou, N J
2009-05-01
With Monte Carlo methods, we simulate the critical domain-wall dynamics of model B, taking the two-dimensional Ising model as an example. In the macroscopic short-time regime, a dynamic scaling form is revealed. Due to the existence of the quasirandom walkers, the magnetization shows intrinsic dependence on the lattice size L . An exponent which governs the L dependence of the magnetization is measured to be sigma=0.243(8) .
Domain walls and gravitational waves in the Standard Model
Krajewski, Tomasz; Lalak, Zygmunt; Lewicki, Marek; Olszewski, Paweł
2016-12-01
We study domain walls which can be created in the Standard Model under the assumption that it is valid up to very high energy scales. We focus on domain walls interpolating between the physical electroweak vacuum and the global minimum appearing at very high field strengths. The creation of the network which ends up in the electroweak vacuum percolating through the Universe is not as difficult to obtain as one may expect, although it requires certain tuning of initial conditions. Our numerical simulations confirm that such domain walls would swiftly decay and thus cannot dominate the Universe. We discuss the possibility of detection of gravitational waves produced in this scenario. We have found that for the standard cosmology the energy density of these gravitational waves is too small to be observed in present and planned detectors.
Domain walls and gravitational waves in the Standard Model
Krajewski, Tomasz; Lewicki, Marek; Olszewski, Paweł
2016-01-01
We study domain walls which can be created in the Standard Model under the assumption that it is valid up to very high energy scales. We focus on domain walls interpolating between the physical electroweak vacuum and the global minimum appearing at very high field strengths. The creation of the network which ends up in the electroweak vacuum percolating through the Universe is not as difficult to obtain as one may expect, although it requires certain tuning of initial conditions. Our numerical simulations confirm that such domain walls would swiftly decay and thus cannot dominate the Universe. We discuss the possibility of detection of gravitational waves produced in this scenario. We have found that for the standard cosmology the energy density of these gravitational waves is too small to be observed in present and planned detectors.
Realisation of chiral symmetry in the domain model of QCD
Kalloniatis, Alexander C
2003-01-01
The domain model for the QCD vacuum has previously been developed and shown to exhibit confinement of quarks and strong correlation of the local chirality of quark modes and duality of the background domain-like gluon field. Quark fluctuations satisfy a chirality violating boundary conditions parametrized by a random chiral angle $\\alpha_j$ on the $j-th$ domain. The free energy of an ensemble of $N\\to\\infty$ domains depends on $\\{\\alpha_j, j=1... N\\}$ through the logarithm of the quark determinant. Its parity odd part is given by the axial anomaly. The anomaly contribution to the free energy suppresses continuous axial U(1) degeneracy in the ground state, leaving only a residual axial Z(2) symmetry. This discrete symmetry and flavour $SU(N_f)_L\\times SU(N_f)_R$ chiral symmetry in turn are spontaneously broken with a quark condensate arising due to the asymmetry of the spectrum of Dirac operator. In order to illustrate the splitting between the $\\eta'$ from octet pseudoscalar mesons realised in the domain mode...
Bilayer Thickness Mismatch Controls Domain Size in Model Membranes
Energy Technology Data Exchange (ETDEWEB)
Heberle, Frederick A [ORNL; Petruzielo, Robin S [ORNL; Pan, Jianjun [ORNL; Drazba, Paul [ORNL; Kucerka, Norbert [Canadian Neutron Beam Centre and Comelius University (Slovakia); Feigenson, Gerald [Cornell University; Katsaras, John [ORNL
2013-01-01
The observation of lateral phase separation in lipid bilayers has received considerable attention, especially in connection to lipid raft phenomena in cells. It is widely accepted that rafts play a central role in cellular processes, notably signal transduction. While micrometer-sized domains are observed with some model membrane mixtures, rafts much smaller than 100 nm beyond the reach of optical microscopy are now thought to exist, both in vitro and in vivo. We have used small-angle neutron scattering, a probe free technique, to measure the size of nanoscopic membrane domains in unilamellar vesicles with unprecedented accuracy. These experiments were performed using a four-component model system containing fixed proportions of cholesterol and the saturated phospholipid 1,2-distearoyl-sn-glycero-3-phosphocholine (DSPC), mixed with varying amounts of the unsaturated phospholipids 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine (POPC) and 1,2-dioleoylsn- glycero-3-phosphocholine (DOPC). We find that liquid domain size increases with the extent of acyl chain unsaturation (DOPC:POPC ratio). Furthermore, we find a direct correlation between domain size and the mismatch in bilayer thickness of the coexisting liquid-ordered and liquid-disordered phases, suggesting a dominant role for line tension in controlling domain size. While this result is expected from line tension theories, we provide the first experimental verification in free-floating bilayers. Importantly, we also find that changes in bilayer thickness, which accompany changes in the degree of lipid chain unsaturation, are entirely confined to the disordered phase. Together, these results suggest how the size of functional domains in homeothermic cells may be regulated through changes in lipid composition.
DEFF Research Database (Denmark)
Lundby, Alicia; Akemann, Walther; Knöpfel, Thomas
2010-01-01
transfer) signal. Here we report sensing current measurements from VSFP2.3, and show that VSFP2.3 carries 1.2 e sensing charges, which are displaced within 1.5 ms. The sensing currents become faster at higher temperatures, and the voltage dependence of the decay time constants is temperature dependent...
Institute of Scientific and Technical Information of China (English)
ZHAO Chong-bin; Thomas POULET; Klaus REGENAUER-LIEB
2015-01-01
In order to simulate the instability phenomenon of a nonaqueous phase liquid (NAPL) dissolution front in a computational model, the intrinsic characteristic length is commonly used to determine the length scale at which the instability of the NAPL dissolution front can be initiated. This will require a huge number of finite elements if a whole NAPL dissolution system is simulated in the computational model. Even though modern supercomputers might be used to tackle this kind of NAPL dissolution problem, it can become prohibitive for commonly-used personal computers to do so. The main purpose of this work is to investigate whether or not the whole NAPL dissolution system of an annular domain can be replaced by a trapezoidal domain, so as to greatly reduce the requirements for computer efforts. The related simulation results have demonstrated that when the NAPL dissolution system under consideration is in a subcritical state, if the dissolution pattern around the entrance of an annulus domain is of interest, then a trapezoidal domain cannot be used to replace an annular domain in the computational simulation of the NAPL dissolution system. However, if the dissolution pattern away from the vicinity of the entrance of an annulus domain is of interest, then a trapezoidal domain can be used to replace an annular domain in the computational simulation of the NAPL dissolution system. When the NAPL dissolution system under consideration is in a supercritical state, a trapezoidal domain cannot be used to replace an annular domain in the computational simulation of the NAPL dissolution system.
Synthetic Domain Theory and Models of Linear Abadi & Plotkin Logic
DEFF Research Database (Denmark)
Møgelberg, Rasmus Ejlers; Birkedal, Lars; Rosolini, Guiseppe
2008-01-01
Plotkin suggested using a polymorphic dual intuitionistic/linear type theory (PILLY) as a metalanguage for parametric polymorphism and recursion. In recent work the first two authors and R.L. Petersen have defined a notion of parametric LAPL-structure, which are models of PILLY, in which one can...... reason using parametricity and, for example, solve a large class of domain equations, as suggested by Plotkin.In this paper, we show how an interpretation of a strict version of Bierman, Pitts and Russo's language Lily into synthetic domain theory presented by Simpson and Rosolini gives rise...... to a parametric LAPL-structure. This adds to the evidence that the notion of LAPL-structure is a general notion, suitable for treating many different parametric models, and it provides formal proofs of consequences of parametricity expected to hold for the interpretation. Finally, we show how these results...
Contributions of counter-charge in a potassium channel voltage-sensor domain
DEFF Research Database (Denmark)
Pless, Stephan Alexander; Galpin, Jason D; Niciforovic, Ana P
2011-01-01
Voltage-sensor domains couple membrane potential to conformational changes in voltage-gated ion channels and phosphatases. Highly coevolved acidic and aromatic side chains assist the transfer of cationic side chains across the transmembrane electric field during voltage sensing. We investigated...
Domain Modeling: NP_003096.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_003096.1 chr11 Haddock model of the complex between double module of LRP, CR56, ...and first domain of receptor associated protein, RAP-d1. p2fyja_ chr11/NP_003096.1/NP_003096.1_apo_1077-1153....pdb p2fylb_ chr11/NP_003096.1/NP_003096.1_holo_1077-1153.pdb blast 1342W,1343K,1344C,1345D,1346G,1347M,1348
Model Driven Testing of Web Applications Using Domain Specific Language
Viet-Cuong Nguyen
2015-01-01
As more and more systems move to the cloud, the importance of web applications has increased recently. Web applications need more strict requirements in order to sup-port higher availability. The techniques in quality assurance of these applications hence become essential, the role of testing for web application becomes more significant. Model-driven testing is a promising paradigm for the automation of software testing. In the web domain, the challenge however remains in the creation of mode...
Chemical domain of QSAR models from atom-centered fragments.
Kühne, Ralph; Ebert, Ralf-Uwe; Schüürmann, Gerrit
2009-12-01
A methodology to characterize the chemical domain of qualitative and quantitative structure-activity relationship (QSAR) models based on the atom-centered fragment (ACF) approach is introduced. ACFs decompose the molecule into structural pieces, with each non-hydrogen atom of the molecule acting as an ACF center. ACFs vary with respect to their size in terms of the path length covered in each bonding direction starting from a given central atom and how comprehensively the neighbor atoms (including hydrogen) are described in terms of element type and bonding environment. In addition to these different levels of ACF definitions, the ACF match mode as degree of strictness of the ACF comparison between a test compound and a given ACF pool (such as from a training set) has to be specified. Analyses of the prediction statistics of three QSAR models with their training sets as well as with external test sets and associated subsets demonstrate a clear relationship between the prediction performance and the levels of ACF definition and match mode. The findings suggest that second-order ACFs combined with a borderline match mode may serve as a generic and at the same time a mechanistically sound tool to define and evaluate the chemical domain of QSAR models. Moreover, four standard categories of the ACF-based membership to a given chemical domain (outside, borderline outside, borderline inside, inside) are introduced that provide more specific information about the expected QSAR prediction performance. As such, the ACF-based characterization of the chemical domain appears to be particularly useful for QSAR applications in the context of REACH and other regulatory schemes addressing the safety evaluation of chemical compounds.
Mcgreevy, Michael W.
1995-01-01
An objective and quantitative method has been developed for deriving models of complex and specialized spheres of activity (domains) from domain-generated verbal data. The method was developed for analysis of interview transcripts, incident reports, and other text documents whose original source is people who are knowledgeable about, and participate in, the domain in question. To test the method, it is applied here to a report describing a remote sensing project within the scope of the Earth Observing System (EOS). The method has the potential to improve the designs of domain-related computer systems and software by quickly providing developers with explicit and objective models of the domain in a form which is useful for design. Results of the analysis include a network model of the domain, and an object-oriented relational analysis report which describes the nodes and relationships in the network model. Other products include a database of relationships in the domain, and an interactive concordance. The analysis method utilizes a newly developed relational metric, a proximity-weighted frequency of co-occurrence. The metric is applied to relations between the most frequently occurring terms (words or multiword entities) in the domain text, and the terms found within the contexts of these terms. Contextual scope is selectable. Because of the discriminating power of the metric, data reduction from the association matrix to the network is simple. In addition to their value for design. the models produced by the method are also useful for understanding the domains themselves. They can, for example, be interpreted as models of presence in the domain.
Modelling the role of the design context in the design process: a domain-independent approach
Reymen, Isabelle; Kroes, P.; Basten, T; Durling, D.; Shackleton, J.
2002-01-01
Domain-independent models of the design process are an important means for facilitating interdisciplinary communication and for supporting multidisciplinary design. Many so-called domain-independent models are, however, not really domain independent. We state that, to be domain independent, the
Reymen, Isabelle; Hammer, D.K.; Kroes, P.A.; van Aken, Joan Ernst; van Aken, J.E.; Dorst, C.H.; Bax, M.F.T.; Basten, T
2006-01-01
Domain-independent models of the design process are an important means for facilitating interdisciplinary communication and for supporting multidisciplinary design. Many so-called domain-independent models are, however, not really domain independent. We state that to be domain independent, the
Modelling the role of the design context in the design process: a domain-independent approach
Reymen, Isabelle; Kroes, P.; Basten, T; Durling, D.; Shackleton, J
2002-01-01
Domain-independent models of the design process are an important means for facilitating interdisciplinary communication and for supporting multidisciplinary design. Many so-called domain-independent models are, however, not really domain independent. We state that, to be domain independent, the models must abstract from domain-specific aspects, be based on the study of several design disciplines, and be useful for many design disciplines and for multidisciplinary design teams. This paper desc...
The Human-Computer Domain Relation in UX Models
DEFF Research Database (Denmark)
Clemmensen, Torkil
This paper argues that the conceptualization of the human, the computer and the domain of use in competing lines of UX research have problematic similarities and superficial differences. The paper qualitatively analyses concepts and models in five research papers that together represent two...... influential lines of UX research: aesthetics and temporal UX, and two use situations: using a website and starting to use a smartphone. The results suggest that the two lines of UX research share a focus on users’ evaluative judgments of technology, both focuses on product qualities rather than activity...... domains, give little details about users, and treat human-computer interaction as perception. The conclusion gives similarities and differences between the approaches to UX. The implications for theory building are indicated....
Modelling Mixed Discrete-Continuous Domains for Planning
Fox, M; 10.1613/jair.2044
2011-01-01
In this paper we present pddl+, a planning domain description language for modelling mixed discrete-continuous planning domains. We describe the syntax and modelling style of pddl+, showing that the language makes convenient the modelling of complex time-dependent effects. We provide a formal semantics for pddl+ by mapping planning instances into constructs of hybrid automata. Using the syntax of HAs as our semantic model we construct a semantic mapping to labelled transition systems to complete the formal interpretation of pddl+ planning instances. An advantage of building a mapping from pddl+ to HA theory is that it forms a bridge between the Planning and Real Time Systems research communities. One consequence is that we can expect to make use of some of the theoretical properties of HAs. For example, for a restricted class of HAs the Reachability problem (which is equivalent to Plan Existence) is decidable. pddl+ provides an alternative to the continuous durative action model of pddl2.1, adding a more flex...
DEFF Research Database (Denmark)
Mouritsen, Ole G.; Praestgaard, Eigil
1988-01-01
temperature, the domain-growth kinetics is found to be independent of the value of this parameter over several decades of its range. This suggests that a universal principle is operative. The domain-wall shape is analyzed and shown to be well represented by a hyperbolic tangent function. The growth process......The domain-growth kinetics in two different anisotropic two-dimensional XY-spin models is studied by computer simulation. The models have uniaxial and cubic anisotropy which leads to ground-state orderings which are twofold and fourfold degenerate, respectively. The models are quenched from...... infinite to zero temperature as well as to nonzero temperatures below the ordering transition. The continuous nature of the spin variables causes the domain walls to be ‘‘soft’’ and characterized by a finite thickness. The steady-state thickness of the walls can be varied by a model parameter, P. At zero...
Modelling DNA origami self-assembly at the domain level
Energy Technology Data Exchange (ETDEWEB)
Dannenberg, Frits; Kwiatkowska, Marta [Department of Computer Science, University of Oxford, Wolfson Building, Parks Road, Oxford OX1 3QD (United Kingdom); Dunn, Katherine E. [Department of Physics, University of Oxford, Clarendon Laboratory, Parks Road, Oxford OX1 3PU (United Kingdom); Department of Electronics, University of York, York YO10 5DD (United Kingdom); Bath, Jonathan; Turberfield, Andrew J. [Department of Physics, University of Oxford, Clarendon Laboratory, Parks Road, Oxford OX1 3PU (United Kingdom); Ouldridge, Thomas E. [Department of Physics, University of Oxford, Rudolf Peierls Centre for Theoretical Physics, 1 Keble Road, Oxford OX1 3NP (United Kingdom); Department of Mathematics, Imperial College, 180 Queen’s Gate, London SW7 2AZ (United Kingdom)
2015-10-28
We present a modelling framework, and basic model parameterization, for the study of DNA origami folding at the level of DNA domains. Our approach is explicitly kinetic and does not assume a specific folding pathway. The binding of each staple is associated with a free-energy change that depends on staple sequence, the possibility of coaxial stacking with neighbouring domains, and the entropic cost of constraining the scaffold by inserting staple crossovers. A rigorous thermodynamic model is difficult to implement as a result of the complex, multiply connected geometry of the scaffold: we present a solution to this problem for planar origami. Coaxial stacking of helices and entropic terms, particularly when loop closure exponents are taken to be larger than those for ideal chains, introduce interactions between staples. These cooperative interactions lead to the prediction of sharp assembly transitions with notable hysteresis that are consistent with experimental observations. We show that the model reproduces the experimentally observed consequences of reducing staple concentration, accelerated cooling, and absent staples. We also present a simpler methodology that gives consistent results and can be used to study a wider range of systems including non-planar origami.
Clinic expert information extraction based on domain model and block importance model.
Zhang, Yuanpeng; Wang, Li; Qian, Danmin; Geng, Xingyun; Yao, Dengfu; Dong, Jiancheng
2015-11-01
To extract expert clinic information from the Deep Web, there are two challenges to face. The first one is to make a judgment on forms. A novel method based on a domain model, which is a tree structure constructed by the attributes of query interfaces is proposed. With this model, query interfaces can be classified to a domain and filled in with domain keywords. Another challenge is to extract information from response Web pages indexed by query interfaces. To filter the noisy information on a Web page, a block importance model is proposed, both content and spatial features are taken into account in this model. The experimental results indicate that the domain model yields a precision 4.89% higher than that of the rule-based method, whereas the block importance model yields an F1 measure 10.5% higher than that of the XPath method.
Deviatoric constitutive model: domain of strain rate validity
Energy Technology Data Exchange (ETDEWEB)
Zocher, Marvin A [Los Alamos National Laboratory
2009-01-01
A case is made for using an enhanced methodology in determining the parameters that appear in a deviatoric constitutive model. Predictability rests on our ability to solve a properly posed initial boundary value problem (IBVP), which incorporates an accurate reflection of material constitutive behavior. That reflection is provided through the constitutive model. Moreover, the constitutive model is required for mathematical closure of the IBVP. Common practice in the shock physics community is to divide the Cauchy tensor into spherical and deviatoric parts, and to develop separate models for spherical and deviatoric constitutive response. Our focus shall be on the Cauchy deviator and deviatoric constitutive behavior. Discussions related to the spherical part of the Cauchy tensor are reserved for another time. A number of deviatoric constitutive models have been developed for utilization in the solution of IBVPs that are of interest to those working in the field of shock physics, e.g. All of these models are phenomenological and contain a number of parameters that must be determined in light of experimental data. The methodology employed in determining these parameters dictates the loading regime over which the model can be expected to be accurate. The focus of this paper is the methodology employed in determining model parameters and the consequences of that methodology as it relates to the domain of strain rate validity. We shall begin by describing the methodology that is typically employed. We shall discuss limitations imposed upon predictive capability by the typically employed methodology. We shall propose a modification to the typically employed methodology that significantly extends the domain of strain rate validity.
Frequency Domain Modelling of Electromagnetic Wave Propagation in Layered Media
Schmidt, Felix; Lünenschloss, Peter; Mai, Juliane; Wagner, Norman; Töpfer, Hannes; Bumberger, Jan
2016-04-01
The amount of water in porous media such as soils and rocks is a key parameter when water resources are under investigation. Especially the quantitative spatial distribution and temporal evolution of water contents in soil formations are needed. In high frequency electromagnetic applications soil water content is quantitatively derived from the propagation behavior of electromagnetic waves along waveguides embedded in soil formations. The spatial distribution of the dielectric material properties along the waveguide can be estimated by numerical solving of the inverse problem based on the full wave forward model in time or frequency domain. However, current approaches mostly neglect or approximate the frequency dependence of the electromagnetic material properties of transfer function of the waveguide. As a first prove of concept a full two port broadband frequency domain forward model for propagation of transverse electromagnetic (TEM) waves in coaxial waveguide has been implemented. It is based on the propagation matrix approach for layered transmission line sections. Depending on the complexity of the material different models for the frequency dependent complex permittivity were applied. For the validation of the model a broadband frequency domain measurement with network analyzer technique was used. The measurement is based on a 20 cm long 50 Ohm 20/46 coaxial transmission line cell considering inhomogeneous material distributions. This approach allows (i) an increase of the waveguide calibration accuracy in comparison to conventional TDR based technique and (ii) the consideration of the broadband permittivity spectrum of the porous material. In order to systematic analyze the model, theoretical results were compared with measurements as well as 3D broadband finite element modeling of homogeneous and layered media in the coaxial transmission line cell. Defined standards (Teflon, dry glass beads, de-ionized water) were placed inside the line as the dielectric
Domain Modeling: NP_005647.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_005647.2 chr21 Haddock model of the complex between double module of LRP, CR56, ...and first domain of receptor associated protein, RAP-d1. p2fyja_ chr21/NP_005647.2/NP_005647.2_apo_31-110.pd...b p2fylb_ chr21/NP_005647.2/NP_005647.2_holo_31-110.pdb psi-blast 45Y,49V,50P,51Q,52Y,53A,54P,55R,56V,61S,62N,91L,92G,93T,94F,96V,98A,104L,105L _CA 1 ...
On the trigonometric Felderhof model with domain wall boundary conditions
Caradoc, A; Wheeler, M; Zuparic, M; 10.1088/1742-5468/2007/03/P03010
2008-01-01
We consider the trigonometric Felderhof model, of free fermions in an external field, on a finite lattice with domain wall boundary conditions. The vertex weights are functions of rapidities and external fields. We obtain a determinant expression for the partition function in the special case where the dependence on the rapidities is eliminated, but for general external field variables. This determinant can be evaluated in product form. In the homogeneous limit, it is proportional to a 2-Toda tau function. Next, we use the algebraic Bethe ansatz factorized basis to obtain a product expression for the partition function in the general case with dependence on all variables.
Mixed-domain multi-simulator statistical device modeling and yiel-driven design
Bandler, J.W.; Biernacki, R.M.; S. H. Chen
1997-01-01
We present mixed-domain, multi-simulator approaches to device modeling and yield-driven optimization. Intelligent computational interfaces combine and enhance the features of otherwise disjoint simulators. Time-domain, frequency-domain and electromagnetic simulations are integrated for efficient statistical modeling and design with mixed-domain specifications. Our approach is demonstrated by statistical modeling of GaAs MESFETs and yield optimization using, simultaneously, SPICE device models...
Mixed-domain multi-simulator statistical device modeling and yiel-driven design
Bandler, J.W.; Biernacki, R.M.; Chen, S H
1997-01-01
We present mixed-domain, multi-simulator approaches to device modeling and yield-driven optimization. Intelligent computational interfaces combine and enhance the features of otherwise disjoint simulators. Time-domain, frequency-domain and electromagnetic simulations are integrated for efficient statistical modeling and design with mixed-domain specifications. Our approach is demonstrated by statistical modeling of GaAs MESFETs and yield optimization using, simultaneously, SPICE device models...
Towards the maturity model for feature oriented domain analysis
Directory of Open Access Journals (Sweden)
Muhammad Javed
2014-09-01
Full Text Available Assessing the quality of a model has always been a challenge for researchers in academia and industry. The quality of a feature model is a prime factor because it is used in the development of products. A degraded feature model leads the development of low quality products. Few efforts have been made on improving the quality of feature models. This paper is an effort to present our ongoing work i.e. development of FODA (Feature Oriented Domain Analysis maturity model which will help to evaluate the quality of a given feature model. In this paper, we provide the quality levels along with their descriptions. The proposed model consists of four levels starting from level 0 to level 3. Design of each level is based on the severity of errors, whereas severity of errors decreases from level 0 to level 3. We elaborate each level with the help of examples. We borrowed all examples from the material published by the research community of Software Product Lines (SPL for the application of our framework.
Survey of trust models in different network domains
Momani, Mohammad
2010-01-01
This paper introduces the security and trust concepts in wireless sensor networks and explains the difference between them, stating that even though both terms are used interchangeably when defining a secure system, they are not the same. The difference between reputation and trust is also explained, highlighting that reputation partially affects trust. A survey of trust and reputation systems in various domains is conducted, with more details given to models in ad-hoc and sensor networks as they are closely related to each other and to our research interests. The methodologies used to model trust and their references are presented. The factors affecting trust updating are summarised and some examples of the systems in which these factors have been implemented are given. The survey states that, even though researchers have started to explore the issue of trust in wireless sensor networks, they are still examining the trust associated with routing messages between nodes (binary events). However, wireless senso...
Domain-Oriented Subject Aware Model for Multimedia Data Retrieval
Directory of Open Access Journals (Sweden)
Lingling Zi
2013-01-01
Full Text Available With the increment of the scale of internet information as well as the cross-correlation interaction, how to achieve accurate retrieval of multimedia data is an urgent question in terms of efficiently utilizing information resources. However, existing information retrieval approaches provide only limited capabilities to search multimedia data. In order to improve the ability of information retrieval, we propose a domain-oriented subject aware model by introducing three innovative improvements. Firstly, we propose the text-image feature mapping method based on the transfer learning to extract image semantics. Then we put forward the annotation document method to accomplish simultaneous retrieval of multimedia data. Lastly, we present subject aware graph to quantify the semantics of query requirements, which can customize query threshold to retrieve multimedia data. Conducted experiments show that our model obtained encouraging performance results.
Domain-specific modeling enabling full code generation
Kelly, Steven
2007-01-01
Domain-Specific Modeling (DSM) is the latest approach tosoftware development, promising to greatly increase the speed andease of software creation. Early adopters of DSM have been enjoyingproductivity increases of 500–1000% in production for over adecade. This book introduces DSM and offers examples from variousfields to illustrate to experienced developers how DSM can improvesoftware development in their teams. Two authorities in the field explain what DSM is, why it works,and how to successfully create and use a DSM solution to improveproductivity and quality. Divided into four parts, the book covers:background and motivation; fundamentals; in-depth examples; andcreating DSM solutions. There is an emphasis throughout the book onpractical guidelines for implementing DSM, including how toidentify the nece sary language constructs, how to generate fullcode from models, and how to provide tool support for a new DSMlanguage. The example cases described in the book are available thebook's Website, www.dsmbook....
A SIMPLIFIED MODEL FOR DOMAIN SWITCHING OF FERROELECTRIC CRYSTAL
Institute of Scientific and Technical Information of China (English)
HeYansong; FanJinghong
2004-01-01
Domain switching is the main source of nonlinear characteristics in ferroelectrics. According to crystal plasticity theory, the domains and domain switching systems for perovskitetype structure ferroelectrics are defined. Considering the traverse motion performance of domain wall, a rather simplified form of evolution law about incremental of volume fraction during domain switching has been developed. The main factors, which exert an influence on domain switching, such as material parameters, domain wall motion history, kind of domain switching (180° or 90°) and volume fraction, could be addressed. The hysteresis loops of spontaneous electric polarization as a function of electric field, the butterfly shaped strain versus electric field curve and the platform relations between spontaneous polarization and stress, as well as the longitudinal strain and stress, are well simulated and discussed.
Building Domain Specific Enterprise Applications using Model Driven Development
National Research Council Canada - National Science Library
Clarence J M Tauro; N Ganesan; Vijay Gopal M; Rinu Thomas
2012-01-01
...]. On the other hand Domain Driven Design principles addresses the domain problem in a well defined manner that when captured as requirement and developed as a system results in a cohesive system...
A global reference model of the domain name system
Koc, Y.; Jamakovic, A.; Gijsen, B.M.M.
2012-01-01
The domain name system (DNS) is a crucial component of the Internet. At this time, the DNS is facing major changes such as the introduction of DNSSEC and Internationalized Domain Name extensions (IDNs), the adoption of IPv6 and the upcoming extension of new generic top-level domains. These changes c
Impurity-induced antiferromagnetic domains in the periodic Anderson model
Benali, A.; Bai, Z. J.; Curro, N. J.; Scalettar, R. T.
2016-08-01
A central feature of the periodic Anderson model is the competition between antiferromagnetism, mediated by the Ruderman-Kittel-Kasuya-Yosida interaction at small conduction electron-local electron hybridization V , and singlet formation at large V . At zero temperature, and in dimension d >1 , these two phases are separated by a quantum critical point Vc. We use quantum Monte Carlo (QMC) simulations to explore the effect of impurities which have a local hybridization V*Vc . We measure the suppression of singlet correlations and the antiferromagnetic correlations which form around the impurity, as well as the size of the resulting domain. Exact diagonalization calculations for linear chains allow us to verify that the qualitative features obtained at intermediate coupling and finite T persist to strong coupling and T =0 , regimes which are difficult to access with QMC. Our calculations agree qualitatively with NMR measurements in CeCoIn5 -xCdx .
Testing GNSS ionosphere models based on the position domain
Orus-Perez, Raul; Rovira, Adria
2017-04-01
As is well know, the ionosphere is one of the main contributors to the navigation error of single-frequency users. Currently, there are many models available for correcting the ionosphere delay. Thus, the different GNSS provide its own ionosphere corrections in the Signal-in-Space as for instance, NeQuick G for Galileo or Klobuchar for GPS. Other sources for ionosphere corrections are the Satellite Based Augmentation Systems (i.e. EGNOS or WAAS), Global Ionospheric Maps (i.e. provided by IGS), regional maps and even climatological models, like NeQuick or IRI. With this large variety of models, there have been a lot of efforts to define a suitable strategy to test the accuracy of the different models. Usually, this testing has been done by computing a "reference ionosphere", using all kind of GNSS techniques, using ionosonde data or using altimeter data. These techniques are not bias free and they may raise questions on which is the absolute accuracy they achieve. In order to complement these tests, a new methodology has been developed to test ionosphere models for GNSS. This methodology is based on the position domain, modeling the observables on each frequency with geodetic accuracy, and then to combine the obtained least square solutions to determine the ionosphere error. The results of the testing for different GIMs from IGS and different Signal-in-Space models (GPS, Galileo, and EGNOS) will be presented for 2 years of the last Solar Maximum with more than 40 receivers worldwide. The weaknesses and strengths of the new methodology will also be shown to get a comprehensive idea of its capabilities.
Aperture domain model image reconstruction (ADMIRE) with plane wave synthesis
Dei, Kazuyuki; Tierney, Jaime; Byram, Brett
2017-03-01
In our previous studies, we demonstrated that our aperture domain model-based clutter suppression algorithm improved image quality of in vivo B-mode data obtained from focused transmit beam sequences. Our approach suppresses off-axis clutter and reverberation and tackles limitations of related algorithms because it preserves RF channel signals and speckle statistics. We call the algorithm aperture domain model image reconstruction (ADMIRE). We previously focused on reverberation suppression, but ADMIRE is also effective at suppressing off-axis clutter. We are interested in how ADMIRE performs on plane wave sequences and the impact of AD- MIRE applied before and after synthetic beamforming of steered plane wave sequences. We employed simulated phantoms using Field II and tissue-mimicking phantoms to evaluate ADMIRE applied to plane wave sequencing. We generated images acquired from plane waves with and without synthetic aperture synthesis and measured contrast and contrast-to-noise ratio (CNR). For simulated cyst images formed from single plane waves, the contrast for delay-and-sum (DAS) and ADMIRE are 15.64 dB and 28.34 dB, respectively, while the CNR are 1.76 dB and 3.90 dB, respectively. Based on these findings, ADMIRE improves plane wave image quality. We also applied ADMIRE to resolution phantoms having a point target at 3 cm depth on-axis, simulating the point spread functions from data obtained from 1 and 75 steered plane waves, along with linear scan at focus of 3 and 4 cm depth. We then examined the outcome of applying ADMIRE before and after synthetic aperture processing. Finally, we applied this to an in vivo carotid artery.
Domain Modeling: NP_055738.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_055738.3 chr13 Solution structure of the 6th fibronectin type III domain from hu...man fibronectin type III domain containing protein 3 c1x4xa_ chr13/NP_055738.3/NP_055738.3_apo_889-989.pdb psi-blast 0 ...
Domain Modeling: NP_004079.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_004079.3 chr10 The solution structure of the BRCT domain from human polymerase r...eveals homology with the TdT BRCT domain p2htfa_ chr10/NP_004079.3/NP_004079.3_apo_25-125.pdb blast 0 ...
Domain Modeling: NP_067651.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_067651.2 chr4 Crystal Structure of A N-terminal Fragment of SKAP-HOM Containing ...both the Helical Dimerization Domain and the PH Domain c2otxb_ chr4/NP_067651.2/NP_067651.2_apo_1-250.pdb psi-blast 0 ...
Domain Modeling: NP_001035207.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_001035207.1 chr11 Pleckstrin-homology domain (PH domain) c1u2ba_ chr11/NP_001035207.1/NP_001035207....1_apo_1279-1403.pdb d1fgya_ chr11/NP_001035207.1/NP_001035207.1_holo_1279-1403.pdb psi-bl
Domain Modeling: NP_036547.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_036547.1 chr8 FUSION OF N-TERMINAL DOMAIN OF THE MINOR COAT PROTEIN FROM GENE II...I IN PHAGE M13, AND C-TERMINAL DOMAIN OF E. COLI PROTEIN-TOLA c1tola_ chr8/NP_036547.1/NP_036547.1_apo_4-226.pdb swppa 0 ...
Domain Modeling: NP_937872.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_937872.1 chr4 FUSION OF N-TERMINAL DOMAIN OF THE MINOR COAT PROTEIN FROM GENE II...I IN PHAGE M13, AND C-TERMINAL DOMAIN OF E. COLI PROTEIN-TOLA c1tola_ chr4/NP_937872.1/NP_937872.1_apo_857-1037.pdb swppa 0 ...
Domain Modeling: NP_001092103.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_001092103.1 chr19 FUSION OF N-TERMINAL DOMAIN OF THE MINOR COAT PROTEIN FROM GEN...E III IN PHAGE M13, AND C-TERMINAL DOMAIN OF E. COLI PROTEIN-TOLA c1tola_ chr19/NP_001092103.1/NP_001092103.1_apo_24-251.pdb swppa 0 ...
Domain Modeling: NP_004372.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_004372.3 chr6 FUSION OF N-TERMINAL DOMAIN OF THE MINOR COAT PROTEIN FROM GENE II...I IN PHAGE M13, AND C-TERMINAL DOMAIN OF E. COLI PROTEIN-TOLA c1tola_ chr6/NP_004372.3/NP_004372.3_apo_441-674.pdb swppa 0 ...
Domain Modeling: NP_851851.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_851851.1 chr22 BCR-homology GTPase activation domain (BH-domain) d1rgpa_ chr22/NP_851851.1/NP_851851.1..._apo_222-417.pdb d1grnb_ chr22/NP_851851.1/NP_851851.1_holo_222-417.pdb blast 268R GDP 1 ...
Domain Modeling - SAHG | LSDB Archive [Life Science Database Archive metadata
Lifescience Database Archive (English)
Full Text Available English ]; } else { document.getElementById(lang).innerHTML= '[ Japanese | English ]'; } } window.onload = ...) link to Protein Basic Information of the same RefSeqID chromosome Chromosome number of the gene domainIdx
Domain Modeling: NP_005364.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available ECEPTOR [EBP] AND AN INACTIVE PEPTIDE [EMP33] CONTAINS 3,5-DIBROMOTYROSINE IN POSITION 4 (DENOTED DBY) c1cn4...NP_005364.1 chr1 COMPLEX BETWEEN THE EXTRACELLULAR DOMAIN OF ERYTHROPOIETIN (EPO) R
Towards an ontological model defining the social engineering domain
CSIR Research Space (South Africa)
Mouton, F
2014-08-01
Full Text Available information. Although Social Engineering is an important branch of Information Security, the discipline is not well defined; a number of different definitions appear in the literature. Several concepts in the domain of Social Engineering are defined...
Domain Modeling: NP_000206.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available g the Pathogenic K659N Mutation Responsible for an Unclassified Craniosynostosis Syndrome. p1gjoa_ chr19/NP_...NP_000206.2 chr19 Crystal Strucure of FGF Receptor 2 (FGFR2) Kinase Domain Harborin
DSRM: An Ontology Driven Domain Scientific Data Retrieval Model
2013-01-01
With the development of information technology, a large number of domain scientific data have been accumulated with the characteristics of distribution and heterogeneity. It has important significance to acquire exact scientific data from multiple data sources for cooperative research. The existing data integration and information retrieval techniques cannot solve the problems of data semantic heterogeneity and retrieval inaccuracy very well. In this paper, an ontology driven domain scientifi...
Domain Modeling: NP_001001417.5 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_001001417.5 chr17 Crystal structure of the putative RabGAP domain of human TBC1 ...domain family member 14 p2qq8a_ chr17/NP_001001417.5/NP_001001417.5_holo_78-368.pdb psi-blast 153L,156H,201F,202P,205D,278S,279L,307V,308Q,337D,338T,339V UNX 0 ...
Domain Modeling: NP_510961.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_510961.1 chr6 C1 set domains (antibody constant domain-like) d1syva1 chr6/NP_510961.1/NP_510961....1_apo_147-236.pdb d1im9a1 chr6/NP_510961.1/NP_510961.1_holo_147-236.pdb psi-blast 230K,235F,236I ALA,ASP,LYS 1 ...
Domain Modeling: NP_079067.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_079067.2 chr11 CRYSTAL STRUCTURE OF THE 3RD PDZ DOMAIN OF INTESTINE- AND KIDNEY-...ENRICHED PDZ DOMAIN IKEPP (PDZD3) p2v90f_ chr11/NP_079067.2/NP_079067.2_apo_246-339.pdb blast 256P,257Q,282P,283G,284L,287K,288K,336F,337F,338S 0 ...
Domain Modeling: NP_056047.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_056047.1 chr12 Solution structure of the FYVE domain in zinc finger FYVE domain-...containing protein 12 p2yqma_ chr12/NP_056047.1/NP_056047.1_holo_675-757.pdb psi-blast 696T,698T,699L,700S,712S,714Q,715G,716S,717P,719A,720K,722E,723A,740A,741S,743A,744R _ZN 0 ...
Domain Modeling: NP_001003407.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_001003407.1 chr10 NMR structure of the complex between Nck-2 SH3 domain and PINC...H-1 LIM4 domain c1u5sb_ chr10/NP_001003407.1/NP_001003407.1_holo_36-95.pdb psi-blast 39C,41K,42C,59H,62C,65C,67V,68C,69G,70C,85L,86C,89D _ZN 0 ...
Poelmans, J.; Dedene, G.; Snoeck, M.; Viaene, S.; Fox, R.; Golubski, W.
2010-01-01
One of the first steps in a software engineering process is the elaboration of the conceptual domain model. In this paper, we investigate how Formal Concept Analysis can be used to formally underpin the construction of a conceptual domain model. In particular, we demonstrate that intuitive verificat
Domain engineering product lines, languages, and conceptual models
Reinhartz-Berger, Iris; Clark, Tony
2013-01-01
Domain engineering is a set of activities intended to develop, maintain, and manage the creation and evolution of an area of knowledge suitable for processing by a range of software systems. It is of considerable practical significance, as it provides methods and techniques that help reduce time-to-market, development costs, and project risks on one hand, and helps improve system quality and performance on a consistent basis on the other. In this book, the editors present a collection of invited chapters from various fields related to domain engineering. The individual chapters pres
DEFF Research Database (Denmark)
Sosnovsky, Sergey; Dolog, Peter; Henze, Nicola
2007-01-01
The effectiveness of an adaptive educational system in many respects depends on the precision of modeling assumptions it makes about a student. One of the well-known challenges in student modeling is to adequately assess the initial level of student's knowledge when s/he starts working with a sys...
Domain Modeling: NP_002886.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_002886.2 chr20 Crystal structure of the Retinoblastoma protein N-domain provides insight into tumor suppr...ession, ligand interaction and holoprotein architecture p2qdja_ chr20/NP_002886.2/NP_002886.2_apo_18-332.pdb psi-blast 0 ...
Domain Modeling: NP_005602.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_005602.2 chr16 Crystal structure of the Retinoblastoma protein N-domain provides insight into tumor suppr...ession, ligand interaction and holoprotein architecture p2qdja_ chr16/NP_005602.2/NP_005602.2_apo_49-357.pdb blast 0 ...
Domain Modeling: NP_000312.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_000312.2 chr13 Crystal structure of the Retinoblastoma protein N-domain provides insight into tumor suppr...ession, ligand interaction and holoprotein architecture p2qdja_ chr13/NP_000312.2/NP_000312.2_apo_52-355.pdb blast 0 ...
Domain Modeling: NP_899662.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_899662.1 chr20 Crystal structure of the Retinoblastoma protein N-domain provides insight into tumor suppr...ession, ligand interaction and holoprotein architecture p2qdja_ chr20/NP_899662.1/NP_899662.1_apo_18-332.pdb psi-blast 0 ...
Domain Modeling: NP_001035906.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_001035906.1 chr5 CRYSTAL STRUCTURE OF THE C-TERMINAL DOMAIN OF BCLA, THE MAJOR A...NTIGEN OF THE EXOSPORIUM OF THE BACILLUS ANTHRACIS SPORE. p1wcka_ chr5/NP_001035906.1/NP_001035906.1_holo_348-483.pdb swppa 348D,403Y,479I CAC 0 ...
Domain Modeling: NP_001092096.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_001092096.1 chr19 Solution structure of the tandem four zf-C2H2 domain repeats o...f murine GLI-Kruppel family member HKR3 c2dlqa_ chr19/NP_001092096.1/NP_001092096.1_holo_175-290.pdb blast 3
Domain Modeling: NP_006476.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_006476.2 chr22 CRYSTAL STRUCTURE OF FIBRILLIN-1 DOMAINS CBEGF9HYB2CBEGF10, CALCI...UM SATURATED FORM p2w86a_ chr22/NP_006476.2/NP_006476.2_holo_527-599.pdb swppa 527D,528E,544N,545I,546Q,547G
Domain Modeling: NP_085116.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_085116.2 chr5 Solution structure of the tandem four zf-C2H2 domain repeats of mu...rine GLI-Kruppel family member HKR3 c2dlqa_ chr5/NP_085116.2/NP_085116.2_holo_209-322.pdb blast 216C,218E,21
Domain Modeling: NP_940886.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_940886.1 chr3 Solution structure of the tandem four zf-C2H2 domain repeats of mu...rine GLI-Kruppel family member HKR3 c2dlqa_ chr3/NP_940886.1/NP_940886.1_holo_320-436.pdb psi-blast 321C,323
Domain Modeling: NP_002796.4 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_002796.4 chr17 PROTEASOME-ACTIVATING NUCLEOTIDASE (PAN) N-DOMAIN (57-134) FROM A...RCHAEOGLOBUS FULGIDUS FUSED TO GCN4 p2wg5l_ chr17/NP_002796.4/NP_002796.4_apo_42-128.pdb psi-blast 0 ...
Domain Modeling: NP_055306.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_055306.1 chr7 Structure of the DNA binding domains of NFAT and FOXP2 bound speci...fically to DNA. c2as5g_ chr7/NP_055306.1/NP_055306.1_holo_503-584.pdb blast 503V,504R,507F,508T,509Y,527L,52
Domain Modeling: NP_852466.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_852466.1 chr3 Solution structure of the tandem four zf-C2H2 domain repeats of mu...rine GLI-Kruppel family member HKR3 c2dlqa_ chr3/NP_852466.1/NP_852466.1_holo_673-813.pdb blast 926R,928P,92
Domain Modeling: NP_694946.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_694946.1 chr2 NMR Study of the Fibrillin-1 cbEGF12-13 Pair of Ca2+ Binding Epide...rmal Growth Factor-like Domains c1lmja_ chr2/NP_694946.1/NP_694946.1_holo_178-268.pdb psi-blast 179A,180P,18
Domain Modeling: NP_073738.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_073738.2 chr17 atomic resolution crystal structure of the C-terminal domain of the electron transfer cata...lyst DsbD (reduced form at pH7) d2fwga1 chr17/NP_073738.2/NP_073738.2_apo_91-215.pd
Domain minimization and beyond: Modeling prepositional phrase ordering
Wiechmann, D.; Lohmann, A.
2013-01-01
An important account of linear ordering in syntax is John A. Hawkins' (2004) theory of cognitive efficiency and the principles of domain minimization formulated therein. In its latest formulation, the theory postulates syntactic and semantic minimization principles. With regard to the relative stren
Domain Modeling: NP_113674.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_113674.1 chr9 Structure of the Wilms Tumor Suppressor Protein Zinc Finger Domain... Bound to DNA p2prta_ chr9/NP_113674.1/NP_113674.1_holo_300-406.pdb blast 414C,415T,416E,417C,419K,430H,434H
Domain Modeling: NP_056154.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_056154.1 chr20 Solution structure of the tandem four zf-C2H2 domain repeats of m...urine GLI-Kruppel family member HKR3 c2dlqa_ chr20/NP_056154.1/NP_056154.1_holo_623-739.pdb psi-blast 624C,6
Domain Modeling: NP_150634.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_150634.1 chr11 Procaspase-1 zymogen domain crystal strucutre p3e4cb_ chr11/NP_150634.1/NP_150634....1_holo_128-404.pdb blast 148K,365D,367E,368E 130E,132N,133V,134K,135L,136C,137S,138L,141A,1
Domain Modeling: NP_852114.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_852114.1 chr17 The Crystal Structure of the Extracellular Domain of the Inhibito...r Receptor Expressed on Myeloid Cells IREM-1 p2nmsa_ chr17/NP_852114.1/NP_852114.1_apo_14-131.pdb blast 0 ...
Domain Modeling: NP_065184.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_065184.2 chr1 Solution structure of the tandem four zf-C2H2 domain repeats of mu...rine GLI-Kruppel family member HKR3 c2dlqa_ chr1/NP_065184.2/NP_065184.2_holo_267-376.pdb psi-blast 274A,276
Domain Modeling: NP_058634.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_058634.2 chr11 CRYSTAL STRUCTURE OF FIBRILLIN-1 DOMAINS CBEGF9HYB2CBEGF10, CALCI...UM SATURATED FORM p2w86a_ chr11/NP_058634.2/NP_058634.2_holo_14-160.pdb psi-blast 14L,15W,16A,17L,31E,32E,33
Domain Modeling: NP_777594.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_777594.1 chr11 Solution structure of the first ig-like domain of signal-regulato...ry protein beta-1 (SIRP-beta-1) p2d9ca_ chr11/NP_777594.1/NP_777594.1_apo_24-167.pdb psi-blast 0 ...
Domain Modeling: NP_004984.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_004984.2 chr14 De-ubiquitinating function of ataxin-3: insights from the solutio...n structure of the Josephin domain p2agaa_ chr14/NP_004984.2/NP_004984.2_apo_1-185.pdb blast 14C,119H,134N 0 ...
Domain Modeling: NP_004524.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_004524.3 chr19 Solution structure of the third ig-like domain from human Myosin-...binding protein C, fast-type p2edka_ chr19/NP_004524.3/NP_004524.3_apo_345-438.pdb blast 0 ...
Domain Modeling: NP_001035845.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available s: Role of Inter-Domain Dynamics in Catalysis and Specificity p1yr2a_ chr2/NP_001035845.1/NP_001035845.1_apo_15-650.pdb psi-blast 0 ... ...NP_001035845.1 chr2 Structural and Mechanistic Analysis of Two Prolyl Endopeptidase
Domain Modeling: NP_006027.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_006027.2 chr2 Structural and Mechanistic Analysis of Two Prolyl Endopeptidases: Role of Inter-Domain Dyna...mics in Catalysis and Specificity p1yr2a_ chr2/NP_006027.2/NP_006027.2_apo_44-716.pdb psi-blast 559S,645D,690H 0 ...
Domain Modeling: NP_689585.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_689585.3 chr1 Solution structure of the fibronectin type-III domain of mouse myo...sin-binding protein C, Fast-type homolog c1x5ya_ chr1/NP_689585.3/NP_689585.3_apo_1004-1106.pdb psi-blast 0 ...
Domain Modeling: NP_055758.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_055758.1 chr8 Solution Structure of the second Homeobox Domain of Human Homeodomain Leucine Zipper-Encodi...ng Gene (Homez) c2ecca_ chr8/NP_055758.1/NP_055758.1_apo_628-698.pdb blast 0 ...
Domain Modeling: NP_009133.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_009133.2 chr17 THE CRYSTAL STRUCTURE OF THE HUMAN G-PROTEIN SUBUNIT ALPHA (GNAI3) IN COMPLEX WITH AN ENGI...NEERED REGULATOR OF G-PROTEIN SIGNALING TYPE 2 DOMAIN (RGS2) p2v4zb_ chr17/NP_009133.2/NP_009133.2_apo_368-505.pdb psi-blast 0 ...
Domain Modeling: NP_003794.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_003794.3 chr18 Crystal structure of a prolactin receptor antagonist bound to the... extracellular domain of the prolactin receptor c3d48r_ chr18/NP_003794.3/NP_003794.3_holo_933-1136.pdb psi-blast 0 ...
Domain Modeling: NP_660281.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_660281.2 chr1 Structure of the Wilms Tumor Suppressor Protein Zinc Finger Domain... Bound to DNA p2prta_ chr1/NP_660281.2/NP_660281.2_holo_261-368.pdb psi-blast 265T,266S,267E,268K,270Q,271G,
Domain Modeling: NP_722581.4 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_722581.4 chr6 EGF DOMAINS 1,2,5 OF HUMAN EMR2, A 7-TM IMMUNE SYSTEM MOLECULE, IN... COMPLEX WITH STRONTIUM. p2boxa_ chr6/NP_722581.4/NP_722581.4_holo_4-128.pdb psi-blast 24Q,37P,38H,39G,40V,4
Domain Modeling: NP_115871.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_115871.1 chr19 Catalytic, N-terminal domain of histone methyltransferase Dot1l d1nw3a_ chr19/NP_115871....1/NP_115871.1_holo_5-332.pdb blast 133P,134E,135V,136Y,137G,138E,139T,161D,162L,163G,
Domain Modeling: NP_055062.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available formation of the Tandem PDZ Domains c1u3ba_ chr4/NP_055062.1/NP_055062.1_apo_249-480.pdb swppa 0 ... ...NP_055062.1 chr4 Auto-inhibition Mechanism of X11s/Mints Family Scaffold Proteins Revealed by the Closed Con
Domain Modeling: NP_001154.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available formation of the Tandem PDZ Domains c1u3ba_ chr9/NP_001154.2/NP_001154.2_apo_655-837.pdb blast 0 ... ...NP_001154.2 chr9 Auto-inhibition Mechanism of X11s/Mints Family Scaffold Proteins Revealed by the Closed Con
Domain Modeling: NP_005494.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available Revealed by the Closed Conformation of the Tandem PDZ Domains c1u3ba_ chr15/NP_005494.2/NP_005494.2_apo_567-749.pdb blast 0 ... ...NP_005494.2 chr15 Auto-inhibition Mechanism of X11s/Mints Family Scaffold Proteins
Domain Modeling: NP_057547.5 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_057547.5 chr5 SOLUTION STRUCTURE OF THE NONMETHYL-CPG-BINDING CXXC DOMAIN OF THE... LEUKAEMIA-ASSOCIATED MLL HISTONE METHYLTRANSFERASE p2j2sa_ chr5/NP_057547.5/NP_057547.5_holo_252-316.pdb ps
Domain Modeling: NP_066971.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_066971.2 chr7 Solution structure of the tandem four zf-C2H2 domain repeats of mu...rine GLI-Kruppel family member HKR3 c2dlqa_ chr7/NP_066971.2/NP_066971.2_holo_341-454.pdb blast 348C,350E,35
Domain Modeling: NP_006291.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_006291.2 chr19 Solution structure of the tandem four zf-C2H2 domain repeats of m...urine GLI-Kruppel family member HKR3 c2dlqa_ chr19/NP_006291.2/NP_006291.2_holo_163-276.pdb blast 170C,172E,
Domain Modeling: NP_000431.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_000431.1 chr5 Crystal Structure of the Tandem GAF Domains from a Cyanobacterial ...Adenylyl Cyclase: Novel Modes of Ligand-Binding and Dimerization p1ykdb_ chr5/NP_000431.1/NP_000431.1_holo_68-441.
Domain Modeling: NP_872621.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_872621.1 chrX CRYSTAL STRUCTURE OF THE C-TERMINAL DOMAIN OF BCLA, THE MAJOR ANTI...GEN OF THE EXOSPORIUM OF THE BACILLUS ANTHRACIS SPORE. p1wcka_ chrX/NP_872621.1/NP_872621.1_holo_42-181.pdb swppa 42N,97H,177P,179Q CAC 0 ...
Domain Modeling: NP_003791.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_003791.3 chr6 CRYSTAL STRUCTURE OF THE RNA TRIPHOSPHATASE DOMAIN OF MOUSE MRNA C...APPING ENZYME p2c46d_ chr6/NP_003791.3/NP_003791.3_apo_4-200.pdb p1i9sa_ chr6/NP_003791.3/NP_003791.3_holo_4
Domain Modeling: NP_071911.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_071911.3 chr10 Solution structure of the tandem four zf-C2H2 domain repeats of m...urine GLI-Kruppel family member HKR3 c2dlqa_ chr10/NP_071911.3/NP_071911.3_holo_111-217.pdb psi-blast 112C,1
Domain Modeling: NP_981961.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_981961.1 chr12 Crystal structure analysis of the monomeric SRCR domain of mouse ...MARCO p2oyaa_ chr12/NP_981961.1/NP_981961.1_apo_479-577.pdb p2oy3a_ chr12/NP_981961.1/NP_981961.1_holo_479-5
Domain Modeling: NP_001096121.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_001096121.1 chr19 CO-CRYSTAL STRUCTURE OF HUMAN YY1 ZINC FINGER DOMAIN BOUND TO ...THE ADENO-ASSOCIATED VIRUS P5 INITIATOR ELEMENT c1ubdc_ chr19/NP_001096121.1/NP_001096121.1_holo_273-375.pdb
Domain Modeling: NP_733751.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_733751.2 chr7 Methyltransferase domain of human suppressor of variegation 3-9 ho...molog 2 p2r3aa_ chr7/NP_733751.2/NP_733751.2_holo_4641-4911.pdb swppa 4707G,4708C,4709A,4710R,4711S,4712E,47
Domain Modeling: NP_775751.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_775751.1 chr19 Solution structure of the tandem four zf-C2H2 domain repeats of m...urine GLI-Kruppel family member HKR3 c2dlqa_ chr19/NP_775751.1/NP_775751.1_holo_331-443.pdb blast 338C,340H,
Domain Modeling: NP_001070991.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_001070991.1 chr19 CRYSTAL STRUCTURE OF THE ALPHA-ADAPTIN APPENDAGE DOMAIN, FROM ...ANIN P170 c1b9ka_ chr19/NP_001070991.1/NP_001070991.1_apo_861-1109.pdb c2vj0a_ chr19/NP_001070991.1/NP_001070991.
Domain Modeling: NP_008881.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_008881.2 chrX Crystal Structure of Rat Synapsin I C Domain Complexed to Ca.ATP (...Form 1) c1px2b_ chrX/NP_008881.2/NP_008881.2_holo_113-417.pdb blast 188H,225K,267V,269K,273A,274H,275S,276G,
Domain Modeling: NP_002370.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_002370.1 chr1 HIGH-RESOLUTION SOLUTION NMR STRUCTURE OF THE TRIMERIC COILED-COIL... DOMAIN OF CHICKEN CARTILAGE MATRIX PROTEIN, 20 STRUCTURES c1aq5c_ chr1/NP_002370.1/NP_002370.1_apo_453-496.pdb blast E2M 0 ...
Domain Modeling: NP_064562.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_064562.1 chr5 The Crystal Structure of a Partial Mouse Notch-1 Ankyrin Domain: Repeats 4 Through 7 Preser...ve an Ankyrin Fold p1ympb_ chr5/NP_064562.1/NP_064562.1_apo_474-612.pdb psi-blast 0 ...
Domain Modeling: NP_065070.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_065070.1 chr4 The Crystal Structure of a Partial Mouse Notch-1 Ankyrin Domain: Repeats 4 Through 7 Preser...ve an Ankyrin Fold p1ympb_ chr4/NP_065070.1/NP_065070.1_apo_969-1098.pdb blast 0 ...
Domain Modeling: NP_149417.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_149417.1 chr6 The Crystal Structure of a Partial Mouse Notch-1 Ankyrin Domain: Repeats 4 Through 7 Preser...ve an Ankyrin Fold p1ympb_ chr6/NP_149417.1/NP_149417.1_apo_1-124.pdb psi-blast 0 ...
Domain Modeling: NP_060314.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_060314.2 chr2 The Crystal Structure of a Partial Mouse Notch-1 Ankyrin Domain: Repeats 4 Through 7 Preser...ve an Ankyrin Fold p1ympb_ chr2/NP_060314.2/NP_060314.2_apo_19-138.pdb psi-blast 0 ...
Domain Modeling: NP_075392.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_075392.2 chr2 The Crystal Structure of a Partial Mouse Notch-1 Ankyrin Domain: Repeats 4 Through 7 Preser...ve an Ankyrin Fold p1ympb_ chr2/NP_075392.2/NP_075392.2_apo_402-524.pdb psi-blast 0 ...
Domain Modeling: NP_653309.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_653309.2 chr2 The Crystal Structure of a Partial Mouse Notch-1 Ankyrin Domain: Repeats 4 Through 7 Preser...ve an Ankyrin Fold p1ympb_ chr2/NP_653309.2/NP_653309.2_apo_357-481.pdb psi-blast 0 ...
Domain Modeling: NP_064562.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_064562.1 chr5 The Crystal Structure of a Partial Mouse Notch-1 Ankyrin Domain: Repeats 4 Through 7 Preser...ve an Ankyrin Fold p1ympb_ chr5/NP_064562.1/NP_064562.1_apo_314-468.pdb psi-blast 0 ...
Domain Modeling: NP_932326.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_932326.2 chr10 The Crystal Structure of a Partial Mouse Notch-1 Ankyrin Domain: Repeats 4 Through 7 Prese...rve an Ankyrin Fold p1ympb_ chr10/NP_932326.2/NP_932326.2_apo_230-367.pdb psi-blast 0 ...
Domain Modeling: NP_060405.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_060405.3 chr4 The Crystal Structure of a Partial Mouse Notch-1 Ankyrin Domain: Repeats 4 Through 7 Preser...ve an Ankyrin Fold p1ympb_ chr4/NP_060405.3/NP_060405.3_apo_653-782.pdb psi-blast 0 ...
Domain Modeling: NP_569058.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_569058.1 chr3 The Crystal Structure of a Partial Mouse Notch-1 Ankyrin Domain: Repeats 4 Through 7 Preser...ve an Ankyrin Fold p1ympb_ chr3/NP_569058.1/NP_569058.1_apo_128-246.pdb psi-blast 0 ...
Domain Modeling: NP_064562.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_064562.1 chr5 The Crystal Structure of a Partial Mouse Notch-1 Ankyrin Domain: Repeats 4 Through 7 Preser...ve an Ankyrin Fold p1ympb_ chr5/NP_064562.1/NP_064562.1_apo_174-308.pdb psi-blast 0 ...
Domain Modeling: NP_004534.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_004534.2 chr2 The Crystal Structure of a Partial Mouse Notch-1 Ankyrin Domain: Repeats 4 Through 7 Preser...ve an Ankyrin Fold p1ympb_ chr2/NP_004534.2/NP_004534.2_apo_2171-2302.pdb psi-blast 0 ...
Partitioning of Lipids at Domain Boundaries in Model Membranes
Schafer, Lars V.; Marrink, Siewert J.
2010-01-01
Line-active molecules ("linactants") that bind to the boundary interface between different fluid lipid domains in membranes have a strong potential as regulators of the lateral heterogeneity that is important for many biological processes. Here, we use molecular dynamics simulations in combination w
Domain Modeling: NP_005332.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_005332.1 chr1 Structure of the Wilms Tumor Suppressor Protein Zinc Finger Domain... Bound to DNA p2prta_ chr1/NP_005332.1/NP_005332.1_holo_463-600.pdb blast 467C,468E,469F,470C,472H,483H,487H
Domain Modeling: NP_036472.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_036472.2 chr20 Structure of the DNA binding domains of NFAT and FOXP2 bound spec...ifically to DNA. c2as5n_ chr20/NP_036472.2/NP_036472.2_holo_392-678.pdb blast 421R,424Y,426T,427E,428G,429S,
Domain Modeling: NP_006052.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_006052.1 chr6 The cysteine-rich secretory protein domain of Tpx-1 is related to ...ion channel toxins and regulates Ryanodine receptor Ca2+ signaling p2a05a_ chr6/NP_006052.1/NP_006052.1_apo_189-245.pdb blast 0 ...
Domain Modeling: NP_003990.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available leukin-6 receptor c2arwa_ chr5/NP_003990.1/NP_003990.1_apo_28-139.pdb psi-blast 0 ... ...NP_003990.1 chr5 The solution structure of the membrane proximal cytokine receptor domain of the human inter
Domain Modeling: NP_071431.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available leukin-6 receptor c2arwa_ chrX/NP_071431.2/NP_071431.2_apo_116-210.pdb psi-blast 0 ... ...NP_071431.2 chrX The solution structure of the membrane proximal cytokine receptor domain of the human inter
Domain Modeling: NP_071431.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available leukin-6 receptor c2arwa_ chrY/NP_071431.2/NP_071431.2_apo_116-210.pdb psi-blast 0 ... ...NP_071431.2 chrY The solution structure of the membrane proximal cytokine receptor domain of the human inter
Domain Modeling: NP_690007.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_690007.1 chr19 Crystal structure of a high affinity heterodimer of HIF2 alpha an...d ARNT C-terminal PAS domains p3f1pa_ chr19/NP_690007.1/NP_690007.1_apo_234-344.pdb blast 0 ...
Domain Modeling: NP_996777.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_996777.2 chr19 Structure of the Wilms Tumor Suppressor Protein Zinc Finger Domai...n Bound to DNA p2prta_ chr19/NP_996777.2/NP_996777.2_holo_504-611.pdb blast 508C,509E,511C,513K,524H,528H,53
Domain Modeling: NP_002837.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_002837.1 chr2 Crystal structure of the phosphatase domain of human PTP IA-2 p2i1yb_ chr2/NP_002837....1/NP_002837.1_apo_687-976.pdb blast 706R,710A,814E,815D,847E,876P,877A,878E,879G,880T,882
Domain Modeling: NP_005627.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_005627.1 chrX Structure of the Wilms Tumor Suppressor Protein Zinc Finger Domain... Bound to DNA p2prta_ chrX/NP_005627.1/NP_005627.1_holo_79-178.pdb psi-blast 83D,84F,95E,96R,98Q,99M,104L,10
Domain Modeling: NP_065137.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_065137.1 chr11 NMR Study of the Fibrillin-1 cbEGF12-13 Pair of Ca2+ Binding Epid...ermal Growth Factor-like Domains c1lmja_ chr11/NP_065137.1/NP_065137.1_holo_269-351.pdb psi-blast 540G,541T,
Domain Modeling: NP_001093587.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_001093587.1 chr8 STRUCTURAL BASIS FOR A MUNC13-1 DIMERIC - MUNC13-1 - RIM HETERO...DIMER SWITCH: C2-DOMAINS AS VERSATILE PROTEIN-PROTEIN INTERACTION MODULES p2cjsc_ chr8/NP_001093587.1/NP_001093587.
Domain Modeling: NP_005797.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_005797.1 chr21 Crystal Structure of the basic-helix-loop-helix domains of the he...terodimer E47/NeuroD1 bound to DNA p2ql2d_ chr21/NP_005797.1/NP_005797.1_holo_110-166.pdb blast 113I,114N,11
Domain Modeling: NP_001035932.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_001035932.1 chr2 Crystal structure of the small GTPase Rab27B complexed with the... Slp homology domain of Slac2-a/melanophilin p2zetd_ chr2/NP_001035932.1/NP_001035932.1_holo_4-144.pdb blast
Domain Modeling: NP_001001662.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_001001662.1 chr9 CO-CRYSTAL STRUCTURE OF HUMAN YY1 ZINC FINGER DOMAIN BOUND TO T...HE ADENO-ASSOCIATED VIRUS P5 INITIATOR ELEMENT c1ubdc_ chr9/NP_001001662.1/NP_001001662.1_holo_483-585.pdb b
Domain Modeling: NP_006652.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_006652.1 chr6 Crystal structure of the C-terminal GAF domain of human phosphodie...sterase 10A p2zmfb_ chr6/NP_006652.1/NP_006652.1_holo_74-240.pdb psi-blast 286R,287C,288A,290F,304F,305D,306
Domain Modeling: NP_473452.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_473452.2 chr6 Crystal Structure of the Catalytic and CaM-Binding domains of Inos...itol 1,4,5-Trisphosphate 3-Kinase B p2aqxb_ chr6/NP_473452.2/NP_473452.2_holo_126-408.pdb psi-blast 141K,142
Domain Modeling: NP_001007472.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_001007472.2 chr9 Crystal Structure of the Ankyrin Repeat Domain of Trpv1 p2pnna_ chr9/NP_001007472....2/NP_001007472.2_holo_484-756.pdb psi-blast 491L,536Y,539V,540R,570Y,575T,578R,583Y,586L,587F,607R ATP 0 ...
Domain Modeling: NP_109592.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_109592.1 chr12 Structure of the catalytic domain of the chick retinal neurite in...hibitor-Receptor Protein Tyrosine Phosphatase CRYP-2/cPTPRO p2pi7b_ chr12/NP_109592.1/NP_109592.1_holo_912-1
Domain Modeling: NP_115622.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_115622.2 chr15 Crystal structure of the third KH domain of human Poly(C)-Binding... Protein-2 in complex with C-rich strand of human telomeric DNA p2p2ra_ chr15/NP_115622.2/NP_115622.2_holo_3
Domain Modeling: NP_002832.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_002832.2 chr3 Crystal structure of D1 and D2 catalytic domains of human Protein ...Tyrosine Phosphatase Gamma (D1+D2 PTPRG) p2nlka_ chr3/NP_002832.2/NP_002832.2_apo_827-1412.pdb blast 1028D,1
Domain Modeling: NP_115992.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_115992.1 chr2 Crystal structure analysis of the monomeric SRCR domain of mouse M...ARCO p2oyab_ chr2/NP_115992.1/NP_115992.1_apo_306-406.pdb p2oy3a_ chr2/NP_115992.1/NP_115992.1_holo_306-406.
Domain Modeling: NP_001017992.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_001017992.1 chr5 Ternary complex of the WH2 domain of WASP with Actin-DNAse I p3byha_ chr5/NP_001017992....1/NP_001017992.1_apo_3-376.pdb p2a3za_ chr5/NP_001017992.1/NP_001017992.1_holo_3-376
Domain Modeling: NP_056363.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_056363.2 chr6 Crystal Structure of a protease resistant fragment of the plakin d...omain of Bullous Pemphigoid Antigen1 (BPAG1) p2iaka_ chr6/NP_056363.2/NP_056363.2_apo_2084-2313.pdb swppa 0 ...
Domain Modeling: NP_150643.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_150643.2 chr1 INTEGRIN BINDING CBEGF22-TB4-CBEGF33 FRAGMENT OF HUMAN FIBRILLIN-1..., CA BOUND TO CBEGF23 DOMAIN ONLY c1uzpa_ chr1/NP_150643.2/NP_150643.2_apo_593-752.pdb c1uzka_ chr1/NP_150643.2/NP_150643.
Domain Modeling: NP_955533.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_955533.1 chr1 ADR1 DNA-BINDING DOMAIN FROM SACCHAROMYCES CEREVISIAE, NMR, 25 STR...UCTURES c2adra_ chr1/NP_955533.1/NP_955533.1_holo_421-472.pdb psi-blast 636D,637K,639K,641K,656P,669Y,671Q,672H,673S _ZN 0 ...
Domain Modeling: NP_115873.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_115873.1 chr17 Crystal structure of a domain of phenylacetate-coenzyme A ligase ...from Bacteroides vulgatus ATCC 8482 p3gxsa_ chr17/NP_115873.1/NP_115873.1_apo_386-519.pdb psi-blast 0 ...
Domain Modeling: NP_115823.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_115823.3 chr19 NMR Study of the Fibrillin-1 cbEGF12-13 Pair of Ca2+ Binding Epid...ermal Growth Factor-like Domains c1lmja_ chr19/NP_115823.3/NP_115823.3_holo_723-805.pdb blast 2733L,2734E,27
Domain Modeling: NP_066003.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_066003.3 chr9 Crystal Structure of an antiparallel coiled-coil tetramerization d...omain from TRPM7 channels p3e7kh_ chr9/NP_066003.3/NP_066003.3_apo_1066-1117.pdb psi-blast 0 ...
Domain Modeling: NP_055243.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_055243.1 chr19 Solution Structure of the RIM1alpha PDZ Domain in Complex with an... ELKS1b C-terminal Peptide c1zuba_ chr19/NP_055243.1/NP_055243.1_holo_394-494.pdb psi-blast 413D,415R,424S,4
Domain Modeling: NP_008877.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available olution p2eyna_ chr11/NP_008877.1/NP_008877.1_apo_52-281.pdb blast 0 ... ...NP_008877.1 chr11 Crystal structure of the actin-binding domain of human alpha-actinin 1 at 1.8 Angstrom res
Domain Modeling: NP_057199.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_057199.1 chr2 The Crystal Structure of a Partial Mouse Notch-1 Ankyrin Domain: Repeats 4 Through 7 Preser...ve an Ankyrin Fold p1ympb_ chr2/NP_057199.1/NP_057199.1_apo_239-364.pdb psi-blast 0 ...
Domain Modeling: NP_000368.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_000368.1 chrX Solution Structure of the GTPase Binding Domain of WASP in Complex with EspFU, an EHEC Effe...ctor p2k42a_ chrX/NP_000368.1/NP_000368.1_apo_239-310.pdb blast 0 ...
Domain Modeling: NP_003932.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_003932.3 chr7 Solution Structure of the GTPase Binding Domain of WASP in Complex with EspFU, an EHEC Effe...ctor p2k42a_ chr7/NP_003932.3/NP_003932.3_apo_204-275.pdb blast 0 ...
Domain Modeling: NP_055672.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_055672.3 chr1 Solution structure of the chimera of the C-terminal PID domain of ...Fe65L and the C-terminal tail peptide of APP p2ysza_ chr1/NP_055672.3/NP_055672.3_apo_116-314.pdb swppa 0 ...
Domain Modeling: NP_002002.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_002002.3 chr5 Crystal Structure of Unphosphorylated Unactivated Wild Type FGF Re...ceptor 2 (FGFR2) Kinase Domain c2psqb_ chr5/NP_002002.3/NP_002002.3_apo_453-752.pdb blast 477C,478F,479G,503K,612D,614A,616R 0 ...
Domain Modeling: NP_037512.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_037512.3 chr19 Solution structure of the tandem four zf-C2H2 domain repeats of m...urine GLI-Kruppel family member HKR3 c2dlqa_ chr19/NP_037512.3/NP_037512.3_holo_542-655.pdb blast 549C,551E,
Domain Modeling: NP_787052.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_787052.3 chr5 CRYSTAL STRUCTURE OF THE C-TERMINAL DOMAIN OF BCLA, THE MAJOR ANTI...GEN OF THE EXOSPORIUM OF THE BACILLUS ANTHRACIS SPORE. p1wcka_ chr5/NP_787052.3/NP_787052.3_holo_32-158.pdb swppa 32A,80R CAC 0 ...
Domain Modeling: NP_006732.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_006732.3 chr12 CRYSTAL STRUCTURE OF THE C-TERMINAL DOMAIN OF BCLA, THE MAJOR ANT...IGEN OF THE EXOSPORIUM OF THE BACILLUS ANTHRACIS SPORE. p1wcka_ chr12/NP_006732.3/NP_006732.3_holo_32-167.pdb swppa 32R,87M,89E,163L CAC 0 ...
Domain Modeling: NP_060562.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_060562.3 chr16 Crystal Structure of the CUB1-EGF Interaction Domain of Complemen...t Protease C1s c1nzib_ chr16/NP_060562.3/NP_060562.3_holo_183-338.pdb psi-blast 197E,216K,229E,237N,276A,277
Domain Modeling: NP_060142.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_060142.3 chr15 Crystal Structure of an antiparallel coiled-coil tetramerization ...domain from TRPM7 channels p3e7kh_ chr15/NP_060142.3/NP_060142.3_apo_1198-1249.pdb blast 1200T,1201F,1203R,1
Domain Modeling: NP_067072.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_067072.3 chr14 The crystal structure of the BAR domain from human Bin1/Amphiphys...in II and its implications for molecular recognition p2ficb_ chr14/NP_067072.3/NP_067072.3_holo_90-290.pdb swppa 257F,258R,261L _XE 0 ...
Domain Modeling: NP_060142.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_060142.3 chr15 Crystal structure of the ankyrin repeat domain of TRPV2 p2etcb_ chr15/NP_060142.3.../NP_060142.3_apo_483-742.pdb p2etba_ chr15/NP_060142.3/NP_060142.3_holo_483-742.pdb psi-blas
Domain Modeling: NP_002218.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available ation Responsible for Crouzon Syndrome p1gjoa_ chr1/NP_002218.2/NP_002218.2_apo_863...NP_002218.2 chr1 Crystal Strucure of FGF Receptor 2 (FGFR2) Kinase Domain Harboring the Pathogenic K526E Mut
Domain Modeling: NP_004231.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_004231.1 chr19 NMR Structure Analysis of the Hematopoetic Cell Kinase SH3 Domain complexed with an artifi...cial high affinity ligand (PD1) p2oj2a_ chr19/NP_004231.1/NP_004231.1_holo_466-544.
Domain Modeling: NP_001020119.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available ficial high affinity ligand (PD1) p2oj2a_ chr1/NP_001020119.1/NP_001020119.1_holo_4...NP_001020119.1 chr1 NMR Structure Analysis of the Hematopoetic Cell Kinase SH3 Domain complexed with an arti
Domain Modeling: NP_620641.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_620641.1 chr1 NMR Structure Analysis of the Hematopoetic Cell Kinase SH3 Domain complexed with an artific...ial high affinity ligand (PD1) p2oj2a_ chr1/NP_620641.1/NP_620641.1_holo_435-512.pd
Domain Modeling: NP_004471.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_004471.3 chr14 NMR Structure Analysis of the Hematopoetic Cell Kinase SH3 Domain complexed with an artifi...cial high affinity ligand (PD1) p2oj2a_ chr14/NP_004471.3/NP_004471.3_holo_352-436.
Domain Modeling: NP_596867.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_596867.1 chr10 A novel adaptation of the integrin PSI domain revealed from its c...rystal structure c1u8cb_ chr10/NP_596867.1/NP_596867.1_holo_25-726.pdb blast 130T,154S,155M,157D,158D,343P,3
Domain Modeling: NP_001098547.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_001098547.2 chr3 Solution structure of the tandem four zf-C2H2 domain repeats of... murine GLI-Kruppel family member HKR3 c2dlqa_ chr3/NP_001098547.2/NP_001098547.2_holo_540-654.pdb psi-blast
Domain Modeling: NP_006517.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_006517.1 chr20 Structure of the Wilms Tumor Suppressor Protein Zinc Finger Domai...n Bound to DNA p2prta_ chr20/NP_006517.1/NP_006517.1_holo_126-238.pdb psi-blast 130C,131E,133C,135Q,146H,149
Domain Modeling: NP_006477.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_006477.2 chr22 NMR STUDY OF A PAIR OF FIBRILLIN CA2+ BINDING EPIDERMAL GROWTH FA...CTOR-LIKE DOMAINS, 22 STRUCTURES c1emoa_ chr22/NP_006477.2/NP_006477.2_holo_613-689.pdb psi-blast 614E,615I,
Domain Modeling: NP_003437.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_003437.2 chrX Structure of the Wilms Tumor Suppressor Protein Zinc Finger Domain... Bound to DNA p2prta_ chrX/NP_003437.2/NP_003437.2_holo_300-408.pdb blast 304C,305G,306E,307C,308G,309K,320H
Domain Modeling: NP_115597.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_115597.3 chr20 Crystal Structure of ALIX/AIP1 in complex with the HIV-1 YPLASL L...ate Domain p2oeva_ chr20/NP_115597.3/NP_115597.3_apo_963-1562.pdb p2r05a_ chr20/NP_115597.3/NP_115597.3_holo
Domain Modeling: NP_002217.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_002217.3 chr14 CRYSTAL STRUCTURE OF FIBRILLIN-1 DOMAINS CBEGF9HYB2CBEGF10, CALCI...UM SATURATED FORM p2w86a_ chr14/NP_002217.3/NP_002217.3_holo_497-634.pdb swppa 498E,499R,500D,501E,515D,516L
Domain Modeling: NP_803187.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_803187.1 chr14 Structure of RNaseIIIb and dsRNA binding domains of mouse Dicer p3c4ta_ chr14/NP_803187....1/NP_803187.1_holo_1654-1913.pdb blast 1661H,1685Q,1688T,1689H,1690A,1698T,1699D,1700
Domain Modeling: NP_002217.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_002217.3 chr14 INTEGRIN BINDING CBEGF22-TB4-CBEGF33 FRAGMENT OF HUMAN FIBRILLIN-...1, APO FORM CBEGF23 DOMAIN ONLY. c1uzqa_ chr14/NP_002217.3/NP_002217.3_apo_826-975.pdb psi-blast 0 ...
Domain Modeling: NP_109377.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_109377.1 chr7 CRYSTAL STRUCTURE OF THE C-TERMINAL DOMAIN OF BCLA, THE MAJOR ANTI...GEN OF THE EXOSPORIUM OF THE BACILLUS ANTHRACIS SPORE. p1wcka_ chr7/NP_109377.1/NP_109377.1_holo_301-438.pdb swppa 304T,434I CAC 0 ...
Domain Modeling: NP_389647.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_389647.1 chr10 Solution structure of the talin F3 domain in complex with a chime...ric beta3 integrin-PIP kinase peptide- minimized average structure p2h7eb_ chr10/NP_389647.1/NP_389647.1_apo_752-786.pdb psi-blast 0 ...
Domain Modeling: NP_004307.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_004307.2 chr12 Crystal Structure of the basic-helix-loop-helix domains of the he...terodimer E47/NeuroD1 bound to DNA p2ql2d_ chr12/NP_004307.2/NP_004307.2_holo_119-175.pdb psi-blast 120V,122
Domain Modeling: NP_954871.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_954871.1 chr17 Solution structure of three tandem repeats of zf-C2H2 domains fro...m human Kruppel-like factor 5 p2ebta_ chr17/NP_954871.1/NP_954871.1_holo_244-338.pdb blast 256C,258I,261C,26
Domain Modeling: NP_068741.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_068741.1 chr6 Crystal structure of human Fanconi Anemia protein E C-terminal dom...ain p2ilra_ chr6/NP_068741.1/NP_068741.1_apo_275-535.pdb blast 276E,277S,278L,320S,321P,322S,323Q,325D,356S,
Domain Modeling: NP_004001.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_004001.1 chrX STRUCTURE OF A DYSTROPHIN WW DOMAIN FRAGMENT IN COMPLEX WITH A BET...A-DYSTROGLYCAN PEPTIDE c1eg3a_ chrX/NP_004001.1/NP_004001.1_apo_2924-3183.pdb c1eg4a_ chrX/NP_004001.1/NP_004001.1
Domain Modeling: NP_002691.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_002691.1 chr5 TERNARY COMPLEX OF THE DNA BINDING DOMAINS OF THE OCT1 AND SOX2 TR...ANSCRIPTION FACTORS WITH A 19MER OLIGONUCLEOTIDE FROM THE HOXB1 REGULATORY ELEMENT c1o4xa_ chr5/NP_002691.1/NP_002691.1
Domain Modeling: NP_001074421.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_001074421.1 chr6 Solution structure of the tandem four zf-C2H2 domain repeats of... murine GLI-Kruppel family member HKR3 c2dlqa_ chr6/NP_001074421.1/NP_001074421.1_holo_6-118.pdb blast 6C,8L
Domain Modeling: NP_001008701.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_001008701.1 chr19 EGF DOMAINS 1,2,5 OF HUMAN EMR2, A 7-TM IMMUNE SYSTEM MOLECULE..., IN COMPLEX WITH STRONTIUM. p2boxa_ chr19/NP_001008701.1/NP_001008701.1_holo_314-452.pdb psi-blast 335D,355
Domain Modeling: NP_006201.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_006201.1 chr19 Solution structure of the tandem four zf-C2H2 domain repeats of m...urine GLI-Kruppel family member HKR3 c2dlqa_ chr19/NP_006201.1/NP_006201.1_holo_165-272.pdb psi-blast 1308P,
Domain Modeling: NP_899051.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_899051.1 chr17 Solution structure of the tandem four zf-C2H2 domain repeats of m...urine GLI-Kruppel family member HKR3 c2dlqa_ chr17/NP_899051.1/NP_899051.1_holo_199-297.pdb psi-blast 200L,2
Domain Modeling: NP_000631.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_000631.1 chrX CRYSTAL STRUCTURE OF THE TERNARY COMPLEX BETWEEN OVINE PLACENTAL L...ACTOGEN AND THE EXTRACELLULAR DOMAIN OF THE RAT PROLACTIN RECEPTOR c1f6fc_ chrX/NP_000631.1/NP_000631.1_apo_135-332.pdb blast 0 ...
Domain Modeling: NP_006281.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_006281.1 chr6 STRUCTURE OF THE A20 OVARIAN TUMOUR (OTU) DOMAIN p3dkbf_ chr6/NP_006281.1/NP_006281.1..._apo_3-362.pdb p2vfjd_ chr6/NP_006281.1/NP_006281.1_holo_3-362.pdb blast 300E,304K,311E,3
Energy Technology Data Exchange (ETDEWEB)
Follin, Sven (SF GeoLogic AB, Taeby (SE)); Leven, Jakob (Swedish Nuclear Fuel and Waste Management Co., Stockholm (SE)); Hartley, Lee; Jackson, Peter; Joyce, Steve; Roberts, David; Swift, Ben (Serco Assurance, Harwell (GB))
2007-09-15
The work reported here collates the structural-hydraulic information gathered in 21 cored boreholes and 32 percussion-drilled boreholes belonging to Forsmark site description, modelling stage 2.2. The analyses carried out provide the hydrogeological input descriptions of the bedrock in Forsmark needed by the end users Repository Engineering, Safety Assessment and Environmental Impact Assessment; that is, hydraulic properties of deformation zones and fracture domains. The same information is also needed for constructing 3D groundwater flow models of the Forsmark site and surrounding area. The analyses carried out render the following conceptual model regarding the observed heterogeneity in deformation zone transmissivity: We find the geological division of the deterministically modelled deformation zones into eight categories (sets) useful from a hydrogeological point of view. Seven of the eight categories are steeply dipping, WNW, NW, NNW, NNE, NE, ENE and EW, and on is gently dipping, G. All deformation zones, regardless of orientation (strike and dip), are subjected to a substantial decrease in transmissivity with depth. The data gathered suggest a contrast of c. 20,000 times for the uppermost one kilometre of bedrock, i.e. more than four orders of magnitude. The hydraulic properties below this depth are not investigated. The lateral heterogeneity is also substantial but more irregular in its appearance. For instance, for a given elevation and deformation zone category (orientation), the spatial variability in transmissivity within a particular deformation zone appears to be as large as the variability between all deformation zones. This suggests that the lateral correlation length is shorter than the shortest distance between two adjacent observation points and shorter than the category spacing. The observation that the mean transmissivity of the gently-dipping deformation zones is c. one to two orders of magnitude greater than the mean transmissivities of all
Domain Modeling: NP_009116.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_009116.3 chr1 CRYSTAL STRUCTURE OF THE C-TERMINAL DOMAIN OF BCLA, THE MAJOR ANTI...GEN OF THE EXOSPORIUM OF THE BACILLUS ANTHRACIS SPORE. p2r6qa_ chr1/NP_009116.3/NP_009116.3_apo_238-373.pdb p1wcka_ chr1/NP_009116....3/NP_009116.3_holo_238-373.pdb swppa 294A,369Q,371Q CAC 1 ...
Domain Modeling: NP_919434.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_919434.1 chr11 Solution structure of the Zinc finger, C3HC4 type (RING finger) d...omain of RING finger protein 126 p2ecta_ chr11/NP_919434.1/NP_919434.1_holo_96-187.pdb swppa 119C,121V,122C,142L,144C,146H,148F,149H,152C,165C,167Y,168C,169K,170E _ZN 0 ...
Domain Modeling: NP_077084.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_077084.1 chr6 Solution structure of the PHD domain of Metal-response element-bin...ding transcription factor 2 p2yt5a_ chr6/NP_077084.1/NP_077084.1_holo_85-147.pdb blast 90C,92V,93C,94R,95S,107C,109K,110C,115H,118C,135V,136C,139C _ZN 0 ...
Domain Modeling: NP_060484.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_060484.2 chr2 ADR1 DNA-BINDING DOMAIN FROM SACCHAROMYCES CEREVISIAE, NMR, 25 STR...UCTURES c2adra_ chr2/NP_060484.2/NP_060484.2_holo_16-72.pdb psi-blast 284A,286E,287M,289L,300V,304N,312A,320R,321E,322L,323A,324G,336P,340Q _ZN 0 ...
Domain Modeling: NP_008844.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_008844.1 chr6 Solution Structure of the RING domain of the Tripartite motif prot...ein 32 p2ct2a_ chr6/NP_008844.1/NP_008844.1_holo_14-98.pdb psi-blast 27C,29I,30C,42C,44H,47C,50C,64C,66V,67C,68K _ZN 0 ...
Domain Modeling: NP_690874.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_690874.2 chr13 Solution structure of the first C1 domain from human protein kina...se C theta p2enna_ chr13/NP_690874.2/NP_690874.2_holo_158-229.pdb psi-blast 175M,176H,177N,189C,191V,192C,193R,206C,208V,209C,210K,211F,213A,214H,217C,225C _ZN 0 ...
Domain Modeling: NP_006501.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_006501.1 chr6 Solution structure of the RING-finger domain from human Tripartite... motif protein 34 p2egpa_ chr6/NP_006501.1/NP_006501.1_holo_2-76.pdb blast 16C,18V,19C,23F,29L,31C,33H,36C,39C,53C,55Q,56C,57R _ZN 0 ...
Domain Modeling: NP_079291.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_079291.2 chr10 Crystal structure of ATPase domain of Ssb1 chaperone, a member of... the HSP70 family, from Saccharomyces cerevisiae p3gl1b_ chr10/NP_079291.2/NP_079291.2_holo_53-521.pdb psi-blast 62D,133W,284R,285R,287R,315D,481V,486E,488P,491Q,512L _MG 0 ...
Domain Modeling: NP_115821.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_115821.1 chr15 The crystal structure of the PSI/Hybrid domain/ I-EGF1 segment fr...om the human integrin beta2 at 1.8 resolution p1yukb_ chr15/NP_115821.1/NP_115821.1_holo_582-705.pdb swppa 591L,619S,621A,703H NDG 0 ...
Domain Modeling: NP_710141.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_710141.1 chr20 Forkhead DNA-binding domain d1jxsa_ chr20/NP_710141.1/NP_710141.1..._apo_158-254.pdb d2c6ya1 chr20/NP_710141.1/NP_710141.1_holo_158-254.pdb blast 159K,162Y,163S,164Y,165I,181T,
Domain Modeling: NP_003931.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_003931.1 chr3 Co-crystal structure of znf ubp domain from the deubiquitinating e...nzyme isopeptidase T (isot) in complex with ubiquitin c2g45d_ chr3/NP_003931.1/NP_003931.1_holo_186-301.pdb blast 211C,213R,214C,231C,242N,244H _ZN 0 ...
Domain Modeling: NP_001035531.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_001035531.1 chr1 ADR1 DNA-BINDING DOMAIN FROM SACCHAROMYCES CEREVISIAE, NMR, 25 ...STRUCTURES c2adra_ chr1/NP_001035531.1/NP_001035531.1_holo_282-335.pdb blast 284C,286Y,287C,289H,300H,304H,312C,314A,315C,316G,328H,333H _ZN 0 ...
Domain Modeling: NP_001001991.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_001001991.1 chr11 CUB1-EGF-CUB2 domain of HUMAN MASP-1/3 p3demb_ chr11/NP_001001991.1/NP_001001991....1_holo_134-341.pdb psi-blast 172E,180D,220S,221D,223S,224K,258Y,281S,288N,326K,327R,329C,330Q,332N _CA 0 ...
Domain Modeling: NP_002011.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_002011.2 chr5 Crystal structure of the exctracellular domain of the receptor tyr...osine kinase, Kit p2ec8a_ chr5/NP_002011.2/NP_002011.2_holo_26-549.pdb psi-blast 149N,150R,151K,152D,227N,263T,311K,313N,314N,315G,318R,320R,340G,343L,380S,381P NAG 0 ...
Domain Modeling: NP_006831.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_006831.1 chr19 I set domains d1b6ua2 chr19/NP_006831.1/NP_006831.1_apo_437-545.p...db d1efxd2 chr19/NP_006831.1/NP_006831.1_holo_437-545.pdb psi-blast 437P,438E,523I,525N LEU 1 ...
Domain Modeling: NP_000081.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_000081.1 chr2 The 1.9-A crystal structure of the noncollagenous (NC1) domain of ...human placenta collagen IV shows stabilization via a novel type of covalent Met-Lys cross-link c1li1e_ chr2/NP_000081.1/NP_000081.1_apo_1220-1465.pdb psi-blast 0 ...
Domain Modeling: NP_258411.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_258411.2 chr17 Solution structure of the RING-finger domain from human Tripartit...e motif protein 34 p2egpa_ chr17/NP_258411.2/NP_258411.2_holo_2-78.pdb psi-blast 9C,11I,12C,16L,22L,24C,26H,28F,29C,32C,54C,56L,57C,58Q _ZN 0 ...
Domain Modeling: NP_065971.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_065971.2 chr14 Chromo domain d2b2tb1 chr14/NP_065971.2/NP_065971.2_apo_340-431.p...db d2b2va2 chr14/NP_065971.2/NP_065971.2_holo_340-431.pdb psi-blast 361D,364I,366D,367K,396Y,400H ARG,GLN 1 ...
Domain Modeling: NP_056372.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_056372.1 chr1 Solution structure of the PHD domain in PHD finger protein 21A p2yqla_ chr1/NP_056372....1/NP_056372.1_holo_335-390.pdb blast 346C,348V,349C,350Q,358C,360T,361C,366H,369C,383S,384C,387C _ZN 0 ...
Domain Modeling: NP_005072.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_005072.2 chr2 Solution structure of the N-terminal C2H2 type zinc-binding domain... of the Zinc finger protein 64, isoforms 1 and 2 c2dmda_ chr2/NP_005072.2/NP_005072.2_holo_380-476.pdb psi-blast 383C,386C,388Y,399H,404H,412C,415C,428H,429K,447A,449Q,450E _ZN 0 ...
Domain Modeling: NP_001607.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_001607.1 chr2 Crystal structure of Activin receptor type II kinase domain from h...uman p2qlua_ chr2/NP_001607.1/NP_001607.1_holo_192-485.pdb blast 198K,199A,206V,217A,247L,267T,268A,269F,270H,271E,273G,329L 322D,324K,326K __A 0 ...
Domain Modeling: NP_003017.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_003017.1 chr9 Crystal structure of endophilin-A1 BAR domain c1zwwb_ chr9/NP_003017.1/NP_003017....1_holo_28-247.pdb blast 48M,106D,108C,123E,126E,147H,153E,157H,196I,205L,206E 38R,39K,42V,45R
Domain Modeling: NP_056532.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_056532.2 chr2 C-type lectin domain d1xarb_ chr2/NP_056532.2/NP_056532.2_apo_170-322....pdb d1k9ja_ chr2/NP_056532.2/NP_056532.2_holo_170-322.pdb blast 244K,245T,246A,248G,249L,257K,261E,264W,
Domain Modeling: NP_079402.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_079402.2 chr12 Crystal Structure of a FYVE-type domain from caspase regulator CA...RP2 c1y02a_ chr12/NP_079402.2/NP_079402.2_holo_58-153.pdb blast 61V,62C,64A,65C,66G,78C,80D,81C,85F,86C,89C,99C,101T,102C,129L _ZN 0 ...
Domain Modeling: NP_000032.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_000032.1 chr19 NMR solution structure of complete receptor binding domain of hum...an apolipoprotein E p2kc3a_ chr19/NP_000032.1/NP_000032.1_apo_19-201.pdb blast 113K,114E,116Q,120A,121R,124A,128D,132R,135Q,142A,143M,144L,146Q,154R,161K,165R 0 ...
Domain Modeling: NP_001073312.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_001073312.1 chr1 ADR1 DNA-BINDING DOMAIN FROM SACCHAROMYCES CEREVISIAE, NMR, 25 ...STRUCTURES c2adra_ chr1/NP_001073312.1/NP_001073312.1_holo_1543-1602.pdb psi-blast 1545A,1548F,1550Q,1561D,1573C,1575F,1578C,1579R,1591H,1594K,1595H _ZN 0 ...
Domain Modeling: NP_001001662.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_001001662.1 chr9 ADR1 DNA-BINDING DOMAIN FROM SACCHAROMYCES CEREVISIAE, NMR, 25 ...STRUCTURES c2adra_ chr9/NP_001001662.1/NP_001001662.1_holo_644-699.pdb blast 648C,650Q,651C,653E,664H,668H,676C,678K,679C,680G,681R,692H,696H _ZN 0 ...
Domain Modeling: NP_057953.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_057953.1 chr9 INHIBITED FRAGMENT OF ETS-1 AND PAIRED DOMAIN OF PAX5 BOUND TO DNA c1mdma_ chr9/NP_057953....1/NP_057953.1_holo_19-142.pdb blast 20V,21N,22Q,23L,27F,29N,30G,31R,32P,33L,38R,50R,
Domain Modeling: NP_001099023.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_001099023.1 chr19 Solution structure of C2H2 type Zinc finger domain 345 in Zinc... finger protein 278 c2yt9a_ chr19/NP_001099023.1/NP_001099023.1_holo_89-173.pdb blast 95C,97E,98R,99G,111H,115H,123C,125I,126C,139H,143H,151C,153E,154C,155G,167H,171H _ZN 0 ...
Domain Modeling: NP_001993.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_001993.2 chr19 C-type lectin domain d1xarb_ chr19/NP_001993.2/NP_001993.2_apo_14...4-288.pdb d1k9ja_ chr19/NP_001993.2/NP_001993.2_holo_144-288.pdb blast 214A,215S,216H,217T,218G,225N,229K,23
Domain Modeling: NP_055872.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_055872.3 chr13 CRYSTAL STRUCTURE OF BTB DOMAIN FROM BTBD6 p2vkpa_ chr13/NP_055872.3/NP_055872.3..._apo_1412-1533.pdb p2vkpb_ chr13/NP_055872.3/NP_055872.3_holo_1412-1533.pdb psi-blast 1490L,1491S,1494L,1502Q EDO 1 ...
Domain Modeling: NP_443202.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_443202.3 chr20 Crystal structure of ATPase domain of Ssb1 chaperone, a member of... the HSP70 family, from Saccharomyces cerevisiae p3gl1b_ chr20/NP_443202.3/NP_443202.3_holo_57-527.pdb psi-blast 66D,242E,318V,319A,320D,388T,486V,491E,493A,496Q,509R _MG 0 ...
Domain Modeling: NP_060012.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_060012.3 chr1 ADR1 DNA-BINDING DOMAIN FROM SACCHAROMYCES CEREVISIAE, NMR, 25 STR...UCTURES c2adra_ chr1/NP_060012.3/NP_060012.3_holo_242-299.pdb psi-blast 244A,246A,247M,249R,263D,275A,277G,278D,280I,296M,297N _ZN 0 ...
Domain Modeling: NP_004841.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available _1237-1320.pdb blast 1261H,1274C,1275E,1276A,1277C,1278M,1279K,1293C,1295R,1296C,1297H,1298I,1301H,1304H,1311I,1315C,1316K _ZN 0 ... ...NP_004841.2 chr2 The C1 domain of ROCK II p2rowa_ chr2/NP_004841.2/NP_004841.2_holo
Domain Modeling: NP_055832.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available -130.pdb blast 39C,40P,41H,61C,63D,64C,66V,74C,76E,79C,81Y,83G,84C,89V,91H,95H,99T,101H,114C,116A,117C _ZN 0 ... ...NP_055832.3 chr1 ZF-UBP DOMAIN OF VDU1 c2uzga_ chr1/NP_055832.3/NP_055832.3_holo_36
Domain Modeling: NP_963920.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available -130.pdb blast 39C,40P,41H,61C,63D,64C,66V,74C,76E,79C,81Y,83G,84C,89V,91H,95H,99T,101H,114C,116A,117C _ZN 0 ... ...NP_963920.1 chr1 ZF-UBP DOMAIN OF VDU1 c2uzga_ chr1/NP_963920.1/NP_963920.1_holo_36
Domain Modeling: NP_789847.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_789847.1 chr8 Solution structure of the LIM domain of alpha-actinin-2 associated... LIM protein c1x64a_ chr8/NP_789847.1/NP_789847.1_holo_260-342.pdb psi-blast 286C,288K,289C,291T,307H,310C,313C,315D,316C,317G,333M,336M _ZN 0 ...
Domain Modeling: NP_065907.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_065907.2 chr19 Solution structure of the first and the second zf-C2H2 like domai...ns of human Teashirt homolog 3 p2dmia_ chr19/NP_065907.2/NP_065907.2_holo_200-303.pdb blast 216C,218D,219C,232H,236T,238H,277C,279Y,280C,281G,293H,294M,297T,299H _ZN 0 ...
Domain Modeling: NP_004231.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_004231.1 chr19 Crystal structure of the EFC domain of formin-binding protein 17 c2efla_ chr19/NP_004231.1.../NP_004231.1_apo_1-288.pdb blast 9D,10Q,13V,14L,17H,20W,24L,27R,28Y,30K,31F,34E,35R
Domain Modeling: NP_958781.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_958781.1 chr8 Crystal structure of a fragment of the plakin domain of plectin, C...ys to Ala mutant. p2odua_ chr8/NP_958781.1/NP_958781.1_apo_254-471.pdb p2odva_ chr8/NP_958781.1/NP_958781.1_holo_254-471.pdb blast 378K,381M,382E,385L PGO 1 ...
Greiner, Matthias; Smid, Joost; Havelaar, Arie H; Müller-Graf, Christine
2013-05-15
Quantitative microbiological risk assessment (QMRA) models are used to reflect knowledge about complex real-world scenarios for the propagation of microbiological hazards along the feed and food chain. The aim is to provide insight into interdependencies among model parameters, typically with an interest to characterise the effect of risk mitigation measures. A particular requirement is to achieve clarity about the reliability of conclusions from the model in the presence of uncertainty. To this end, Monte Carlo (MC) simulation modelling has become a standard in so-called probabilistic risk assessment. In this paper, we elaborate on the application of Bayesian computational statistics in the context of QMRA. It is useful to explore the analogy between MC modelling and Bayesian inference (BI). This pertains in particular to the procedures for deriving prior distributions for model parameters. We illustrate using a simple example that the inability to cope with feedback among model parameters is a major limitation of MC modelling. However, BI models can be easily integrated into MC modelling to overcome this limitation. We refer a BI submodel integrated into a MC model to as a "Bayes domain". We also demonstrate that an entire QMRA model can be formulated as Bayesian graphical model (BGM) and discuss the advantages of this approach. Finally, we show example graphs of MC, BI and BGM models, highlighting the similarities among the three approaches.
Liqiang Liu; Yuntao Dai; Jinyu Gao
2014-01-01
Ant colony optimization algorithm for continuous domains is a major research direction for ant colony optimization algorithm. In this paper, we propose a distribution model of ant colony foraging, through analysis of the relationship between the position distribution and food source in the process of ant colony foraging. We design a continuous domain optimization algorithm based on the model and give the form of solution for the algorithm, the distribution model of pheromone, the update rules...
A Modeling and Data Analysis of Laser Beam Propagation in the Maritime Domain
2015-05-18
A TRIDENT SCHOLAR PROJECT REPORT NO. 433 A Modeling and Data Analysis of Laser Beam Propagation in the Maritime Domain by...433 (2015) A MODELING AND DATA ANALYSIS OF LASER BEAM PROPAGATION IN THE MARITIME DOMAIN by Midshipman 1/C Benjamin C. Etringer United States Naval...2. REPORT TYPE 3. DATES COVERED (From - To) 4. TITLE AND SUBTITLE A Modeling and Data Analysis of Laser Beam Propagation in the Maritime
Design of potentially active ligands for SH2 domains by molecular modeling methods
Directory of Open Access Journals (Sweden)
Hurmach V. V.
2014-07-01
Full Text Available Search for new chemical structures possessing specific biological activity is a complex problem that needs the use of the latest achievements of molecular modeling technologies. It is well known that SH2 domains play a major role in ontogenesis as intermediaries of specific protein-protein interactions. Aim. Developing an algorithm to investigate the properties of SH2 domain binding, search for new potential active compounds for the whole SH2 domains class. Methods. In this paper, we utilize a complex of computer modeling methods to create a generic set of potentially active compounds targeting universally at the whole class of SH2 domains. A cluster analysis of all available three-dimensional structures of SH2 domains was performed and general pharmacophore models were formulated. The models were used for virtual screening of collection of drug-like compounds provided by Enamine Ltd. Results. The design technique for library of potentially active compounds for SH2 domains class was proposed. Conclusions. The original algorithm of SH2 domains research with molecular docking method was developed. Using our algorithm, the active compounds for SH2 domains were found.
Morey, Candice C.; Morey, Richard D.; van der Reijden, Madeleine; Holweg, Margot
2013-01-01
Observations of higher dual-task costs for within-domain than cross-domain task combinations constitute classic evidence for multi-component models of working memory (e.g., Baddeley, 1986; Logie, 2011). However, we report an asymmetric pattern of interference between verbal and visual-spatial tasks,
The dissipative quantum model of brain how do memory localize in correlated neuronal domains
Alfinito, E
2000-01-01
The mechanism of memory localization in extended domains is described in the framework of the parametric dissipative quantum model of brain. The size of the domains and the capability in memorizing depend on the number of links the system is able to establish with the external world.
Morey, Candice C.; Morey, Richard D.; van der Reijden, Madeleine; Holweg, Margot
2013-01-01
Observations of higher dual-task costs for within-domain than cross-domain task combinations constitute classic evidence for multi-component models of working memory (e.g., Baddeley, 1986; Logie, 2011). However, we report an asymmetric pattern of interference between verbal and visual-spatial tasks,
An Intelligent Response Surface Methodology for Modeling of Domain Level Constraints
Institute of Scientific and Technical Information of China (English)
无
2006-01-01
An effective modeling method of domain level constraints in the constraint network for concurrent engineering (CE) was developed. The domain level constraints were analyzed and the framework of modeling of domain level constraints based on simulation and approximate technology was given. An intelligent response surface methodology (IRSM) was proposed, in which artificial intelligence technologies are introduced into the optimization process. The design of crank and connecting rod in the V6 engine as example was given to show the validity of the modeling method.
A multi-domain trust management model for supporting RFID applications of IoT.
Wu, Xu; Li, Feng
2017-01-01
The use of RFID technology in complex and distributed environments often leads to a multi-domain RFID system, in which trust establishment among entities from heterogeneous domains without past interaction or prior agreed policy, is a challenge. The current trust management mechanisms in the literature do not meet the specific requirements in multi-domain RFID systems. Therefore, this paper analyzes the special challenges on trust management in multi-domain RFID systems, and identifies the implications and the requirements of the challenges on the solutions to the trust management of multi-domain RFID systems. A multi-domain trust management model is proposed, which provides a hierarchical trust management framework include a diversity of trust evaluation and establishment approaches. The simulation results and analysis show that the proposed method has excellent ability to deal with the trust relationships, better security, and higher accuracy rate.
Unsupervised spatial event detection in targeted domains with applications to civil unrest modeling.
Directory of Open Access Journals (Sweden)
Liang Zhao
Full Text Available Twitter has become a popular data source as a surrogate for monitoring and detecting events. Targeted domains such as crime, election, and social unrest require the creation of algorithms capable of detecting events pertinent to these domains. Due to the unstructured language, short-length messages, dynamics, and heterogeneity typical of Twitter data streams, it is technically difficult and labor-intensive to develop and maintain supervised learning systems. We present a novel unsupervised approach for detecting spatial events in targeted domains and illustrate this approach using one specific domain, viz. civil unrest modeling. Given a targeted domain, we propose a dynamic query expansion algorithm to iteratively expand domain-related terms, and generate a tweet homogeneous graph. An anomaly identification method is utilized to detect spatial events over this graph by jointly maximizing local modularity and spatial scan statistics. Extensive experiments conducted in 10 Latin American countries demonstrate the effectiveness of the proposed approach.
Domain Modeling: NP_055336.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_055336.1 chr2 SH3-domain d1srla_ chr2/NP_055336.1/NP_055336.1_apo_59-111.pdb d1qwfa_ chr2/NP_055336....1/NP_055336.1_holo_59-111.pdb blast 59E,60V,61I,62A,63I,64K,65D,66Y,70N,72T,73T,89G,90G,91E,92W,103Y,105P,106S,107S,108Y ALA,ARG,LEU,PRO,VAL 1 ...
Domain Modeling: NP_055876.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_055876.2 chr9 double tudor domain complex structure c2gf7a_ chr9/NP_055876.2/NP_055876....2_apo_879-991.pdb c2gfab_ chr9/NP_055876.2/NP_055876.2_holo_879-991.pdb blast 912F,914D,915G,916S,917F,918S,919R,920D,921T,922F,925D,946K,947W,948P,953Y ALA,ARG,GLN,M3L,THR 1 ...
Domain Modeling: NP_976224.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_976224.2 chr15 SH2 domain d1mila_ chr15/NP_976224.2/NP_976224.2_apo_519-619.pdb d1tcea_ chr15/NP_976224....2/NP_976224.2_holo_519-619.pdb blast 570H,571L,572L,573L,574V,575D,576P,579K,580V,581R,582T,583K,587F,593L,604I,605I,606S,607S,609S GLN,GLY,LEU,SER,THR 1 ...
Expert System Models in the Companies' Financial and Accounting Domain
Mates, D; Bostan, I; Grosu, V
2010-01-01
The present paper is based on studying, analyzing and implementing the expert systems in the financial and accounting domain of the companies, describing the use method of the informational systems that can be used in the multi-national companies, public interest institutions, and medium and small dimension economical entities, in order to optimize the managerial decisions and render efficient the financial-accounting functionality. The purpose of this paper is aimed to identifying the economical exigencies of the entities, based on the already used accounting instruments and the management software that could consent the control of the economical processes and patrimonial assets.
Domain Modeling: NP_004691.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_004691.2 chr1 Crystal structure of a coiled-coil tetramerization domain from Kv7....4 channels p2ovca_ chr1/NP_004691.2/NP_004691.2_apo_611-640.pdb blast 612E,614S,615M,616M,618R,619V,620V,621K,622V,623E,625Q,626V,627Q,628S,629I,630E,632K,633L,634D,636L,637L 0 ...
Domain Modeling: NP_057547.5 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_057547.5 chr5 Methyl-CpG-binding domain, MBD d1d9na_ chr5/NP_057547.5/NP_057547.5..._apo_23-101.pdb d1ig4a_ chr5/NP_057547.5/NP_057547.5_holo_23-101.pdb psi-blast 41V,43A,44A,45A,46P,47A,48S,49V,53T,65I,66S,67E,68P,69L,73L,74R 5CM,_DC,_DG,_DT 1 ...
Domain Modeling: NP_055507.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_055507.1 chr16 CRAL/TRIO domain d1olme3 chr16/NP_055507.1/NP_055507.1_holo_306-497.pdb blast 314Y,331L,...333L,336M,338T,341L,354V,383L,385L,388L,392H,393L,397G,398V,400A,401L,404M,408V,416L,419L,428F,431L,432W,435I,439I,443T,447F VTQ 0 ...
Domain Modeling: NP_002994.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_002994.2 chr17 CRAL/TRIO domain d1olme3 chr17/NP_002994.2/NP_002994.2_holo_319-506.pdb blast 327Y,344L,...346L,349M,351T,363L,367V,396V,398L,401L,405H,406L,410G,411V,413A,414L,417I,418I,421V,429L,432L,441F,444L,445W,448V,452I,456T,460F VTQ 0 ...
Domain Modeling: NP_060327.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_060327.2 chr11 CRYSTAL STRUCTURE OF THE C-TERMINAL DOMAIN OF BCLA, THE MAJOR ANT...IGEN OF THE EXOSPORIUM OF THE BACILLUS ANTHRACIS SPORE. p2r6qa_ chr11/NP_060327.2/NP_060327.2_apo_508-643.pd...b p1wcka_ chr11/NP_060327.2/NP_060327.2_holo_508-643.pdb swppa 508G,511K,563F,639P,641S CAC 1 ...
Domain Modeling: NP_115992.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_115992.1 chr2 Crystal structure analysis of the monomeric SRCR domain of mouse M...ARCO p2oyab_ chr2/NP_115992.1/NP_115992.1_apo_43-145.pdb p2oy3a_ chr2/NP_115992.1/NP_115992.1_holo_43-145.pdb blast 332C,334R,335K,336W,337D,340A,374V,375R,376C,395D,396C,400Q _MG 1 ...
Domain Modeling: NP_937821.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_937821.1 chr3 HLH, helix-loop-helix DNA-binding domain d1r05b_ chr3/NP_937821.1/NP_937821.1..._apo_281-368.pdb d1an2a_ chr3/NP_937821.1/NP_937821.1_holo_281-368.pdb psi-blast 282K,285H,286N,289E,290R,293R,294F,296I,297N,317W,318N,319K,320G _DA,_DC,_DG,_DT 1 ...
Domain Modeling: NP_060551.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_060551.1 chr17 Two Seven-Bladed Beta-Propeller Domains Revealed By The Structure... Of A C. elegans Homologue Of Yeast Actin Interacting Protein 1 (AIP1). c1peva_ chr17/NP_060551.1/NP_060551.1..._apo_14-490.pdb c1nr0a_ chr17/NP_060551.1/NP_060551.1_holo_14-490.pdb psi-blast 75L,115E,117E,127K _MN 1 ...
Hydrological model performance and parameter estimation in the wavelet-domain
Directory of Open Access Journals (Sweden)
B. Schaefli
2009-10-01
Full Text Available This paper proposes a method for rainfall-runoff model calibration and performance analysis in the wavelet-domain by fitting the estimated wavelet-power spectrum (a representation of the time-varying frequency content of a time series of a simulated discharge series to the one of the corresponding observed time series. As discussed in this paper, calibrating hydrological models so as to reproduce the time-varying frequency content of the observed signal can lead to different results than parameter estimation in the time-domain. Therefore, wavelet-domain parameter estimation has the potential to give new insights into model performance and to reveal model structural deficiencies. We apply the proposed method to synthetic case studies and a real-world discharge modeling case study and discuss how model diagnosis can benefit from an analysis in the wavelet-domain. The results show that for the real-world case study of precipitation – runoff modeling for a high alpine catchment, the calibrated discharge simulation captures the dynamics of the observed time series better than the results obtained through calibration in the time-domain. In addition, the wavelet-domain performance assessment of this case study highlights the frequencies that are not well reproduced by the model, which gives specific indications about how to improve the model structure.
A stepwise approach for defining the applicability domain of SAR and QSAR models
DEFF Research Database (Denmark)
Dimitrov, Sabcho; Dimitrova, Gergana; Pavlov, Todor;
2005-01-01
parametric requirements are imposed in the first stage, specifying in the domain only those chemicals that fall in the range of variation of the physicochemical properties of the chemicals in the training set. The second stage defines the structural similarity between chemicals that are correctly predicted......A stepwise approach for determining the model applicability domain is proposed. Four stages are applied to account for the diversity and complexity of the current SAR/QSAR models, reflecting their mechanistic rationality (including metabolic activation of chemicals) and transparency. General...... by the model. The structural neighborhood of atom-centered fragments is used to determine this similarity. The third stage in defining the domain is based on a mechanistic understanding of the modeled phenomenon. Here, the model domain combines the reliability of specific reactive groups hypothesized to cause...
Model-Based Development and Evaluation of Control for Complex Multi-Domain Systems
DEFF Research Database (Denmark)
Grujic, Ivan; Nilsson, Rene
A Cyber-Physical System (CPS) incorporates sensing, actuating, computing and communicative capabilities, which are often combined to control the system. The development of CPSs poses a challenge, since the complexity of the physical system dynamics must be taken into account when designing...... the control application. The physical system dynamics are often defined within mechanical and electrical engineering domains, with the control application residing in software and control engineering domains. Therefore, such a system can be considered multi-domain. With the constant increase in the complexity...... of such systems, caused by technological advances in all domains, new ways of approaching multi- domain system development are needed. One methodology, which excels in complexity management, is model-based development. Multidomain systems require collaborative modeling, where the physical system dynamics...
Gu, X.; Blackmore, K. L.
2015-01-01
This paper presents the results of a systematic review of agent-based modelling and simulation (ABMS) applications in the higher education (HE) domain. Agent-based modelling is a "bottom-up" modelling paradigm in which system-level behaviour (macro) is modelled through the behaviour of individual local-level agent interactions (micro).…
Energy Technology Data Exchange (ETDEWEB)
None, None
2015-03-01
The revised groundwater model includes estimates of evapotranspiration (ET). The types of vegetation and the influences of ET on groundwater hydrology vary within the model domain. Some plant species within the model domain, classified as phreatophytes, survive by extracting groundwater. ET within these plant communities can result in a net discharge of groundwater if ET exceeds precipitation. Other upland desert plants within the model domain survive on meteoric water, potentially limiting groundwater recharge if ET is equivalent to precipitation. For all plant communities within the model domain, excessive livestock grazing or other disturbances can tip the balance to a net groundwater recharge. This task characterized and mapped vegetation within the groundwater model domain at the Tuba City, Arizona, Site, and then applied a remote sensing algorithm to estimate ET for each vegetation type. The task was designed to address five objectives: 1. Characterize and delineate different vegetation or ET zones within the groundwater model domain, focusing on the separation of plant communities with phreatophytes that survive by tapping groundwater and upland plant communities that are dependent on precipitation. 2. Refine a remote sensing method, developed to estimate ET at the Monument Valley site, for application at the Tuba City site. 3. Estimate recent seasonal and annual ET for all vegetation zones, separating phreatophytic and upland plant communities within the Tuba City groundwater model domain. 4. For selected vegetation zones, estimate ET that might be achieved given a scenario of limited livestock grazing. 5. Analyze uncertainty of ET estimates for each vegetation zone and for the entire groundwater model domain.
Multiple integral representation for the trigonometric SOS model with domain wall boundaries
Galleas, W
2011-01-01
Using the dynamical Yang-Baxter algebra we derive a functional equation for the partition function of the trigonometric SOS model with domain wall boundary conditions. The solution of the equation is given in terms of a multiple contour integral.
Hydrostatic Pressure Promotes Domain Formation in Model Lipid Raft Membranes.
Worcester, David L; Weinrich, Michael
2015-11-01
Neutron diffraction measurements demonstrate that hydrostatic pressure promotes liquid-ordered (Lo) domain formation in lipid membranes prepared as both oriented multilayers and unilamellar vesicles made of a canonical ternary lipid mixture for which demixing transitions have been extensively studied. The results demonstrate an unusually large dependence of the mixing transition on hydrostatic pressure. Additionally, data at 28 °C show that the magnitude of increase in Lo caused by 10 MPa pressure is much the same as the decrease in Lo produced by twice minimum alveolar concentrations (MAC) of general anesthetics such as halothane, nitrous oxide, and xenon. Therefore, the results may provide a plausible explanation for the reversal of general anesthesia by hydrostatic pressure.
Domain Modeling: NP_000642.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_000642.3 chr1 COMPLEX OF ECHOVIRUS TYPE 12 WITH DOMAINS 1, 2, 3 AND 4 OF ITS REC...EPTOR DECAY ACCELERATING FACTOR (CD55) BY CRYO ELECTRON MICROSCOPY AT 16 A c1ojva_ chr1/NP_000642.3/NP_000642.3..._apo_236-487.pdb c2c8ie_ chr1/NP_000642.3/NP_000642.3_holo_236-487.pdb blast 253R,254S,255L,256F,257S,258L,259N,367N,368G,369R,370V,371L,385V,386C,387D,388E,389G ASN,GLY,SER,THR 1 ...
Domain Walls and Textured Vortices in a Two-Component Ginzburg-Landau Model
DEFF Research Database (Denmark)
Madsen, Søren Peder; Gaididei, Yu. B.; Christiansen, Peter Leth
2005-01-01
We look for domain wall and textured vortex solutions in a two-component Ginzburg-Landau model inspired by two-band superconductivity. The two-dimensional two-component model, with equal coherence lengths and no magnetic field, shows some interesting properties. In the absence of a Josephson type...... coupling between the two order parameters a ''textured vortex'' is found by analytical and numerical solution of the Ginzburg-Landau equations. With a Josephson type coupling between the two order parameters we find the system to split up in two domains separated by a domain wall, where the order parameter...
Domain Walls and Textured Vortices in a Two-Component Ginzburg-Landau Model
DEFF Research Database (Denmark)
Madsen, Søren Peder; Gaididei, Yu. B.; Christiansen, Peter Leth
2005-01-01
We look for domain wall and textured vortex solutions in a two-component Ginzburg-Landau model inspired by two-band superconductivity. The two-dimensional two-component model, with equal coherence lengths and no magnetic field, shows some interesting properties. In the absence of a Josephson type...... coupling between the two order parameters a ''textured vortex'' is found by analytical and numerical solution of the Ginzburg-Landau equations. With a Josephson type coupling between the two order parameters we find the system to split up in two domains separated by a domain wall, where the order parameter...
Acceptance model and use of technology in science and technology domain / M.V Tshevhase
Tshivhase, M V
2012-01-01
The research is intended to develop the Technology Acceptance Model (TAM) in the science domain and determine whether it could provide enough explanation of the acceptance in terms of perceived usefulness and perceived ease of use, and attitude towards use and intention of use in the science and technology domain. The study has investigated the contribution to technology acceptance by examining a research model that integrates age, gender, technology competency and the differen...
A Model of Inter and Multi Disciplinary Domains, and their Mutual Interactions
Directory of Open Access Journals (Sweden)
Ophir Dan
2014-02-01
Full Text Available The Melvil Dewey Decimal Classification system maps the human knowledge domains into a library classification decimal system, which means that the knowledge is discretized. The domains are countable similarly to how Cantor proved the countability of the fractions' domain. The debate about the "inter-" and "multi-" disciplinary domains may also be extended into "sub-domains" or from another point of view – into "super-domains". However, Science and Technology has rapidly developed after it was classified. If at the beginning, two decimal digits were enough to classify the world's knowledge into a knowledge domain, today we need more digits – about five. This means we are able to display about a million domains of knowledge. The decimal point indicates the sub-division in the zooming-in; the number of such decimal points is unlimited. Thus, the number of hierarchical levels in the knowledge-tree is unlimited. The maximal level is unreachable since it propagates in time. This intriguing issue raises doubts whether the tree is the most appropriate structure in the current state of the knowledge classification. However, I believe that the knowledge tree is a convenient way of expressing various connections between the knowledge domains. There are other models such as multi-level graph-networks that approximate closer to reality. These models can be further visualized by graph diagrams. The knowledge diagram is more complicated, considering the interaction between science and industry relative to each domain. The model of reality might be compared to the object-oriented programming languages approximating reality in order to construct more naturally computer programs that can model the world. The mutual correspondence of the knowledge domains is dynamic. Some examples of relatively new domains are as follows: biotechnology, bioinformatics, nanotechnology, integro-differential equations, data warehouse, data mining, requirements engineering, micro
Raghuram, Jayaram; Miller, David J; Kesidis, George
2014-07-01
We propose a method for detecting anomalous domain names, with focus on algorithmically generated domain names which are frequently associated with malicious activities such as fast flux service networks, particularly for bot networks (or botnets), malware, and phishing. Our method is based on learning a (null hypothesis) probability model based on a large set of domain names that have been white listed by some reliable authority. Since these names are mostly assigned by humans, they are pronounceable, and tend to have a distribution of characters, words, word lengths, and number of words that are typical of some language (mostly English), and often consist of words drawn from a known lexicon. On the other hand, in the present day scenario, algorithmically generated domain names typically have distributions that are quite different from that of human-created domain names. We propose a fully generative model for the probability distribution of benign (white listed) domain names which can be used in an anomaly detection setting for identifying putative algorithmically generated domain names. Unlike other methods, our approach can make detections without considering any additional (latency producing) information sources, often used to detect fast flux activity. Experiments on a publicly available, large data set of domain names associated with fast flux service networks show encouraging results, relative to several baseline methods, with higher detection rates and low false positive rates.
Jungert, Tomas; Hesser, Hugo; Träff, Ulf
2014-10-01
In social cognitive theory, self-efficacy is domain-specific. An alternative model, the cross-domain influence model, would predict that self-efficacy beliefs in one domain might influence performance in other domains. Research has also found that children who receive special instruction are not good at estimating their performance. The aim was to test two models of how self-efficacy beliefs influence achievement, and to contrast children receiving special instruction in mathematics with normally-achieving children. The participants were 73 fifth-grade children who receive special instruction and 70 children who do not receive any special instruction. In year four and five, the children's skills in mathematics and reading were assessed by national curriculum tests, and in their fifth year, self-efficacy in mathematics and reading were measured. Structural equation modeling showed that in domains where children do not receive special instruction in mathematics, self-efficacy is a mediating variable between earlier and later achievement in the same domain. Achievement in mathematics was not mediated by self-efficacy in mathematics for children who receive special instruction. For normal achieving children, earlier achievement in the language domain had an influence on later self-efficacy in the mathematics domain, and self-efficacy beliefs in different domains were correlated. Self-efficacy is mostly domain specific, but may play a different role in academic performance depending on whether children receive special instruction. The results of the present study provided some support of the Cross-Domain Influence Model for normal achieving children. © 2014 Scandinavian Psychological Associations and John Wiley & Sons Ltd.
NUMERICAL MODELLING OF DISCONTINUOUS ROCK MASS IN THE ELASTIC DOMAIN
Directory of Open Access Journals (Sweden)
Biljana Kovačević-Zelić
1995-12-01
Full Text Available Constitutive relationships of rock materials are an important component of the numerical modelling, it is not possible to find a generally acceptable constitutive law for rock materials, because of their complex nature. In this paper, the applicability of some models within the framework of theory of elasticity are examined. The analyses are carried out using next models: isotropic and transversely isotropic model, and 'equivalent' material approach The parametric study is also made to examine the influence of discontinuities on the parameters of the equivalent materials the comparison of above mentioned models is made through numerical modelling of the direct shear test. The analysis were performed with finite difference code FLAC (the paper is published in Croatian.
Directory of Open Access Journals (Sweden)
Terrapon Nicolas
2012-05-01
Full Text Available Abstract Background Hidden Markov Models (HMMs are a powerful tool for protein domain identification. The Pfam database notably provides a large collection of HMMs which are widely used for the annotation of proteins in new sequenced organisms. In Pfam, each domain family is represented by a curated multiple sequence alignment from which a profile HMM is built. In spite of their high specificity, HMMs may lack sensitivity when searching for domains in divergent organisms. This is particularly the case for species with a biased amino-acid composition, such as P. falciparum, the main causal agent of human malaria. In this context, fitting HMMs to the specificities of the target proteome can help identify additional domains. Results Using P. falciparum as an example, we compare approaches that have been proposed for this problem, and present two alternative methods. Because previous attempts strongly rely on known domain occurrences in the target species or its close relatives, they mainly improve the detection of domains which belong to already identified families. Our methods learn global correction rules that adjust amino-acid distributions associated with the match states of HMMs. These rules are applied to all match states of the whole HMM library, thus enabling the detection of domains from previously absent families. Additionally, we propose a procedure to estimate the proportion of false positives among the newly discovered domains. Starting with the Pfam standard library, we build several new libraries with the different HMM-fitting approaches. These libraries are first used to detect new domain occurrences with low E-values. Second, by applying the Co-Occurrence Domain Discovery (CODD procedure we have recently proposed, the libraries are further used to identify likely occurrences among potential domains with higher E-values. Conclusion We show that the new approaches allow identification of several domain families previously absent in
Statistical Techniques Complement UML When Developing Domain Models of Complex Dynamical Biosystems
Timmis, Jon; Qwarnstrom, Eva E.
2016-01-01
Computational modelling and simulation is increasingly being used to complement traditional wet-lab techniques when investigating the mechanistic behaviours of complex biological systems. In order to ensure computational models are fit for purpose, it is essential that the abstracted view of biology captured in the computational model, is clearly and unambiguously defined within a conceptual model of the biological domain (a domain model), that acts to accurately represent the biological system and to document the functional requirements for the resultant computational model. We present a domain model of the IL-1 stimulated NF-κB signalling pathway, which unambiguously defines the spatial, temporal and stochastic requirements for our future computational model. Through the development of this model, we observe that, in isolation, UML is not sufficient for the purpose of creating a domain model, and that a number of descriptive and multivariate statistical techniques provide complementary perspectives, in particular when modelling the heterogeneity of dynamics at the single-cell level. We believe this approach of using UML to define the structure and interactions within a complex system, along with statistics to define the stochastic and dynamic nature of complex systems, is crucial for ensuring that conceptual models of complex dynamical biosystems, which are developed using UML, are fit for purpose, and unambiguously define the functional requirements for the resultant computational model. PMID:27571414
Statistical Techniques Complement UML When Developing Domain Models of Complex Dynamical Biosystems.
Williams, Richard A; Timmis, Jon; Qwarnstrom, Eva E
2016-01-01
Computational modelling and simulation is increasingly being used to complement traditional wet-lab techniques when investigating the mechanistic behaviours of complex biological systems. In order to ensure computational models are fit for purpose, it is essential that the abstracted view of biology captured in the computational model, is clearly and unambiguously defined within a conceptual model of the biological domain (a domain model), that acts to accurately represent the biological system and to document the functional requirements for the resultant computational model. We present a domain model of the IL-1 stimulated NF-κB signalling pathway, which unambiguously defines the spatial, temporal and stochastic requirements for our future computational model. Through the development of this model, we observe that, in isolation, UML is not sufficient for the purpose of creating a domain model, and that a number of descriptive and multivariate statistical techniques provide complementary perspectives, in particular when modelling the heterogeneity of dynamics at the single-cell level. We believe this approach of using UML to define the structure and interactions within a complex system, along with statistics to define the stochastic and dynamic nature of complex systems, is crucial for ensuring that conceptual models of complex dynamical biosystems, which are developed using UML, are fit for purpose, and unambiguously define the functional requirements for the resultant computational model.
Domain Modeling: NP_775082.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_775082.1 chr7 FOUR MODELS OF HUMAN FACTOR H DETERMINED BY SOLUTION SCATTERING CU...RVE-FITTING AND HOMOLOGY MODELLING p1haqa_ chr7/NP_775082.1/NP_775082.1_apo_745-2348.pdb swppa 0 ...
Modeling thermally activated domain wall dynamics in thin magnetic strips with disorder
Energy Technology Data Exchange (ETDEWEB)
Laurson, L; Mughal, A; Serpico, C; Durin, G; Zapperi, S, E-mail: lasse.laurson@gmail.com [ISI Foundation, Torino (Italy)
2011-04-01
We study the effect of disorder and temperature on the field-driven dynamics of a transverse domain wall occurring in thin and narrow magnetic strips made of a soft magnetic material such as permalloy. Motivated by a micromagnetic description of such a domain wall, we construct a model based on two coupled flexible lines enclosing the domain wall transition region, capturing both the finite width and the characteristic V-shape of the wall. Disorder is included via randomly distributed pinning centers interacting with the two lines. We study the field-driven dynamics of the domain wall in disordered strips in a finite temperature, and compare our findings to experimental observations of stochastic domain wall dynamics.
Tangible Modelling to Elicit Domain Knowledge: An Experiment and Focus Group
Ionita, Dan; Wieringa, Roelf J.; Bullee, Jan-Willem; Vasenev, Alexandr; Johannesson, Paul; Li Lee, Mong; Liddle, Stephen W.; Opdahl, Andreas L.; López, Óscar Pastor
2015-01-01
Conceptual models represent social and technical aspects of the world relevant to a variety of technical and non-technical stakehold- ers. To build these models, knowledge might have to be collected from domain experts who are rarely modelling experts and don’t usually have the time or desire to
Comparison of Cole-Cole and Constant Phase Angle modeling in time-domain induced polarization
DEFF Research Database (Denmark)
Lajaunie, Myriam; Maurya, Pradip Kumar; Fiandaca, Gianluca
is reflected in TDIP data, and therefore, at identifying (1) if and when it is possible to distinguish, in time domain, between a Cole-Cole description and a CPA one, and (2) if features of time domain data exist in order to know, from a simple data inspection, which model will be the most adapted to the data......, forward modeling of quadrupolar sequences on 1D and 2D heterogeneous CPA models shows that the CPA decays differ among each other only by a multiplication factor. Consequently, the inspection of field data in log-log plots gives insight on the modeling needed for fitting them: the CPA inversion cannot...
Categorization of Unorganized Text Corpora for better Domain-Specific Language Modeling
Directory of Open Access Journals (Sweden)
Jan Stas
2013-01-01
Full Text Available This paper describes the process of categorization of unorganized text data gathered from the Internet to the in-domain and out-of-domain data for better domain-specific language modeling and speech recognition. An algorithm for text categorization and topic detection based on the most frequent key phrases is presented. In this scheme, each document entered into the process of text categorization is represented by a vector space model with term weighting based on computing the term frequency and inverse document frequency. Text documents are then classified to the in-domain and out-of-domain data automatically with predefined threshold using one of the selected distance/similarity measures comparing to the list of key phrases. The experimental results of the language modeling and adaptation to the judicial domain show significant improvement in the model perplexity about 19 % and decreasing of the word error rate of the Slovak transcription and dictation system about 5,54 %, relatively.
Time-domain compressive dictionary of attributed scattering center model for sparse representation
Institute of Scientific and Technical Information of China (English)
ZHONG Jin-rong; WEN Gong-jian
2016-01-01
Parameter estimation of the attributed scattering center (ASC) model is significant for automatic target recognition (ATR). Sparse representation based parameter estimation methods have developed rapidly. Construction of the separable dictionary is a key issue for sparse representation technology. A compressive time-domain dictionary (TD) for ASC model is presented. Two-dimensional frequency domain responses of the ASC are produced and transformed into the time domain. Then these time domain responses are cutoff and stacked into vectors. These vectored time-domain responses are amalgamated to form the TD. Compared with the traditional frequency-domain dictionary (FD), the TD is a matrix that is quite spare and can markedly reduce the data size of the dictionary. Based on the basic TD construction method, we present four extended TD construction methods, which are available for different applications. In the experiments, the performance of the TD, including the basic model and the extended models, has been firstly analyzed in comparison with the FD. Secondly, an example of parameter estimation from SAR synthetic aperture radar (SAR) measurements of a target collected in an anechoic room is exhibited. Finally, a sparse image reconstruction example is from two apart apertures. Experimental results demonstrate the effectiveness and efficiency of the proposed TD.
Comparative Study of Lectin Domains in Model Species: New Insights into Evolutionary Dynamics
Directory of Open Access Journals (Sweden)
Sofie Van Holle
2017-05-01
Full Text Available Lectins are present throughout the plant kingdom and are reported to be involved in diverse biological processes. In this study, we provide a comparative analysis of the lectin families from model species in a phylogenetic framework. The analysis focuses on the different plant lectin domains identified in five representative core angiosperm genomes (Arabidopsis thaliana, Glycine max, Cucumis sativus, Oryza sativa ssp. japonica and Oryza sativa ssp. indica. The genomes were screened for genes encoding lectin domains using a combination of Basic Local Alignment Search Tool (BLAST, hidden Markov models, and InterProScan analysis. Additionally, phylogenetic relationships were investigated by constructing maximum likelihood phylogenetic trees. The results demonstrate that the majority of the lectin families are present in each of the species under study. Domain organization analysis showed that most identified proteins are multi-domain proteins, owing to the modular rearrangement of protein domains during evolution. Most of these multi-domain proteins are widespread, while others display a lineage-specific distribution. Furthermore, the phylogenetic analyses reveal that some lectin families evolved to be similar to the phylogeny of the plant species, while others share a closer evolutionary history based on the corresponding protein domain architecture. Our results yield insights into the evolutionary relationships and functional divergence of plant lectins.
A Qualitative Study of Domain Specific Languages for Model Driven Security
Directory of Open Access Journals (Sweden)
Muhammad Qaiser Saleem
2014-05-01
Full Text Available In Model-Driven development, software system design is represented through models which are created using general purpose modeling languages e.g., UML. Later on system artifacts are automatically generated from these models. Model-Driven Security is a specialization of Model-Driven paradigm towards the domain of security, where security objectives are modeled along the system models and security infrastructures are directly generated from these models. Currently available general purpose modeling languages like UML do not have capability to model the security objectives along the system models. Over the past decade, many researchers are trying to address these limitations of the general purpose modeling languages and come up with several Domain Specific Modeling Languages for Model Driven Security. In this study, a comparative study is presented regarding the security Domain Specific Modeling Languages presented by the most prominent researchers for the development of secure system. A success criteria has been defined and these DSLs are critically analyzed based on it to obtain the qualitative results.
Tarek, Mounir; Delemotte, Lucie
2013-12-17
Ion channels conduct charged species through otherwise impermeable biological membranes. Their activity supports a number of physiological processes, and genetic mutations can disrupt their function dramatically. Among these channels, voltage gated cation channels (VGCCs) are ubiquitous transmembrane proteins involved in electrical signaling. In addition to their selectivity for ions, their function requires membrane-polarization-dependent gating. Triggered by changes in the transmembrane voltage, the activation and deactivation of VGCCs proceed through a sensing mechanism that prompts motion of conserved positively charged (basic) residues within the S4 helix of a four-helix bundle, the voltage sensor domain (VSD). Decades of experimental investigations, using electrophysiology, molecular biology, pharmacology, and spectroscopy, have revealed details about the function of VGCCs. However, in 2005, the resolution of the crystal structure of the activated state of one member of the mammalian voltage gated potassium (Kv) channels family (the Kv1.2) enabled researchers to make significant progress in understanding the structure-function relationship in these proteins on a molecular level. In this Account, we review the use of a complementary technique, molecular dynamics (MD) simulations, that has offered new insights on this timely issue. Starting from the "open-activated state" crystal structure, we have carried out large-scale all atom MD simulations of the Kv1.2 channel embedded in its lipidic environment and submitted to a hyperpolarizing (negative) transmembrane potential. We then used steered MD simulations to complete the full transition to the resting-closed state. Using these procedures, we have followed the operation of the VSDs and uncovered three intermediate states between their activated and deactivated conformations. Each conformational state is characterized by its network of salt bridges and by the occupation of the gating charge transfer center by a
A domain model of a clinical reading center - Design and implementation.
Lotz, Gunnar; Peters, Tobias; Zrenner, Eberhart; Wilke, Robert
2010-01-01
In clinical trials huge amounts of raw data are generated. Often these data are submitted to reading centers for being analyzed by experts of that particular type of examination. Although the installment of a reading center can raise the overall quality, they also introduce additional complexity to the management and conduction of a clinical trial. Software can help to handle this complexity. Domain-driven-design is one concept to tackle software development in such complex domains. Here we present our domain model for a clinical reading center, as well as its actual implementation utilizing the Nuxeo enterprise content management system.
U.S. Environmental Protection Agency — This file contains value of the model training set confusion matrix, domain of applicability evaluation based on training set to predicted chemicals structural...
Analytical modelling and x-ray imaging of oscillations of a single magnetic domain wall
Energy Technology Data Exchange (ETDEWEB)
Bocklage, Lars; Kruger, Benjamin; Fischer, Peter; Meier, Guido
2009-07-10
Domain-wall oscillation in a pinnig potential is described analytically in a one dimensional model for the feld-driven case. For a proper description the pinning potential has to be extended by nonharmonic contributions. Oscillations of a domain wall are observed on its genuine time scale by magnetic X-ray microscopy. It is shown that the nonharmonic terms are present in real samples with a strong restoring potential. In the framework of our model we gain deep insight into the domain-wall motion by looking at different phase spaces. The corrections of the harmonic potential can change the motion of the domain wall significantly. The damping parameter of permalloy is determined via the direct imaging technique.
3D Image Modelling and Specific Treatments in Orthodontics Domain
Directory of Open Access Journals (Sweden)
Dionysis Goularas
2007-01-01
Full Text Available In this article, we present a 3D specific dental plaster treatment system for orthodontics. From computer tomography scanner images, we propose first a 3D image modelling and reconstruction method of the Mandible and Maxillary based on an adaptive triangulation allowing management of contours meant for the complex topologies. Secondly, we present two specific treatment methods directly achieved on obtained 3D model allowing the automatic correction for the setting in occlusion of the Mandible and the Maxillary, and the teeth segmentation allowing more specific dental examinations. Finally, these specific treatments are presented via a client/server application with the aim of allowing a telediagnosis and treatment.
Modeling of earthquake ground motion in the frequency domain
Thrainsson, Hjortur
In recent years, the utilization of time histories of earthquake ground motion has grown considerably in the design and analysis of civil structures. It is very unlikely, however, that recordings of earthquake ground motion will be available for all sites and conditions of interest. Hence, there is a need for efficient methods for the simulation and spatial interpolation of earthquake ground motion. In addition to providing estimates of the ground motion at a site using data from adjacent recording stations, spatially interpolated ground motions can also be used in design and analysis of long-span structures, such as bridges and pipelines, where differential movement is important. The objective of this research is to develop a methodology for rapid generation of horizontal earthquake ground motion at any site for a given region, based on readily available source, path and site characteristics, or (sparse) recordings. The research includes two main topics: (i) the simulation of earthquake ground motion at a given site, and (ii) the spatial interpolation of earthquake ground motion. In topic (i), models are developed to simulate acceleration time histories using the inverse discrete Fourier transform. The Fourier phase differences, defined as the difference in phase angle between adjacent frequency components, are simulated conditional on the Fourier amplitude. Uniformly processed recordings from recent California earthquakes are used to validate the simulation models, as well as to develop prediction formulas for the model parameters. The models developed in this research provide rapid simulation of earthquake ground motion over a wide range of magnitudes and distances, but they are not intended to replace more robust geophysical models. In topic (ii), a model is developed in which Fourier amplitudes and Fourier phase angles are interpolated separately. A simple dispersion relationship is included in the phase angle interpolation. The accuracy of the interpolation
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Domain Modeling: NP_663160.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_663160.1 chr7 THE MODELED STRUCTURE OF FIBRITIN (GPWAC) OF BACTERIOPHAGE T4 BASED ON CRYO-EM RECONSTRUCTI...ON OF THE EXTENDED TAIL OF BACTERIOPHAGE T4 p2bsga_ chr7/NP_663160.1/NP_663160.1_apo_236-844.pdb swppa 0 ...
Domain Modeling: NP_062536.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_062536.2 chr10 THE MODELED STRUCTURE OF FIBRITIN (GPWAC) OF BACTERIOPHAGE T4 BASED ON CRYO-EM RECONSTRUCT...ION OF THE EXTENDED TAIL OF BACTERIOPHAGE T4 p2bsga_ chr10/NP_062536.2/NP_062536.2_apo_1-477.pdb swppa 0 ...
Domain Modeling: NP_115912.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_115912.1 chr2 THE MODELED STRUCTURE OF FIBRITIN (GPWAC) OF BACTERIOPHAGE T4 BASED ON CRYO-EM RECONSTRUCTI...ON OF THE EXTENDED TAIL OF BACTERIOPHAGE T4 p2bsga_ chr2/NP_115912.1/NP_115912.1_apo_241-902.pdb swppa 0 ...
Domain Modeling: NP_115784.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_115784.1 chr7 THE MODELED STRUCTURE OF FIBRITIN (GPWAC) OF BACTERIOPHAGE T4 BASED ON CRYO-EM RECONSTRUCTI...ON OF THE EXTENDED TAIL OF BACTERIOPHAGE T4 p2bsga_ chr7/NP_115784.1/NP_115784.1_apo_372-875.pdb swppa 0 ...
Domain Modeling: NP_055757.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_055757.2 chr6 THE MODELED STRUCTURE OF FIBRITIN (GPWAC) OF BACTERIOPHAGE T4 BASED ON CRYO-EM RECONSTRUCTI...ON OF THE EXTENDED TAIL OF BACTERIOPHAGE T4 p2bsga_ chr6/NP_055757.2/NP_055757.2_apo_262-722.pdb swppa 0 ...
Domain Modeling: NP_114129.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_114129.1 chr10 THE MODELED STRUCTURE OF FIBRITIN (GPWAC) OF BACTERIOPHAGE T4 BASED ON CRYO-EM RECONSTRUCT...ION OF THE EXTENDED TAIL OF BACTERIOPHAGE T4 p2bsga_ chr10/NP_114129.1/NP_114129.1_apo_3-482.pdb swppa 0 ...
Domain Modeling: NP_078862.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_078862.2 chr1 THE MODELED STRUCTURE OF FIBRITIN (GPWAC) OF BACTERIOPHAGE T4 BASED ON CRYO-EM RECONSTRUCTI...ON OF THE EXTENDED TAIL OF BACTERIOPHAGE T4 p2bsga_ chr1/NP_078862.2/NP_078862.2_apo_116-722.pdb swppa 0 ...
Domain Modeling: NP_667338.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_667338.3 chr4 THE MODELED STRUCTURE OF FIBRITIN (GPWAC) OF BACTERIOPHAGE T4 BASED ON CRYO-EM RECONSTRUCTI...ON OF THE EXTENDED TAIL OF BACTERIOPHAGE T4 p2bsga_ chr4/NP_667338.3/NP_667338.3_apo_275-740.pdb swppa 0 ...
Domain Modeling: NP_006188.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_006188.3 chr8 THE MODELED STRUCTURE OF FIBRITIN (GPWAC) OF BACTERIOPHAGE T4 BASED ON CRYO-EM RECONSTRUCTI...ON OF THE EXTENDED TAIL OF BACTERIOPHAGE T4 p2bsga_ chr8/NP_006188.3/NP_006188.3_apo_282-764.pdb swppa 0 ...
Domain Modeling: NP_542415.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_542415.1 chr4 THE MODELED STRUCTURE OF FIBRITIN (GPWAC) OF BACTERIOPHAGE T4 BASED ON CRYO-EM RECONSTRUCTI...ON OF THE EXTENDED TAIL OF BACTERIOPHAGE T4 p2bsga_ chr4/NP_542415.1/NP_542415.1_apo_124-573.pdb swppa 0 ...
Domain Modeling: NP_077006.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_077006.1 chr2 THE MODELED STRUCTURE OF FIBRITIN (GPWAC) OF BACTERIOPHAGE T4 BASED ON CRYO-EM RECONSTRUCTI...ON OF THE EXTENDED TAIL OF BACTERIOPHAGE T4 p2bsga_ chr2/NP_077006.1/NP_077006.1_apo_148-599.pdb swppa 0 ...
Domain Modeling: NP_955446.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_955446.1 chr15 THE MODELED STRUCTURE OF FIBRITIN (GPWAC) OF BACTERIOPHAGE T4 BASED ON CRYO-EM RECONSTRUCT...ION OF THE EXTENDED TAIL OF BACTERIOPHAGE T4 p2bsga_ chr15/NP_955446.1/NP_955446.1_apo_15-557.pdb swppa 0 ...
Domain Modeling: NP_005742.4 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_005742.4 chr7 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CON...STRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr7/NP_005742.4/NP_005742.4_apo_3645-3904.pdb psi-blast 0 ...
Domain Modeling: NP_056023.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr18/NP_056023.3/NP_056023.3_apo_567-840.pdb psi-blast 0 ... ...NP_056023.3 chr18 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_006176.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr11/NP_006176.2/NP_006176.2_apo_1224-1521.pdb psi-blast 0 ... ...NP_006176.2 chr11 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_803172.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr11/NP_803172.1/NP_803172.1_apo_161-440.pdb psi-blast 0 ... ...NP_803172.1 chr11 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_065868.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_065868.1 chr3 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CON...STRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr3/NP_065868.1/NP_065868.1_apo_30-298.pdb psi-blast 0 ...
Domain Modeling: NP_689659.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr14/NP_689659.2/NP_689659.2_apo_3-277.pdb psi-blast 0 ... ...NP_689659.2 chr14 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_653297.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_653297.3 chr1 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CON...STRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr1/NP_653297.3/NP_653297.3_apo_51-334.pdb psi-blast 0 ...
Domain Modeling: NP_006653.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr16/NP_006653.2/NP_006653.2_apo_220-489.pdb psi-blast 0 ... ...NP_006653.2 chr16 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_065762.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_065762.1 chr2 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CON...STRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr2/NP_065762.1/NP_065762.1_apo_9-278.pdb psi-blast 0 ...
Domain Modeling: NP_061486.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_061486.2 chr1 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CON...STRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr1/NP_061486.2/NP_061486.2_apo_832-1103.pdb psi-blast 0 ...
Domain Modeling: NP_055459.4 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_055459.4 chr1 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CON...STRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr1/NP_055459.4/NP_055459.4_apo_700-983.pdb psi-blast 0 ...
Domain Modeling: NP_115791.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_115791.3 chr7 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CON...STRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr7/NP_115791.3/NP_115791.3_apo_751-1027.pdb psi-blast 0 ...
Domain Modeling: NP_055730.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr10/NP_055730.2/NP_055730.2_apo_652-911.pdb psi-blast 0 ... ...NP_055730.2 chr10 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_958431.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr17/NP_958431.2/NP_958431.2_apo_259-509.pdb psi-blast 0 ... ...NP_958431.2 chr17 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_061885.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr12/NP_061885.2/NP_061885.2_apo_723-1006.pdb psi-blast 0 ... ...NP_061885.2 chr12 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_689658.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr14/NP_689658.1/NP_689658.1_apo_343-607.pdb psi-blast 0 ... ...NP_689658.1 chr14 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_006633.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_006633.1 chr1 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CON...STRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr1/NP_006633.1/NP_006633.1_apo_413-692.pdb psi-blast 0 ...
Domain Modeling: NP_443078.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr20/NP_443078.1/NP_443078.1_apo_484-750.pdb psi-blast 0 ... ...NP_443078.1 chr20 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_689988.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_689988.1 chr4 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CON...STRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr4/NP_689988.1/NP_689988.1_apo_92-368.pdb psi-blast 0 ...
Domain Modeling: NP_055365.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr22/NP_055365.2/NP_055365.2_apo_403-676.pdb psi-blast 0 ... ...NP_055365.2 chr22 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_958786.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_958786.1 chr8 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CON...STRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr8/NP_958786.1/NP_958786.1_apo_1914-2177.pdb psi-blast 0 ...
Domain Modeling: NP_057374.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_057374.3 chr5 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CON...STRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr5/NP_057374.3/NP_057374.3_apo_262-517.pdb psi-blast 0 ...
Domain Modeling: NP_733468.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr15/NP_733468.2/NP_733468.2_apo_1990-2259.pdb psi-blast 0 ... ...NP_733468.2 chr15 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_005079.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_005079.2 chrY TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CON...STRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chrY/NP_005079.2/NP_005079.2_apo_236-512.pdb psi-blast 0 ...
Domain Modeling: NP_996769.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_996769.2 chr1 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CON...STRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr1/NP_996769.2/NP_996769.2_apo_1151-1417.pdb psi-blast 0 ...
Domain Modeling: NP_055972.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr11/NP_055972.1/NP_055972.1_apo_1084-1369.pdb psi-blast 0 ... ...NP_055972.1 chr11 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_597732.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr19/NP_597732.1/NP_597732.1_apo_371-640.pdb psi-blast 0 ... ...NP_597732.1 chr19 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_065894.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr15/NP_065894.1/NP_065894.1_apo_960-1223.pdb psi-blast 0 ... ...NP_065894.1 chr15 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_002464.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr22/NP_002464.1/NP_002464.1_apo_1215-1493.pdb psi-blast 0 ... ...NP_002464.1 chr22 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_937883.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr12/NP_937883.1/NP_937883.1_apo_1102-1389.pdb psi-blast 0 ... ...NP_937883.1 chr12 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_065827.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr18/NP_065827.1/NP_065827.1_apo_36-317.pdb psi-blast 0 ... ...NP_065827.1 chr18 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_891991.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr14/NP_891991.1/NP_891991.1_apo_1008-1287.pdb psi-blast 0 ... ...NP_891991.1 chr14 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_877498.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_877498.2 chr1 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CON...STRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr1/NP_877498.2/NP_877498.2_apo_140-421.pdb psi-blast 0 ...
Domain Modeling: NP_075408.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_075408.1 chr2 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CON...STRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr2/NP_075408.1/NP_075408.1_apo_318-595.pdb psi-blast 0 ...
Domain Modeling: NP_065821.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_065821.1 chr1 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CON...STRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr1/NP_065821.1/NP_065821.1_apo_763-1010.pdb psi-blast 0 ...
Domain Modeling: NP_006022.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr21/NP_006022.3/NP_006022.3_apo_2408-2690.pdb psi-blast 0 ... ...NP_006022.3 chr21 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_898861.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_898861.1 chr6 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CON...STRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr6/NP_898861.1/NP_898861.1_apo_17-278.pdb psi-blast 0 ...
Domain Modeling: NP_055874.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr15/NP_055874.2/NP_055874.2_apo_893-1163.pdb psi-blast 0 ... ...NP_055874.2 chr15 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_653091.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr15/NP_653091.2/NP_653091.2_apo_1897-2179.pdb psi-blast 0 ... ...NP_653091.2 chr15 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_891556.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr14/NP_891556.1/NP_891556.1_apo_431-709.pdb psi-blast 0 ... ...NP_891556.1 chr14 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_060800.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr10/NP_060800.2/NP_060800.2_apo_8-290.pdb psi-blast 0 ... ...NP_060800.2 chr10 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_667338.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_667338.3 chr4 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CON...STRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr4/NP_667338.3/NP_667338.3_apo_742-1013.pdb psi-blast 0 ...
Domain Modeling: NP_878915.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_878915.1 chr2 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CON...STRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr2/NP_878915.1/NP_878915.1_apo_246-521.pdb psi-blast 0 ...
Domain Modeling: NP_060208.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_060208.2 chr9 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CON...STRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr9/NP_060208.2/NP_060208.2_apo_5-264.pdb psi-blast 0 ...
Domain Modeling: NP_006026.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr14/NP_006026.3/NP_006026.3_apo_513-760.pdb psi-blast 0 ... ...NP_006026.3 chr14 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_060731.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_060731.2 chr4 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CON...STRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr4/NP_060731.2/NP_060731.2_apo_11-280.pdb psi-blast 0 ...
Domain Modeling: NP_036422.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_036422.3 chr2 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CON...STRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr2/NP_036422.3/NP_036422.3_apo_140-410.pdb psi-blast 0 ...
Domain Modeling: NP_004514.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr10/NP_004514.2/NP_004514.2_apo_729-1005.pdb psi-blast 0 ... ...NP_004514.2 chr10 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_075408.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_075408.1 chr2 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CON...STRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr2/NP_075408.1/NP_075408.1_apo_10-282.pdb psi-blast 0 ...
Domain Modeling: NP_001804.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_001804.2 chr4 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CON...STRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr4/NP_001804.2/NP_001804.2_apo_658-941.pdb psi-blast 0 ...
Domain Modeling: NP_085148.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_085148.1 chr1 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CON...STRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr1/NP_085148.1/NP_085148.1_apo_8-268.pdb psi-blast 0 ...
Domain Modeling: NP_060004.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr17/NP_060004.3/NP_060004.3_apo_1489-1747.pdb psi-blast 0 ... ...NP_060004.3 chr17 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_689821.3 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_689821.3 chr1 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CON...STRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr1/NP_689821.3/NP_689821.3_apo_168-441.pdb psi-blast 0 ...
Domain Modeling: NP_006337.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr13/NP_006337.2/NP_006337.2_apo_466-744.pdb psi-blast 0 ... ...NP_006337.2 chr13 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_056502.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_056502.1 chr6 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CON...STRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr6/NP_056502.1/NP_056502.1_apo_722-978.pdb psi-blast 0 ...
Domain Modeling: NP_055365.2 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr22/NP_055365.2/NP_055365.2_apo_24-302.pdb psi-blast 0 ... ...NP_055365.2 chr22 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_037407.4 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr16/NP_037407.4/NP_037407.4_apo_799-1071.pdb psi-blast 0 ... ...NP_037407.4 chr16 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. CO
Domain Modeling: NP_001035541.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_001035541.1 chr5 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. ...CONSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr5/NP_001035541.1/NP_001035541.1_apo_245-515.pdb psi-blast 0 ...
Domain Modeling: NP_001002811.1 [SAHG[Archive
Lifescience Database Archive (English)
Full Text Available NP_001002811.1 chr1 TROPOMYOSIN CRYSTAL STRUCTURE AND MUSCLE REGULATION. APPENDIX. ...CONSTRUCTION OF AN ATOMIC MODEL FOR TROPOMYOSIN AND IMPLICATIONS FOR INTERACTIONS WITH ACTIN c2tmab_ chr1/NP_001002811.1/NP_001002811.1_apo_498-757.pdb psi-blast 0 ...