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Sample records for deltasup 18osub pdb

  1. Isotopic variations ({delta}{sup 13} C and {delta}{sup 18} O) in Siderastrea stellata (Cnidaria-Anthozoa), Itamaraca island, State of Pernambuco, Northeastern Brazil

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    Ferreira, Valderez P.; Sial, Alcides N. [Pernambuco Univ., Recife, PE (Brazil). Dept. de Geologia. Lab. de Isotopos Estaveis; Mayeal, Elga M.; Exner, Marco Antonio [Pernambuco Univ., Recife, PE (Brazil). Dept. de Zoologia. Lab. de Macro e Megabentos

    1998-12-01

    Isotopic determinations for O and C were performed in coral skeletons collected in beach rocks from two localities (Orange and Catuama), Itamaraca Island, north littoral of the State of pernambuco, northeastern Brazil. Large variations of {delta}{sup 18} O and {delta}{sup 13} C in corals from both localities are found, the largest ones being observed at the Orange locality {delta}{sup 13} C in this locality varies from -0.8 to +1.8% PDB and {delta}{sup 1.8} O from -5.3 to -1.8% PDB, while at the Catuama locality, they vary from -1.8 to 0.1% PDB and -3.8 to -2.7% PDB, respectively. Large variations in {delta}{sup 18} O (up to 2.5%) coupled with weakly defined positive correlation between {delta}{sup 18} O and {delta}{sup 13} C, can be attributed to temperature variations as consequence of climatic perturbations. Temperature estimates, calculated from {delta}{sup 18} O values, assuming isotopic equilibrium with seawater, yield values between 24.9 deg C and 43.1 deg C at Orange, and from 28.4 deg C to 35 deg C at Catuama, all of them (expect one growth band from one sample) are high enough for the full development of the coral colony. Temperature average is 31.4 deg C at Orange, which is a little bit higher than that at Catuama, but both of them indicate thermal stress conditions. In all analyzed specimens, expect for one, at Orange, T increases was accompanied by decreasing in the organic activity, as suggested by corresponding negative {delta}{sup 13} C anomaly. Therefore, the observed bleaching is possibly related to thermal stress and the high T may be related to the El Nino-Southern Oscillation (ENSO) warning event. On the other hand, anthropogenic action at Orange, local of intense tourism throughout the year, coupled with high rate of sedimentation in the region, may contribute to the observed coral bleaching. (author)

  2. Protein Data Bank (PDB)

    Data.gov (United States)

    U.S. Department of Health & Human Services — The Protein Data Bank (PDB) archive is the single worldwide repository of information about the 3D structures of large biological molecules, including proteins and...

  3. pdb-care (PDB CArbohydrate REsidue check: a program to support annotation of complex carbohydrate structures in PDB files

    Directory of Open Access Journals (Sweden)

    von der Lieth Claus-W

    2004-06-01

    Full Text Available Abstract Background Carbohydrates are involved in a variety of fundamental biological processes and pathological situations. They therefore have a large pharmaceutical and diagnostic potential. Knowledge of the 3D structure of glycans is a prerequisite for a complete understanding of their biological functions. The largest source of biomolecular 3D structures is the Protein Data Bank. However, about 30% of all 1663 PDB entries (version September 2003 containing carbohydrates comprise errors in glycan description. Unfortunately, no software is currently available which aligns the 3D information with the reported assignments. It is the aim of this work to fill this gap. Results The pdb-care program http://www.glycosciences.de/tools/pdb-care/ is able to identify and assign carbohydrate structures using only atom types and their 3D atom coordinates given in PDB-files. Looking up a translation table where systematic names and the respective PDB residue codes are listed, both assignments are compared and inconsistencies are reported. Additionally, the reliability of reported and calculated connectivities for molecules listed within the HETATOM records is checked and unusual values are reported. Conclusion Frequent use of pdb-care will help to improve the quality of carbohydrate data contained in the PDB. Automatic assignment of carbohydrate structures contained in PDB entries will enable the cross-linking of glycobiology resources with genomic and proteomic data collections.

  4. PDB: CBRC-RMAC-04-0031 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available (Identity=95%) PDB:1FFX Chain:B (X-ray Resolution=3.95),Region:385-812(Identity=95%) PDB:1IA0 Chain:B (EM Resolution...=15.00),Region:385-812(Identity=95%) PDB:1JFF Chain:B (EM Resolution=3.50),Region:385-812(Identity=9...5%) PDB:1SA0 Chain:B (X-ray Resolution=3.58),Region:385-812(Identity=95%) PDB:1SA1 Chain:B (X-ray Resoluti...on=4.20),Region:385-812(Identity=95%) PDB:2WBE Chain:B (EM Resolution=9.40),Region:...385-812(Identity=95%) PDB:1Z2B Chain:B (X-ray Resolution=4.10),Region:385-812(Identity=95%) PDB:3DCO Chain:B (EM Resolution

  5. PDB: CBRC-PVAM-01-1491 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available (Identity=90%) PDB:1FFX Chain:B (X-ray Resolution=3.95),Region:337-792(Identity=90%) PDB:1IA0 Chain:B (EM Resolution...=15.00),Region:337-792(Identity=90%) PDB:1JFF Chain:B (EM Resolution=3.50),Region:337-792(Identity=9...0%) PDB:1SA0 Chain:B (X-ray Resolution=3.58),Region:337-792(Identity=90%) PDB:1SA1 Chain:B (X-ray Resoluti...on=4.20),Region:337-792(Identity=90%) PDB:2WBE Chain:B (EM Resolution=9.40),Region:...337-792(Identity=89%) PDB:1Z2B Chain:B (X-ray Resolution=4.10),Region:337-792(Identity=89%) PDB:3DCO Chain:B (EM Resolution

  6. PDB: CBRC-MDOM-01-0507 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available (Identity=93%) PDB:1FFX Chain:B (X-ray Resolution=3.95),Region:324-795(Identity=93%) PDB:1IA0 Chain:B (EM Resolution...=15.00),Region:324-795(Identity=93%) PDB:1JFF Chain:B (EM Resolution=3.50),Region:324-795(Identity=9...3%) PDB:1SA0 Chain:B (X-ray Resolution=3.58),Region:324-795(Identity=93%) PDB:1SA1 Chain:B (X-ray Resoluti...on=4.20),Region:324-795(Identity=93%) PDB:2WBE Chain:B (EM Resolution=9.40),Region:...324-795(Identity=92%) PDB:1Z2B Chain:B (X-ray Resolution=4.10),Region:324-795(Identity=92%) PDB:3DCO Chain:B (EM Resolution

  7. PDB: CBRC-OANA-01-2184 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available (Identity=91%) PDB:1FFX Chain:B (X-ray Resolution=3.95),Region:381-814(Identity=91%) PDB:1IA0 Chain:B (EM Resolution...=15.00),Region:381-814(Identity=91%) PDB:1JFF Chain:B (EM Resolution=3.50),Region:381-814(Identity=9...1%) PDB:1SA0 Chain:B (X-ray Resolution=3.58),Region:381-814(Identity=91%) PDB:1SA1 Chain:B (X-ray Resoluti...on=4.20),Region:381-814(Identity=91%) PDB:2WBE Chain:B (EM Resolution=9.40),Region:...381-814(Identity=90%) PDB:1Z2B Chain:B (X-ray Resolution=4.10),Region:381-814(Identity=90%) PDB:3DCO Chain:B (EM Resolution

  8. PDB: CBRC-XTRO-01-3362 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available (Identity=84%) PDB:1FFX Chain:B (X-ray Resolution=3.95),Region:362-748(Identity=84%) PDB:1IA0 Chain:B (EM Resolution...=15.00),Region:362-748(Identity=84%) PDB:1JFF Chain:B (EM Resolution=3.50),Region:362-748(Identity=8...4%) PDB:1SA0 Chain:B (X-ray Resolution=3.58),Region:362-748(Identity=84%) PDB:1SA1 Chain:B (X-ray Resoluti...on=4.20),Region:362-748(Identity=84%) PDB:2WBE Chain:B (EM Resolution=9.40),Region:...362-750(Identity=84%) PDB:1Z2B Chain:B (X-ray Resolution=4.10),Region:362-750(Identity=84%) PDB:3DCO Chain:B (EM Resolution

  9. PDB: CBRC-CFAM-05-0065 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available (Identity=92%) PDB:1FFX Chain:B (X-ray Resolution=3.95),Region:383-810(Identity=92%) PDB:1IA0 Chain:B (EM Resolution...=15.00),Region:383-810(Identity=92%) PDB:1JFF Chain:B (EM Resolution=3.50),Region:383-810(Identity=9...2%) PDB:1SA0 Chain:B (X-ray Resolution=3.58),Region:383-810(Identity=92%) PDB:1SA1 Chain:B (X-ray Resoluti...on=4.20),Region:383-810(Identity=92%) PDB:2WBE Chain:B (EM Resolution=9.40),Region:...383-810(Identity=91%) PDB:1Z2B Chain:B (X-ray Resolution=4.10),Region:383-810(Identity=91%) PDB:3DCO Chain:B (EM Resolution

  10. PDB: CBRC-BTAU-01-1602 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available (Identity=90%) PDB:1FFX Chain:B (X-ray Resolution=3.95),Region:346-794(Identity=90%) PDB:1IA0 Chain:B (EM Resolution...=15.00),Region:346-794(Identity=90%) PDB:1JFF Chain:B (EM Resolution=3.50),Region:346-794(Identity=9...0%) PDB:1SA0 Chain:B (X-ray Resolution=3.58),Region:346-794(Identity=90%) PDB:1SA1 Chain:B (X-ray Resoluti...on=4.20),Region:346-794(Identity=90%) PDB:2WBE Chain:B (EM Resolution=9.40),Region:...346-794(Identity=89%) PDB:1Z2B Chain:B (X-ray Resolution=4.10),Region:346-794(Identity=89%) PDB:3DCO Chain:B (EM Resolution

  11. PDB: CBRC-MDOM-02-0275 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available (Identity=96%) PDB:1FFX Chain:B (X-ray Resolution=3.95),Region:374-798(Identity=96%) PDB:1IA0 Chain:B (EM Resolution...=15.00),Region:374-798(Identity=96%) PDB:1JFF Chain:B (EM Resolution=3.50),Region:374-798(Identity=9...6%) PDB:1SA0 Chain:B (X-ray Resolution=3.58),Region:374-798(Identity=96%) PDB:1SA1 Chain:B (X-ray Resoluti...on=4.20),Region:374-798(Identity=96%) PDB:2WBE Chain:B (EM Resolution=9.40),Region:...374-798(Identity=95%) PDB:1Z2B Chain:B (X-ray Resolution=4.10),Region:374-798(Identity=95%) PDB:3DCO Chain:B (EM Resolution

  12. PDB: CBRC-FCAT-01-1094 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available (Identity=92%) PDB:1FFX Chain:B (X-ray Resolution=3.95),Region:394-820(Identity=92%) PDB:1IA0 Chain:B (EM Resolution...=15.00),Region:394-820(Identity=92%) PDB:1JFF Chain:B (EM Resolution=3.50),Region:394-820(Identity=9...2%) PDB:1SA0 Chain:B (X-ray Resolution=3.58),Region:394-820(Identity=92%) PDB:1SA1 Chain:B (X-ray Resoluti...on=4.20),Region:394-820(Identity=92%) PDB:2WBE Chain:B (EM Resolution=9.40),Region:...394-820(Identity=92%) PDB:1Z2B Chain:B (X-ray Resolution=4.10),Region:394-820(Identity=92%) PDB:3DCO Chain:B (EM Resolution

  13. PDB: CBRC-AGAM-03-0006 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available (Identity=90%) PDB:1FFX Chain:B (X-ray Resolution=3.95),Region:493-923(Identity=90%) PDB:1IA0 Chain:B (EM Resolution...=15.00),Region:493-923(Identity=90%) PDB:1JFF Chain:B (EM Resolution=3.50),Region:493-923(Identity=9...0%) PDB:1SA0 Chain:B (X-ray Resolution=3.58),Region:493-923(Identity=90%) PDB:1SA1 Chain:B (X-ray Resoluti...on=4.20),Region:493-923(Identity=90%) PDB:2WBE Chain:B (EM Resolution=9.40),Region:...493-923(Identity=89%) PDB:1Z2B Chain:B (X-ray Resolution=4.10),Region:493-923(Identity=89%) PDB:3DCO Chain:B (EM Resolution

  14. PDB: CBRC-TGUT-37-0329 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available (Identity=87%) PDB:1FFX Chain:B (X-ray Resolution=3.95),Region:577-967(Identity=87%) PDB:1IA0 Chain:B (EM Resolution...=15.00),Region:577-967(Identity=87%) PDB:1JFF Chain:B (EM Resolution=3.50),Region:577-967(Identity=8...7%) PDB:1SA0 Chain:B (X-ray Resolution=3.58),Region:577-967(Identity=87%) PDB:1SA1 Chain:B (X-ray Resoluti...on=4.20),Region:577-967(Identity=87%) PDB:2WBE Chain:B (EM Resolution=9.40),Region:...577-967(Identity=87%) PDB:1Z2B Chain:B (X-ray Resolution=4.10),Region:577-967(Identity=87%) PDB:3DCO Chain:B (EM Resolution

  15. PDB: CBRC-PABE-07-0039 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available (Identity=96%) PDB:1FFX Chain:B (X-ray Resolution=3.95),Region:377-801(Identity=96%) PDB:1IA0 Chain:B (EM Resolution...=15.00),Region:377-801(Identity=96%) PDB:1JFF Chain:B (EM Resolution=3.50),Region:377-801(Identity=9...6%) PDB:1SA0 Chain:B (X-ray Resolution=3.58),Region:377-801(Identity=96%) PDB:1SA1 Chain:B (X-ray Resoluti...on=4.20),Region:377-801(Identity=96%) PDB:2WBE Chain:B (EM Resolution=9.40),Region:...377-801(Identity=95%) PDB:1Z2B Chain:B (X-ray Resolution=4.10),Region:377-801(Identity=95%) PDB:3DCO Chain:B (EM Resolution

  16. PDB: CBRC-RNOR-19-0067 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available (Identity=92%) PDB:1FFX Chain:B (X-ray Resolution=3.95),Region:352-778(Identity=92%) PDB:1IA0 Chain:B (EM Resolution...=15.00),Region:352-778(Identity=92%) PDB:1JFF Chain:B (EM Resolution=3.50),Region:352-778(Identity=9...2%) PDB:1SA0 Chain:B (X-ray Resolution=3.58),Region:352-778(Identity=92%) PDB:1SA1 Chain:B (X-ray Resoluti...on=4.20),Region:352-778(Identity=92%) PDB:2WBE Chain:B (EM Resolution=9.40),Region:...352-778(Identity=91%) PDB:1Z2B Chain:B (X-ray Resolution=4.10),Region:352-778(Identity=91%) PDB:3DCO Chain:B (EM Resolution

  17. PDB: CBRC-CJAC-01-0391 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available on:421-804(Identity=82%) PDB:1FFX Chain:B (X-ray Resolution=3.95),Region:421-804(Identity=82%) PDB:1IA0 Chain:B (EM Resolution...=15.00),Region:421-804(Identity=82%) PDB:1JFF Chain:B (EM Resolution=3.50),Region:421-804(...Identity=82%) PDB:1SA0 Chain:B (X-ray Resolution=3.58),Region:421-804(Identity=82...%) PDB:1SA1 Chain:B (X-ray Resolution=4.20),Region:421-788(Identity=82%) PDB:1TUB Chain:B (EM Resolution=3.7...0),Region:421-788(Identity=82%) PDB:1TVK Chain:B (EM Resolution=2.89),Region:421-804(Identity=82%) PDB:2WBE Chain:B (EM Resolution

  18. PDB: CBRC-BTAU-01-1941 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-BTAU-01-1941 1HLL,1HO9,1HOD,1HOF, Region:118-149(Identity=100%) PDB:1HLL Chain...:A (NMR),Region:118-149(Identity=100%) PDB:1HO9 Chain:A (NMR),Region:118-149(Identity=100%) PDB:1HOD Chain:A (NMR),Region:118-149(Identity=100%) PDB:1HOF Chain:A (NMR), ...

  19. PDB: CBRC-MDOM-01-0096 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MDOM-01-0096 1HLL,1HO9,1HOD,1HOF, Region:132-163(Identity=100%) PDB:1HLL Chain...:A (NMR),Region:132-163(Identity=100%) PDB:1HO9 Chain:A (NMR),Region:132-163(Identity=100%) PDB:1HOD Chain:A (NMR),Region:132-163(Identity=100%) PDB:1HOF Chain:A (NMR), ...

  20. PDB: CBRC-MLUC-01-1163 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MLUC-01-1163 1HLL,1HO9,1HOD,1HOF, Region:118-149(Identity=100%) PDB:1HLL Chain...:A (NMR),Region:118-149(Identity=100%) PDB:1HO9 Chain:A (NMR),Region:118-149(Identity=100%) PDB:1HOD Chain:A (NMR),Region:118-149(Identity=100%) PDB:1HOF Chain:A (NMR), ...

  1. PDB: CBRC-OPRI-01-0544 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-OPRI-01-0544 1HLL,1HO9,1HOD,1HOF, Region:118-149(Identity=93%) PDB:1HLL Chain:...A (NMR),Region:118-149(Identity=93%) PDB:1HO9 Chain:A (NMR),Region:118-149(Identity=93%) PDB:1HOD Chain:A (NMR),Region:118-149(Identity=93%) PDB:1HOF Chain:A (NMR), ...

  2. PDB: CBRC-BTAU-01-2619 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-BTAU-01-2619 1U34,2JNC,2JND, Region:43-137(Identity=85%) PDB:1U34 Chain:A (NMR),Region:43-137(Identity...=85%) PDB:2JNC Chain:A (NMR),Region:43-137(Identity=85%) PDB:2JND Chain:A (NMR), ...

  3. PDB: CBRC-PABE-08-0030 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-PABE-08-0030 1U34,2JNC,2JND, Region:45-139(Identity=85%) PDB:1U34 Chain:A (NMR),Region:45-139(Identity...=85%) PDB:2JNC Chain:A (NMR),Region:45-139(Identity=85%) PDB:2JND Chain:A (NMR), ...

  4. PDB: CBRC-PCAP-01-1657 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-PCAP-01-1657 1U34,2JNC,2JND, Region:43-137(Identity=80%) PDB:1U34 Chain:A (NMR),Region:43-137(Identity...=80%) PDB:2JNC Chain:A (NMR),Region:43-137(Identity=80%) PDB:2JND Chain:A (NMR), ...

  5. PDB: CBRC-ACAR-01-1016 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available 2E4H, Region:331-779(Identity=95%) PDB:3E22 Chain:A (X-ray Resolution=3.80),Region:331-779(Identity=97%) PDB:3DCO Chain:A (EM Resolut...ion=1.90),Region:331-779(Identity=97%) PDB:3EDL Chain:A (EM Resolution=28.00),Regio...n:331-779(Identity=96%) PDB:1FFX Chain:A (X-ray Resolution=3.95),Region:331-779(I...dentity=96%) PDB:1IA0 Chain:A (EM Resolution=15.00),Region:331-779(Identity=96%) PDB:1JFF Chain:A (EM Resolution...=3.50),Region:331-779(Identity=96%) PDB:1SA0 Chain:A (X-ray Resolution=3.58),Region:331-779(Identity=96%

  6. PDB: CBRC-TNIG-22-0159 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available 2WBE,3DU7,2E4H, Region:346-770(Identity=93%) PDB:3E22 Chain:A (X-ray Resolution=3.80),Region:346-770(Identit...y=95%) PDB:3DCO Chain:A (EM Resolution=1.90),Region:346-770(Identity=95%) PDB:3EDL Chain:A (EM Resolution=28....00),Region:346-770(Identity=94%) PDB:1FFX Chain:A (X-ray Resolution=3.95),Region...:346-770(Identity=94%) PDB:1IA0 Chain:A (EM Resolution=15.00),Region:346-770(Identity=94%) PDB:1JFF Chain:A (EM Resolution...=3.50),Region:346-770(Identity=94%) PDB:1SA0 Chain:A (X-ray Resolution=3.58),Region:346-770(Id

  7. PDB: CBRC-FRUB-02-0211 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available 3E22, Region:369-811(Identity=95%) PDB:1Z2B Chain:A (X-ray Resolution=4.10),Region:369-814(Identity=95%) PDB:3DCO Chain:A (EM Resolut...ion=1.90),Region:369-814(Identity=95%) PDB:3EDL Chain:A (EM Resolution=28.00),Regio...n:369-814(Identity=94%) PDB:1FFX Chain:A (X-ray Resolution=3.95),Region:369-814(I...dentity=94%) PDB:1IA0 Chain:A (EM Resolution=15.00),Region:369-814(Identity=94%) PDB:1JFF Chain:A (EM Resolution...=3.50),Region:369-814(Identity=94%) PDB:1SA0 Chain:A (X-ray Resolution=3.58),Region:369-814(Identity=94%

  8. PDB: CBRC-FRUB-02-0776 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available 2E4H, Region:1326-1773(Identity=90%) PDB:2WBE Chain:A (EM Resolution=9.40),Region:1326-1773(Identity=91%) PDB:3DCO Chain:A (EM Resolu...tion=1.90),Region:1326-1773(Identity=91%) PDB:3EDL Chain:A (EM Resolution=28.00),Re...gion:1326-1773(Identity=91%) PDB:3DU7 Chain:A (X-ray Resolution=4.10),Region:1326...-1773(Identity=91%) PDB:3E22 Chain:A (X-ray Resolution=3.80),Region:1326-1773(Identity=90%) PDB:1FFX Chain:A (X-ray Resolution...=3.95),Region:1326-1773(Identity=90%) PDB:1IA0 Chain:A (EM Resolution=15.00),Region:1326-1

  9. PDB: CBRC-TGUT-37-0154 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available 2E4H, Region:400-819(Identity=93%) PDB:3DU7 Chain:A (X-ray Resolution=4.10),Region:400-819(Identity=93%) PDB...:3E22 Chain:A (X-ray Resolution=3.80),Region:400-819(Identity=93%) PDB:2WBE Chain:A (EM Resolution=9.40),Reg...ion:400-819(Identity=93%) PDB:3DCO Chain:A (EM Resolution=1.90),Region:400-819(Id...entity=93%) PDB:3EDL Chain:A (EM Resolution=28.00),Region:400-819(Identity=93%) PDB:1FFX Chain:A (X-ray Resolution...=3.95),Region:400-819(Identity=93%) PDB:1IA0 Chain:A (EM Resolution=15.00),Region:400-819(Identity=93%

  10. PDB: CBRC-DRER-10-0153 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available 3DU7,3E22, Region:383-831(Identity=93%) PDB:3DCO Chain:A (EM Resolution=1.90),Region:383-831(Identity=93%) PDB:3EDL Chain:A (EM Resol...ution=28.00),Region:383-831(Identity=93%) PDB:1FFX Chain:A (X-ray Resolution=3.95),...Region:383-831(Identity=93%) PDB:1IA0 Chain:A (EM Resolution=15.00),Region:383-83...1(Identity=93%) PDB:1JFF Chain:A (EM Resolution=3.50),Region:383-831(Identity=93%) PDB:1SA0 Chain:A (X-ray Resolution...=3.58),Region:383-831(Identity=93%) PDB:1SA1 Chain:A (X-ray Resolution=4.20),Region:383-821(Identit

  11. Controls of {delta}{sup 34}S and {delta}{sup 18}O in dissolved sulphate: Learning from a detailed survey in the Llobregat River (Spain)

    Energy Technology Data Exchange (ETDEWEB)

    Otero, Neus [Departament Cristal . lografia, Mineralogia i Diposits Minerals, Facultat de Geologia, Universitat de Barcelona, Marti i Franques, s/n, 08028 Barcelona (Spain); Grup d' Hidrogeoquimica, Departament de Geologia Ambiental, Institut de Ciencies de la Terra ' Jaume Almera' , CSIC, Lluis Sole i Sabaris, s/n, 08028 Barcelona (Spain)], E-mail: notero@ub.edu; Soler, Albert; Canals, Angels [Departament Cristal . lografia, Mineralogia i Diposits Minerals, Facultat de Geologia, Universitat de Barcelona, Marti i Franques, s/n, 08028 Barcelona (Spain)

    2008-05-15

    The S and O isotopic composition of dissolved SO{sub 4}, used as a tracer for SO{sub 4} sources, was applied to the water of the Llobregat River system (NE Spain). The survey was carried out at 30 sites where surface water was sampled on a monthly basis over a period of 2a. The concentration of dissolved SO{sub 4} varied from 20 to 1575 mg L{sup -1}. Sulphur isotopic compositions clustered in two populations: one - 93% of the samples - had positive values with a mode of +9 per mille ; the other had negative values and a mode of -5 per mille . Data for {delta}{sup 18}O{sub SO{sub 4}} showed a mean value of +11 per mille , with no bi-modal distribution, though lower values of {delta}{sup 18}O corresponded to samples with negative {delta}{sup 34}S. These values can not be explained solely by the contribution of bedrock SO{sub 4} sources: that is, sulphide oxidation and the weathering of outcrops of sulphates, though numerous chemical sediments exist in the basin. Even in a river with a high concentration of natural sources of dissolved SO{sub 4}, such as the Llobregat River, the {delta}{sup 34}S values suggest that dissolved SO{sub 4} is controlled by a complex mix of both natural and anthropogenic sources. The main anthropogenic sources in this basin are fertilizers, sewage, potash mine effluent and power plant emissions. Detailed river water sampling, together with the chemical and isotopic characterisation of the main anthropogenic inputs, allowed determination of the influence of redox processes, as well as identification of the contribution of natural and anthropogenic SO{sub 4} sources and detection of spatial variations and seasonal changes among these sources. For instance, in the Llobregat River the input of fertilisers is well marked seasonally. Minimum values of {delta}{sup 34}S are reported during fertilization periods - from January to March - indicating a higher contribution of this source. The dual isotope approach, {delta}{sup 34}S and {delta}{sup 18}O

  12. PDB: CBRC-PHAM-01-0359 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available ion=3.10),Region:38-64(Identity=100%) PDB:1NRO Chain:R (X-ray Resolution=3.10),Regi...on:38-60(Identity=100%) PDB:1NRP Chain:R (X-ray Resolution=3.00),Region:40-60(Identity=100%) PDB:1NRQ Chain:R (X-ray Resolution...=3.50),Region:43-60(Identity=100%) PDB:1NRR Chain:R (X-ray Resolution...=2.40),Region:49-57(Identity=100%) PDB:3BEF Chain:C (X-ray Resolution=2.20), ... ...CBRC-PHAM-01-0359 1NRN,1NRO,1NRP,1NRQ,1NRR,3BEF, Region:38-60(Identity=100%) PDB:1NRN Chain:R (X-ray Resolut

  13. PDB: CBRC-PABE-06-0012 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available ion=3.10),Region:38-64(Identity=100%) PDB:1NRO Chain:R (X-ray Resolution=3.10),Regi...on:38-60(Identity=100%) PDB:1NRP Chain:R (X-ray Resolution=3.00),Region:40-60(Identity=100%) PDB:1NRQ Chain:R (X-ray Resolution...=3.50),Region:43-60(Identity=100%) PDB:1NRR Chain:R (X-ray Resolution...=2.40),Region:49-57(Identity=100%) PDB:3BEF Chain:C (X-ray Resolution=2.20), ... ...CBRC-PABE-06-0012 1NRN,1NRO,1NRP,1NRQ,1NRR,3BEF, Region:38-60(Identity=100%) PDB:1NRN Chain:R (X-ray Resolut

  14. PDB: CBRC-PTRO-06-0019 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available ion=3.10),Region:38-64(Identity=100%) PDB:1NRO Chain:R (X-ray Resolution=3.10),Regi...on:38-60(Identity=100%) PDB:1NRP Chain:R (X-ray Resolution=3.00),Region:40-60(Identity=100%) PDB:1NRQ Chain:R (X-ray Resolution...=3.50),Region:43-60(Identity=100%) PDB:1NRR Chain:R (X-ray Resolution...=2.40),Region:49-57(Identity=100%) PDB:3BEF Chain:C (X-ray Resolution=2.20), ... ...CBRC-PTRO-06-0019 1NRN,1NRO,1NRP,1NRQ,1NRR,3BEF, Region:38-60(Identity=100%) PDB:1NRN Chain:R (X-ray Resolut

  15. PDB: CBRC-RMAC-06-0015 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available ion=3.10),Region:38-64(Identity=100%) PDB:1NRO Chain:R (X-ray Resolution=3.10),Regi...on:38-60(Identity=100%) PDB:1NRP Chain:R (X-ray Resolution=3.00),Region:40-60(Identity=100%) PDB:1NRQ Chain:R (X-ray Resolution...=3.50),Region:43-60(Identity=100%) PDB:1NRR Chain:R (X-ray Resolution...=2.40),Region:49-57(Identity=100%) PDB:3BEF Chain:C (X-ray Resolution=2.20), ... ...CBRC-RMAC-06-0015 1NRN,1NRO,1NRP,1NRQ,1NRR,3BEF, Region:38-60(Identity=100%) PDB:1NRN Chain:R (X-ray Resolut

  16. PDB: CBRC-PABE-06-0013 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available ion=3.10),Region:21-47(Identity=100%) PDB:1NRO Chain:R (X-ray Resolution=3.10),Regi...on:21-43(Identity=100%) PDB:1NRP Chain:R (X-ray Resolution=3.00),Region:23-43(Identity=100%) PDB:1NRQ Chain:R (X-ray Resolution...=3.50),Region:26-43(Identity=100%) PDB:1NRR Chain:R (X-ray Resolution...=2.40),Region:32-40(Identity=100%) PDB:3BEF Chain:C (X-ray Resolution=2.20), ... ...CBRC-PABE-06-0013 1NRN,1NRO,1NRP,1NRQ,1NRR,3BEF, Region:21-43(Identity=100%) PDB:1NRN Chain:R (X-ray Resolut

  17. PDB: CBRC-HSAP-05-0018 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available ion=3.10),Region:38-64(Identity=100%) PDB:1NRO Chain:R (X-ray Resolution=3.10),Regi...on:38-60(Identity=100%) PDB:1NRP Chain:R (X-ray Resolution=3.00),Region:40-60(Identity=100%) PDB:1NRQ Chain:R (X-ray Resolution...=3.50),Region:43-60(Identity=100%) PDB:1NRR Chain:R (X-ray Resolution...=2.40),Region:49-57(Identity=100%) PDB:3BEF Chain:C (X-ray Resolution=2.20), ... ...CBRC-HSAP-05-0018 1NRN,1NRO,1NRP,1NRQ,1NRR,3BEF, Region:38-60(Identity=100%) PDB:1NRN Chain:R (X-ray Resolut

  18. PDB: CBRC-TTRU-01-0897 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-TTRU-01-0897 1OF2,1OGT,3B3I, Region:408-416(Identity=100%) PDB:1OF2 Chain:C (X-ray Reso...lution=2.20),Region:408-416(Identity=100%) PDB:1OGT Chain:C (X-ray Resolution=1.47),Region:408-416(Identity=100%) PDB:3B3I Chain:C (X-ray Resolution=1.86), ...

  19. PDB: CBRC-GGOR-01-1356 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-GGOR-01-1356 1OF2,1OGT,3B3I, Region:417-425(Identity=100%) PDB:1OF2 Chain:C (X-ray Reso...lution=2.20),Region:417-425(Identity=100%) PDB:1OGT Chain:C (X-ray Resolution=1.47),Region:417-425(Identity=100%) PDB:3B3I Chain:C (X-ray Resolution=1.86), ...

  20. PDB: CBRC-PVAM-01-1208 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-PVAM-01-1208 3EHS,3EHT,3EHU, Region:24-119(Identity=95%) PDB:3EHS Chain:A (X-ray Reso...lution=2.76),Region:24-119(Identity=95%) PDB:3EHT Chain:A (X-ray Resolution=3.40),Region:24-119(Identity=95%) PDB:3EHU Chain:A (X-ray Resolution=1.96), ...

  1. PDB: CBRC-MDOM-02-0161 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MDOM-02-0161 3EHS,3EHT,3EHU, Region:31-126(Identity=87%) PDB:3EHS Chain:A (X-ray Reso...lution=2.76),Region:31-126(Identity=87%) PDB:3EHT Chain:A (X-ray Resolution=3.40),Region:31-126(Identity=87%) PDB:3EHU Chain:A (X-ray Resolution=1.96), ...

  2. Protein Data Bank (PDB): The Single Global Macromolecular Structure Archive.

    Science.gov (United States)

    Burley, Stephen K; Berman, Helen M; Kleywegt, Gerard J; Markley, John L; Nakamura, Haruki; Velankar, Sameer

    2017-01-01

    The Protein Data Bank (PDB)--the single global repository of experimentally determined 3D structures of biological macromolecules and their complexes--was established in 1971, becoming the first open-access digital resource in the biological sciences. The PDB archive currently houses ~130,000 entries (May 2017). It is managed by the Worldwide Protein Data Bank organization (wwPDB; wwpdb.org), which includes the RCSB Protein Data Bank (RCSB PDB; rcsb.org), the Protein Data Bank Japan (PDBj; pdbj.org), the Protein Data Bank in Europe (PDBe; pdbe.org), and BioMagResBank (BMRB; www.bmrb.wisc.edu). The four wwPDB partners operate a unified global software system that enforces community-agreed data standards and supports data Deposition, Biocuration, and Validation of ~11,000 new PDB entries annually (deposit.wwpdb.org). The RCSB PDB currently acts as the archive keeper, ensuring disaster recovery of PDB data and coordinating weekly updates. wwPDB partners disseminate the same archival data from multiple FTP sites, while operating complementary websites that provide their own views of PDB data with selected value-added information and links to related data resources. At present, the PDB archives experimental data, associated metadata, and 3D-atomic level structural models derived from three well-established methods: crystallography, nuclear magnetic resonance spectroscopy (NMR), and electron microscopy (3DEM). wwPDB partners are working closely with experts in related experimental areas (small-angle scattering, chemical cross-linking/mass spectrometry, Forster energy resonance transfer or FRET, etc.) to establish a federation of data resources that will support sustainable archiving and validation of 3D structural models and experimental data derived from integrative or hybrid methods.

  3. PDB: CBRC-GGOR-01-1460 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-GGOR-01-1460 3EHS,3EHT,3EHU, Region:22-118(Identity=85%) PDB:3EHS Chain:A (X-ray Resolution...=2.76),Region:22-118(Identity=85%) PDB:3EHT Chain:A (X-ray Resolution=3.40),Region:22-118(Identity=85%) PDB:3EHU Chain:A (X-ray Resolution=1.96), ...

  4. PDB: CBRC-RNOR-10-0233 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-RNOR-10-0233 3EHS,3EHT,3EHU, Region:26-121(Identity=95%) PDB:3EHS Chain:A (X-ray Resolution...=2.76),Region:26-121(Identity=95%) PDB:3EHT Chain:A (X-ray Resolution=3.40),Region:26-121(Identity=95%) PDB:3EHU Chain:A (X-ray Resolution=1.96), ...

  5. PDB: CBRC-OPRI-01-1523 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-OPRI-01-1523 1OF2,1OGT,3B3I, Region:401-409(Identity=100%) PDB:1OF2 Chain:C (X-ray Resolution...=2.20),Region:401-409(Identity=100%) PDB:1OGT Chain:C (X-ray Resolution=1.47),Region:401-409(Identity=100%) PDB:3B3I Chain:C (X-ray Resolution=1.86), ...

  6. PDB: CBRC-PABE-18-0028 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-PABE-18-0028 3EHS,3EHT,3EHU, Region:36-131(Identity=100%) PDB:3EHS Chain:A (X-ray Resolution...=2.76),Region:36-131(Identity=100%) PDB:3EHT Chain:A (X-ray Resolution=3.40),Region:36-131(Identity=100%) PDB:3EHU Chain:A (X-ray Resolution=1.96), ...

  7. PDB: CBRC-PHAM-01-0319 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-PHAM-01-0319 1OF2,1OGT,3B3I, Region:389-397(Identity=100%) PDB:1OF2 Chain:C (X-ray Resolution...=2.20),Region:389-397(Identity=100%) PDB:1OGT Chain:C (X-ray Resolution=1.47),Region:389-397(Identity=100%) PDB:3B3I Chain:C (X-ray Resolution=1.86), ...

  8. PDB: CBRC-MLUC-01-0880 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MLUC-01-0880 3EHS,3EHT,3EHU, Region:22-117(Identity=91%) PDB:3EHS Chain:A (X-ray Resolution...=2.76),Region:22-117(Identity=91%) PDB:3EHT Chain:A (X-ray Resolution=3.40),Region:22-117(Identity=91%) PDB:3EHU Chain:A (X-ray Resolution=1.96), ...

  9. PDB: CBRC-CFAM-23-0006 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-CFAM-23-0006 1OF2,1OGT,3B3I, Region:402-410(Identity=100%) PDB:1OF2 Chain:C (X-ray Resolution...=2.20),Region:402-410(Identity=100%) PDB:1OGT Chain:C (X-ray Resolution=1.47),Region:402-410(Identity=100%) PDB:3B3I Chain:C (X-ray Resolution=1.86), ...

  10. PDB: CBRC-MMUS-09-0212 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MMUS-09-0212 1OF2,1OGT,3B3I, Region:402-410(Identity=100%) PDB:1OF2 Chain:C (X-ray Resolution...=2.20),Region:402-410(Identity=100%) PDB:1OGT Chain:C (X-ray Resolution=1.47),Region:402-410(Identity=100%) PDB:3B3I Chain:C (X-ray Resolution=1.86), ...

  11. PDB: CBRC-HSAP-05-0044 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-HSAP-05-0044 2R4R,2RH1,3D4S,2R4S, Region:1-365(Identity=99%) PDB:2R4R Chain:A (X-ray Resolution...=3.40),Region:1-365(Identity=99%) PDB:2RH1 Chain:A (X-ray Resolution=2.40),Region:1-365(Ide...ntity=99%) PDB:3D4S Chain:A (X-ray Resolution=2.80),Region:24-365(Identity=99%) PDB:2R4S Chain:A (X-ray Resolution=3.40), ...

  12. PDB: CBRC-PABE-06-0027 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-PABE-06-0027 2R4R,2RH1,3D4S,2R4S, Region:126-492(Identity=98%) PDB:2R4R Chain:A (X-ray Resolution...=3.40),Region:126-492(Identity=98%) PDB:2RH1 Chain:A (X-ray Resolution=2.40),Region:126-4...92(Identity=98%) PDB:3D4S Chain:A (X-ray Resolution=2.80),Region:149-492(Identity=98%) PDB:2R4S Chain:A (X-ray Resolution=3.40), ...

  13. PDB: CBRC-RMAC-06-0031 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-RMAC-06-0031 2R4R,2RH1,3D4S,2R4S, Region:1-367(Identity=98%) PDB:2R4R Chain:A (X-ray Resolution...=3.40),Region:1-367(Identity=98%) PDB:2RH1 Chain:A (X-ray Resolution=2.40),Region:1-367(Ide...ntity=98%) PDB:3D4S Chain:A (X-ray Resolution=2.80),Region:24-367(Identity=97%) PDB:2R4S Chain:A (X-ray Resolution=3.40), ...

  14. PDB: CBRC-PTRO-06-0041 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-PTRO-06-0041 2R4R,2RH1,3D4S,2R4S, Region:85-449(Identity=99%) PDB:2R4R Chain:A (X-ray Resolution...=3.40),Region:85-449(Identity=99%) PDB:2RH1 Chain:A (X-ray Resolution=2.40),Region:85-449(...Identity=99%) PDB:3D4S Chain:A (X-ray Resolution=2.80),Region:108-449(Identity=99%) PDB:2R4S Chain:A (X-ray Resolution=3.40), ...

  15. PDB: CBRC-CJAC-01-1334 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-CJAC-01-1334 2R4R,2RH1,3D4S,2R4S, Region:32-398(Identity=96%) PDB:2R4R Chain:A (X-ray Resolution...=3.40),Region:32-398(Identity=96%) PDB:2RH1 Chain:A (X-ray Resolution=2.40),Region:32-398(...Identity=96%) PDB:3D4S Chain:A (X-ray Resolution=2.80),Region:55-398(Identity=96%) PDB:2R4S Chain:A (X-ray Resolution=3.40), ...

  16. A series of PDB-related databanks for everyday needs

    NARCIS (Netherlands)

    Touw, W.G.; Baakman, C.A.B.; Black, J.; Beek, T.A. van; Krieger, E.; Joosten, R.P.; Vriend, G.

    2015-01-01

    We present a series of databanks (http://swift.cmbi.ru.nl/gv/facilities/) that hold information that is computationally derived from Protein Data Bank (PDB) entries and that might augment macromolecular structure studies. These derived databanks run parallel to the PDB, i.e. they have one entry per

  17. PDB: CBRC-CFAM-19-0007 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-CFAM-19-0007 2K03,2K04,2K05,3ODU,3OE0,3OE6,3OE8,3OE9, Region:1-39(Identity=81%...) PDB:2K03 Chain:B (NMR),Region:1-39(Identity=81%) PDB:2K04 Chain:B (NMR),Region:1-39(Identity=81%) PDB:2K05... Chain:B (NMR),Region:2-320(Identity=95%) PDB:3ODU Chain:A (X-ray Resolution=2.5),Region:2-320(Identity=95%)... PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:2-326(Identity=95%) PDB:3OE6 Chai...n:A (X-ray Resolution=3.2),Region:2-320(Identity=95%) PDB:3OE8 Chain:A (X-ray Resolution=3.1),Region:2-320(Identity=95%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  18. PDB: CBRC-VPAC-01-0675 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-VPAC-01-0675 3ODU,3OE0,3OE6,3OE8,3OE9, Region:8-326(Identity=91%) PDB:3ODU Chain:A (X-ray Resolution...=2.5),Region:8-326(Identity=91%) PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:8-332(...Identity=91%) PDB:3OE6 Chain:A (X-ray Resolution=3.2),Region:8-326(Identity=91%) PDB:3OE8 Chain:A (X-ray Resolution...=3.1),Region:8-326(Identity=91%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  19. PDB: CBRC-CFAM-14-0054 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-CFAM-14-0054 2E4U,2E4V,2E4W,2E4X,2E4Y, Region:25-571(Identity=89%) PDB:2E4U Chain:A (X-ray Resolution...=2.35),Region:25-571(Identity=89%) PDB:2E4V Chain:A (X-ray Resolution=2.40),Region:25...-571(Identity=89%) PDB:2E4W Chain:A (X-ray Resolution=2.40),Region:25-571(Identity=89%) PDB:2E4X Chain:A (X-ray Resolution...=2.75),Region:25-571(Identity=89%) PDB:2E4Y Chain:A (X-ray Resolution=3.40), ...

  20. PDB: CBRC-TSYR-01-1259 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-TSYR-01-1259 3ODU,3OE0,3OE6,3OE8,3OE9, Region:1-300(Identity=88%) PDB:3ODU Chain:A (X-ray Resolution...=2.5),Region:1-300(Identity=88%) PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:1-306(...Identity=88%) PDB:3OE6 Chain:A (X-ray Resolution=3.2),Region:1-300(Identity=88%) PDB:3OE8 Chain:A (X-ray Resolution...=3.1),Region:1-300(Identity=88%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  1. PDB: CBRC-MEUG-01-2373 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MEUG-01-2373 1EWK,1EWT,1EWV,1ISR,1ISS, Region:33-522(Identity=90%) PDB:1EWK Chain:A (X-ray Resolution...=2.20),Region:33-522(Identity=90%) PDB:1EWT Chain:A (X-ray Resolution=3.70),Region:33...-522(Identity=90%) PDB:1EWV Chain:A (X-ray Resolution=4.00),Region:33-522(Identity=90%) PDB:1ISR Chain:A (X-ray Resolution...=4.00),Region:33-522(Identity=90%) PDB:1ISS Chain:A (X-ray Resolution=3.30), ...

  2. PDB: CBRC-CJAC-01-1379 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-CJAC-01-1379 3ODU,3OE0,3OE6,3OE8,3OE9, Region:8-323(Identity=97%) PDB:3ODU Chain:A (X-ray Resolution...=2.5),Region:8-323(Identity=97%) PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:8-329(...Identity=97%) PDB:3OE6 Chain:A (X-ray Resolution=3.2),Region:8-323(Identity=97%) PDB:3OE8 Chain:A (X-ray Resolution...=3.1),Region:8-323(Identity=97%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  3. PDB: CBRC-RMAC-03-0043 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-RMAC-03-0043 2E4U,2E4V,2E4W,2E4X,2E4Y, Region:25-575(Identity=96%) PDB:2E4U Chain:A (X-ray Resolution...=2.35),Region:25-575(Identity=96%) PDB:2E4V Chain:A (X-ray Resolution=2.40),Region:25...-575(Identity=96%) PDB:2E4W Chain:A (X-ray Resolution=2.40),Region:25-575(Identity=96%) PDB:2E4X Chain:A (X-ray Resolution...=2.75),Region:25-575(Identity=96%) PDB:2E4Y Chain:A (X-ray Resolution=3.40), ...

  4. PDB: CBRC-MLUC-01-1022 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MLUC-01-1022 2E4U,2E4V,2E4W,2E4X,2E4Y, Region:25-572(Identity=87%) PDB:2E4U Chain:A (X-ray Resolution...=2.35),Region:25-572(Identity=87%) PDB:2E4V Chain:A (X-ray Resolution=2.40),Region:25...-572(Identity=87%) PDB:2E4W Chain:A (X-ray Resolution=2.40),Region:25-572(Identity=87%) PDB:2E4X Chain:A (X-ray Resolution...=2.75),Region:25-572(Identity=87%) PDB:2E4Y Chain:A (X-ray Resolution=3.40), ...

  5. PDB: CBRC-MEUG-01-0424 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MEUG-01-0424 3ODU,3OE0,3OE6,3OE8,3OE9, Region:13-321(Identity=83%) PDB:3ODU Chain:A (X-ray Resolution...=2.5),Region:13-321(Identity=83%) PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:13-3...27(Identity=83%) PDB:3OE6 Chain:A (X-ray Resolution=3.2),Region:13-321(Identity=83%) PDB:3OE8 Chain:A (X-ray Resolution...=3.1),Region:13-321(Identity=83%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  6. PDB: CBRC-TGUT-05-0017 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-TGUT-05-0017 1EWK,1EWT,1EWV,1ISR,1ISS, Region:33-520(Identity=81%) PDB:1EWK Chain:A (X-ray Resolution...=2.20),Region:33-520(Identity=81%) PDB:1EWT Chain:A (X-ray Resolution=3.70),Region:33...-520(Identity=81%) PDB:1EWV Chain:A (X-ray Resolution=4.00),Region:33-520(Identity=81%) PDB:1ISR Chain:A (X-ray Resolution...=4.00),Region:33-520(Identity=81%) PDB:1ISS Chain:A (X-ray Resolution=3.30), ...

  7. PDB: CBRC-PABE-03-0008 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-PABE-03-0008 3ODU,3OE0,3OE6,3OE8,3OE9, Region:8-324(Identity=99%) PDB:3ODU Chain:A (X-ray Resolution...=2.5),Region:8-324(Identity=99%) PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:8-330(...Identity=99%) PDB:3OE6 Chain:A (X-ray Resolution=3.2),Region:8-324(Identity=99%) PDB:3OE8 Chain:A (X-ray Resolution...=3.1),Region:8-324(Identity=99%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  8. PDB: CBRC-PCAP-01-1190 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-PCAP-01-1190 2E4U,2E4V,2E4W,2E4X,2E4Y, Region:1-485(Identity=92%) PDB:2E4U Chain:A (X-ray Resolution...=2.35),Region:1-485(Identity=92%) PDB:2E4V Chain:A (X-ray Resolution=2.40),Region:1-48...5(Identity=92%) PDB:2E4W Chain:A (X-ray Resolution=2.40),Region:1-485(Identity=92%) PDB:2E4X Chain:A (X-ray Resolution...=2.75),Region:1-485(Identity=92%) PDB:2E4Y Chain:A (X-ray Resolution=3.40), ...

  9. PDB: CBRC-RNOR-04-0019 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-RNOR-04-0019 2E4U,2E4V,2E4W,2E4X,2E4Y, Region:25-575(Identity=100%) PDB:2E4U Chain:A (X-ray Resolution...=2.35),Region:25-575(Identity=100%) PDB:2E4V Chain:A (X-ray Resolution=2.40),Region:...25-575(Identity=100%) PDB:2E4W Chain:A (X-ray Resolution=2.40),Region:25-575(Identity=100%) PDB:2E4X Chain:A (X-ray Resolution...=2.75),Region:25-575(Identity=100%) PDB:2E4Y Chain:A (X-ray Resolution=3.40), ...

  10. PDB: CBRC-GGOR-01-0300 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-GGOR-01-0300 3ODU,3OE0,3OE6,3OE8,3OE9, Region:8-271(Identity=98%) PDB:3ODU Chain:A (X-ray Resolution...=2.5),Region:8-271(Identity=98%) PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:8-271(...Identity=98%) PDB:3OE6 Chain:A (X-ray Resolution=3.2),Region:8-271(Identity=98%) PDB:3OE8 Chain:A (X-ray Resolution...=3.1),Region:8-271(Identity=98%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  11. PDB: CBRC-MLUC-01-0762 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MLUC-01-0762 3ODU,3OE0,3OE6,3OE8,3OE9, Region:3-319(Identity=93%) PDB:3ODU Chain:A (X-ray Resolution...=2.5),Region:3-319(Identity=93%) PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:3-325(...Identity=93%) PDB:3OE6 Chain:A (X-ray Resolution=3.2),Region:3-319(Identity=93%) PDB:3OE8 Chain:A (X-ray Resolution...=3.1),Region:3-319(Identity=93%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  12. PDB: CBRC-BTAU-01-1639 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-BTAU-01-1639 2E4U,2E4V,2E4W,2E4X,2E4Y, Region:25-575(Identity=95%) PDB:2E4U Chain:A (X-ray Resolution...=2.35),Region:25-575(Identity=95%) PDB:2E4V Chain:A (X-ray Resolution=2.40),Region:25...-575(Identity=95%) PDB:2E4W Chain:A (X-ray Resolution=2.40),Region:25-575(Identity=95%) PDB:2E4X Chain:A (X-ray Resolution...=2.75),Region:25-575(Identity=95%) PDB:2E4Y Chain:A (X-ray Resolution=3.40), ...

  13. PDB: CBRC-TGUT-02-0002 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-TGUT-02-0002 2E4U,2E4V,2E4W,2E4X,2E4Y, Region:25-575(Identity=89%) PDB:2E4U Chain:A (X-ray Resolution...=2.35),Region:25-575(Identity=89%) PDB:2E4V Chain:A (X-ray Resolution=2.40),Region:25...-575(Identity=89%) PDB:2E4W Chain:A (X-ray Resolution=2.40),Region:25-575(Identity=89%) PDB:2E4X Chain:A (X-ray Resolution...=2.75),Region:25-575(Identity=89%) PDB:2E4Y Chain:A (X-ray Resolution=3.40), ...

  14. PDB: CBRC-MMUS-10-0003 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MMUS-10-0003 1EWK,1EWT,1EWV,1ISR,1ISS, Region:33-522(Identity=99%) PDB:1EWK Chain:A (X-ray Resolution...=2.20),Region:33-522(Identity=99%) PDB:1EWT Chain:A (X-ray Resolution=3.70),Region:33...-522(Identity=99%) PDB:1EWV Chain:A (X-ray Resolution=4.00),Region:33-522(Identity=99%) PDB:1ISR Chain:A (X-ray Resolution...=4.00),Region:33-522(Identity=99%) PDB:1ISS Chain:A (X-ray Resolution=3.30), ...

  15. PDB: CBRC-BTAU-01-2808 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-BTAU-01-2808 1EWK,1EWT,1EWV,1ISR,1ISS, Region:33-522(Identity=97%) PDB:1EWK Chain:A (X-ray Resolution...=2.20),Region:33-522(Identity=97%) PDB:1EWT Chain:A (X-ray Resolution=3.70),Region:33...-522(Identity=97%) PDB:1EWV Chain:A (X-ray Resolution=4.00),Region:33-522(Identity=97%) PDB:1ISR Chain:A (X-ray Resolution...=4.00),Region:33-522(Identity=97%) PDB:1ISS Chain:A (X-ray Resolution=3.30), ...

  16. PDB: CBRC-MMUR-01-1389 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MMUR-01-1389 3ODU,3OE0,3OE6,3OE8,3OE9, Region:8-323(Identity=94%) PDB:3ODU Chain:A (X-ray Resolution...=2.5),Region:8-323(Identity=94%) PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:8-329(...Identity=94%) PDB:3OE6 Chain:A (X-ray Resolution=3.2),Region:8-323(Identity=94%) PDB:3OE8 Chain:A (X-ray Resolution...=3.1),Region:8-323(Identity=94%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  17. PDB: CBRC-RNOR-01-0027 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-RNOR-01-0027 1EWK,1EWT,1EWV,1ISR,1ISS, Region:33-522(Identity=100%) PDB:1EWK Chain:A (X-ray Resolution...=2.20),Region:33-522(Identity=100%) PDB:1EWT Chain:A (X-ray Resolution=3.70),Region:...33-522(Identity=100%) PDB:1EWV Chain:A (X-ray Resolution=4.00),Region:33-522(Identity=100%) PDB:1ISR Chain:A (X-ray Resolution...=4.00),Region:33-522(Identity=100%) PDB:1ISS Chain:A (X-ray Resolution=3.30), ...

  18. PDB: CBRC-SARA-01-0838 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-SARA-01-0838 3ODU,3OE0,3OE6,3OE8,3OE9, Region:8-324(Identity=89%) PDB:3ODU Chain:A (X-ray Resolution...=2.5),Region:8-324(Identity=89%) PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:8-330(...Identity=90%) PDB:3OE6 Chain:A (X-ray Resolution=3.2),Region:8-324(Identity=89%) PDB:3OE8 Chain:A (X-ray Resolution...=3.1),Region:8-324(Identity=89%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  19. PDB: CBRC-EEUR-01-1356 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-EEUR-01-1356 3ODU,3OE0,3OE6,3OE8,3OE9, Region:35-347(Identity=90%) PDB:3ODU Chain:A (X-ray Resolution...=2.5),Region:35-347(Identity=90%) PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:35-3...53(Identity=90%) PDB:3OE6 Chain:A (X-ray Resolution=3.2),Region:35-347(Identity=90%) PDB:3OE8 Chain:A (X-ray Resolution...=3.1),Region:35-347(Identity=90%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  20. PDB: CBRC-HSAP-07-0055 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-HSAP-07-0055 2E4U,2E4V,2E4W,2E4X,2E4Y, Region:25-575(Identity=96%) PDB:2E4U Chain:A (X-ray Resolution...=2.35),Region:25-575(Identity=96%) PDB:2E4V Chain:A (X-ray Resolution=2.40),Region:25...-575(Identity=96%) PDB:2E4W Chain:A (X-ray Resolution=2.40),Region:25-575(Identity=96%) PDB:2E4X Chain:A (X-ray Resolution...=2.75),Region:25-575(Identity=96%) PDB:2E4Y Chain:A (X-ray Resolution=3.40), ...

  1. PDB: CBRC-RNOR-13-0058 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-RNOR-13-0058 3ODU,3OE0,3OE6,3OE8,3OE9, Region:10-323(Identity=91%) PDB:3ODU Chain:A (X-ray Resolution...=2.5),Region:10-323(Identity=91%) PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:10-3...29(Identity=91%) PDB:3OE6 Chain:A (X-ray Resolution=3.2),Region:10-323(Identity=91%) PDB:3OE8 Chain:A (X-ray Resolution...=3.1),Region:10-323(Identity=91%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  2. PDB: CBRC-GGAL-07-0011 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-GGAL-07-0011 3ODU,3OE0,3OE6,3OE8,3OE9, Region:9-325(Identity=81%) PDB:3ODU Chain:A (X-ray Resolution...=2.5),Region:9-325(Identity=81%) PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:9-331(...Identity=81%) PDB:3OE6 Chain:A (X-ray Resolution=3.2),Region:9-325(Identity=81%) PDB:3OE8 Chain:A (X-ray Resolution...=3.1),Region:9-325(Identity=81%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  3. PDB: CBRC-PABE-08-0035 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-PABE-08-0035 2E4U,2E4V,2E4W,2E4X,2E4Y, Region:25-575(Identity=96%) PDB:2E4U Chain:A (X-ray Resolution...=2.35),Region:25-575(Identity=96%) PDB:2E4V Chain:A (X-ray Resolution=2.40),Region:25...-575(Identity=96%) PDB:2E4W Chain:A (X-ray Resolution=2.40),Region:25-575(Identity=96%) PDB:2E4X Chain:A (X-ray Resolution...=2.75),Region:25-575(Identity=96%) PDB:2E4Y Chain:A (X-ray Resolution=3.40), ...

  4. PDB: CBRC-RMAC-13-0023 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-RMAC-13-0023 3ODU,3OE0,3OE6,3OE8,3OE9, Region:8-323(Identity=97%) PDB:3ODU Chain:A (X-ray Resolution...=2.5),Region:8-323(Identity=97%) PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:8-329(...Identity=97%) PDB:3OE6 Chain:A (X-ray Resolution=3.2),Region:8-323(Identity=97%) PDB:3OE8 Chain:A (X-ray Resolution...=3.1),Region:8-323(Identity=97%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  5. PDB: CBRC-PTRO-07-0089 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-PTRO-07-0089 1EWK,1EWT,1EWV,1ISR,1ISS, Region:33-522(Identity=98%) PDB:1EWK Chain:A (X-ray Resolution...=2.20),Region:33-522(Identity=98%) PDB:1EWT Chain:A (X-ray Resolution=3.70),Region:33...-522(Identity=98%) PDB:1EWV Chain:A (X-ray Resolution=4.00),Region:33-522(Identity=98%) PDB:1ISR Chain:A (X-ray Resolution...=4.00),Region:33-522(Identity=98%) PDB:1ISS Chain:A (X-ray Resolution=3.30), ...

  6. PDB: CBRC-RMAC-04-0056 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-RMAC-04-0056 1EWK,1EWT,1EWV,1ISR,1ISS, Region:33-522(Identity=98%) PDB:1EWK Chain:A (X-ray Resolution...=2.20),Region:33-522(Identity=98%) PDB:1EWT Chain:A (X-ray Resolution=3.70),Region:33...-522(Identity=98%) PDB:1EWV Chain:A (X-ray Resolution=4.00),Region:33-522(Identity=98%) PDB:1ISR Chain:A (X-ray Resolution...=4.00),Region:33-522(Identity=98%) PDB:1ISS Chain:A (X-ray Resolution=3.30), ...

  7. PDB: CBRC-MEUG-01-2439 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MEUG-01-2439 2E4U,2E4V,2E4W,2E4X,2E4Y, Region:35-585(Identity=94%) PDB:2E4U Chain:A (X-ray Resolution...=2.35),Region:35-585(Identity=94%) PDB:2E4V Chain:A (X-ray Resolution=2.40),Region:35...-585(Identity=94%) PDB:2E4W Chain:A (X-ray Resolution=2.40),Region:35-585(Identity=94%) PDB:2E4X Chain:A (X-ray Resolution...=2.75),Region:35-585(Identity=94%) PDB:2E4Y Chain:A (X-ray Resolution=3.40), ...

  8. PDB: CBRC-OGAR-01-0515 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-OGAR-01-0515 3ODU,3OE0,3OE6,3OE8,3OE9, Region:2-318(Identity=94%) PDB:3ODU Chain:A (X-ray Resolution...=2.5),Region:2-318(Identity=94%) PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:2-324(...Identity=94%) PDB:3OE6 Chain:A (X-ray Resolution=3.2),Region:2-318(Identity=94%) PDB:3OE8 Chain:A (X-ray Resolution...=3.1),Region:2-318(Identity=94%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  9. PDB: CBRC-GGAL-01-0005 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-GGAL-01-0005 2E4U,2E4V,2E4W,2E4X,2E4Y, Region:25-575(Identity=89%) PDB:2E4U Chain:A (X-ray Resolution...=2.35),Region:25-575(Identity=89%) PDB:2E4V Chain:A (X-ray Resolution=2.40),Region:25...-575(Identity=89%) PDB:2E4W Chain:A (X-ray Resolution=2.40),Region:25-575(Identity=89%) PDB:2E4X Chain:A (X-ray Resolution...=2.75),Region:25-575(Identity=89%) PDB:2E4Y Chain:A (X-ray Resolution=3.40), ...

  10. PDB: CBRC-MMUS-05-0006 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MMUS-05-0006 2E4U,2E4V,2E4W,2E4X,2E4Y, Region:25-575(Identity=98%) PDB:2E4U Chain:A (X-ray Resolution...=2.35),Region:25-575(Identity=98%) PDB:2E4V Chain:A (X-ray Resolution=2.40),Region:25...-575(Identity=98%) PDB:2E4W Chain:A (X-ray Resolution=2.40),Region:25-575(Identity=98%) PDB:2E4X Chain:A (X-ray Resolution...=2.75),Region:25-575(Identity=98%) PDB:2E4Y Chain:A (X-ray Resolution=3.40), ...

  11. PDB: CBRC-BTAU-01-2536 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-BTAU-01-2536 3ODU,3OE0,3OE6,3OE8,3OE9, Region:10-324(Identity=92%) PDB:3ODU Chain:A (X-ray Resolution...=2.5),Region:10-324(Identity=92%) PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:10-3...30(Identity=92%) PDB:3OE6 Chain:A (X-ray Resolution=3.2),Region:10-324(Identity=92%) PDB:3OE8 Chain:A (X-ray Resolution...=3.1),Region:10-324(Identity=92%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  12. PDB: CBRC-PVAM-01-1450 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-PVAM-01-1450 3ODU,3OE0,3OE6,3OE8,3OE9, Region:113-429(Identity=92%) PDB:3ODU Chain:A (X-ray Resolution...=2.5),Region:113-429(Identity=92%) PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:11...3-435(Identity=92%) PDB:3OE6 Chain:A (X-ray Resolution=3.2),Region:113-429(Identity=92%) PDB:3OE8 Chain:A (X-ray Resolution...=3.1),Region:113-429(Identity=92%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  13. PDB: CBRC-LAFR-01-1328 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-LAFR-01-1328 3ODU,3OE0,3OE6,3OE8,3OE9, Region:2-311(Identity=93%) PDB:3ODU Chain:A (X-ray Resolution...=2.5),Region:2-311(Identity=93%) PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:2-317(...Identity=93%) PDB:3OE6 Chain:A (X-ray Resolution=3.2),Region:2-311(Identity=93%) PDB:3OE8 Chain:A (X-ray Resolution...=3.1),Region:2-311(Identity=93%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  14. PDB: CBRC-HSAP-02-0054 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-HSAP-02-0054 3ODU,3OE0,3OE6,3OE8,3OE9, Region:8-323(Identity=99%) PDB:3ODU Chain:A (X-ray Resolution...=2.5),Region:8-323(Identity=99%) PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:8-329(...Identity=99%) PDB:3OE6 Chain:A (X-ray Resolution=3.2),Region:8-323(Identity=99%) PDB:3OE8 Chain:A (X-ray Resolution...=3.1),Region:8-323(Identity=99%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  15. PDB: CBRC-OCUN-01-0879 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-OCUN-01-0879 3ODU,3OE0,3OE6,3OE8,3OE9, Region:13-326(Identity=96%) PDB:3ODU Chain:A (X-ray Resolution...=2.5),Region:13-326(Identity=96%) PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:13-3...32(Identity=96%) PDB:3OE6 Chain:A (X-ray Resolution=3.2),Region:13-326(Identity=96%) PDB:3OE8 Chain:A (X-ray Resolution...=3.1),Region:13-326(Identity=96%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  16. PDB: CBRC-PCAP-01-1210 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-PCAP-01-1210 3ODU,3OE0,3OE6,3OE8,3OE9, Region:8-323(Identity=93%) PDB:3ODU Chain:A (X-ray Resolution...=2.5),Region:8-323(Identity=93%) PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:8-329(...Identity=93%) PDB:3OE6 Chain:A (X-ray Resolution=3.2),Region:8-323(Identity=93%) PDB:3OE8 Chain:A (X-ray Resolution...=3.1),Region:8-323(Identity=93%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  17. PDB: CBRC-HSAP-06-0098 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-HSAP-06-0098 1EWK,1EWT,1EWV,1ISR,1ISS, Region:33-522(Identity=98%) PDB:1EWK Chain:A (X-ray Resolution...=2.20),Region:33-522(Identity=98%) PDB:1EWT Chain:A (X-ray Resolution=3.70),Region:33...-522(Identity=98%) PDB:1EWV Chain:A (X-ray Resolution=4.00),Region:33-522(Identity=98%) PDB:1ISR Chain:A (X-ray Resolution...=4.00),Region:33-522(Identity=98%) PDB:1ISS Chain:A (X-ray Resolution=3.30), ...

  18. PDB: CBRC-OANA-01-1931 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-OANA-01-1931 3ODU,3OE0,3OE6,3OE8,3OE9, Region:37-348(Identity=84%) PDB:3ODU Chain:A (X-ray Resolution...=2.5),Region:37-348(Identity=84%) PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:37-3...54(Identity=84%) PDB:3OE6 Chain:A (X-ray Resolution=3.2),Region:37-348(Identity=84%) PDB:3OE8 Chain:A (X-ray Resolution...=3.1),Region:37-348(Identity=84%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  19. PDB: CBRC-TGUT-10-0011 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-TGUT-10-0011 3ODU,3OE0,3OE6,3OE8,3OE9, Region:13-329(Identity=81%) PDB:3ODU Chain:A (X-ray Resolution...=2.5),Region:13-329(Identity=81%) PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:13-3...35(Identity=82%) PDB:3OE6 Chain:A (X-ray Resolution=3.2),Region:13-329(Identity=81%) PDB:3OE8 Chain:A (X-ray Resolution...=3.1),Region:13-329(Identity=81%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  20. PDB: CBRC-ETEL-01-1471 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-ETEL-01-1471 3ODU,3OE0,3OE6,3OE8,3OE9, Region:52-369(Identity=87%) PDB:3ODU Chain:A (X-ray Resolution...=2.5),Region:52-369(Identity=87%) PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:52-3...75(Identity=87%) PDB:3OE6 Chain:A (X-ray Resolution=3.2),Region:52-369(Identity=87%) PDB:3OE8 Chain:A (X-ray Resolution...=3.1),Region:52-369(Identity=87%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  1. PDB: CBRC-PVAM-01-1471 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-PVAM-01-1471 2E4U,2E4V,2E4W,2E4X,2E4Y, Region:25-575(Identity=96%) PDB:2E4U Chain:A (X-ray Resolution...=2.35),Region:25-575(Identity=96%) PDB:2E4V Chain:A (X-ray Resolution=2.40),Region:25...-575(Identity=96%) PDB:2E4W Chain:A (X-ray Resolution=2.40),Region:25-575(Identity=96%) PDB:2E4X Chain:A (X-ray Resolution...=2.75),Region:25-575(Identity=96%) PDB:2E4Y Chain:A (X-ray Resolution=3.40), ...

  2. PDB: CBRC-PHAM-01-1532 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-PHAM-01-1532 3ODU,3OE0,3OE6,3OE8,3OE9, Region:8-323(Identity=97%) PDB:3ODU Chain:A (X-ray Resolution...=2.5),Region:8-323(Identity=97%) PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:8-329(...Identity=97%) PDB:3OE6 Chain:A (X-ray Resolution=3.2),Region:8-323(Identity=97%) PDB:3OE8 Chain:A (X-ray Resolution...=3.1),Region:8-323(Identity=97%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  3. PDB: CBRC-MMUR-01-1429 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MMUR-01-1429 2E4U,2E4V,2E4W,2E4X,2E4Y, Region:25-575(Identity=96%) PDB:2E4U Chain:A (X-ray Resolution...=2.35),Region:25-575(Identity=96%) PDB:2E4V Chain:A (X-ray Resolution=2.40),Region:25...-575(Identity=96%) PDB:2E4W Chain:A (X-ray Resolution=2.40),Region:25-575(Identity=96%) PDB:2E4X Chain:A (X-ray Resolution...=2.75),Region:25-575(Identity=96%) PDB:2E4Y Chain:A (X-ray Resolution=3.40), ...

  4. PDB: CBRC-PHAM-01-1177 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-PHAM-01-1177 2E4U,2E4V,2E4W,2E4X,2E4Y, Region:25-575(Identity=96%) PDB:2E4U Chain:A (X-ray Resolution...=2.35),Region:25-575(Identity=96%) PDB:2E4V Chain:A (X-ray Resolution=2.40),Region:25...-575(Identity=96%) PDB:2E4W Chain:A (X-ray Resolution=2.40),Region:25-575(Identity=96%) PDB:2E4X Chain:A (X-ray Resolution...=2.75),Region:25-575(Identity=96%) PDB:2E4Y Chain:A (X-ray Resolution=3.40), ...

  5. PDB: CBRC-MDOM-04-0074 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MDOM-04-0074 3ODU,3OE0,3OE6,3OE8,3OE9, Region:18-334(Identity=82%) PDB:3ODU Chain:A (X-ray Resolution...=2.5),Region:18-334(Identity=82%) PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:18-3...40(Identity=82%) PDB:3OE6 Chain:A (X-ray Resolution=3.2),Region:18-334(Identity=82%) PDB:3OE8 Chain:A (X-ray Resolution...=3.1),Region:18-334(Identity=82%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  6. PDB: CBRC-TTRU-01-0390 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-TTRU-01-0390 3ODU,3OE0,3OE6,3OE8,3OE9, Region:2-320(Identity=93%) PDB:3ODU Chain:A (X-ray Resolution...=2.5),Region:2-320(Identity=93%) PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:2-326(...Identity=93%) PDB:3OE6 Chain:A (X-ray Resolution=3.2),Region:2-320(Identity=93%) PDB:3OE8 Chain:A (X-ray Resolution...=3.1),Region:2-320(Identity=93%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  7. PDB: CBRC-TSYR-01-0036 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-TSYR-01-0036 2E4U,2E4V,2E4W,2E4X,2E4Y, Region:1-551(Identity=97%) PDB:2E4U Chain:A (X-ray Resolution...=2.35),Region:1-551(Identity=97%) PDB:2E4V Chain:A (X-ray Resolution=2.40),Region:1-55...1(Identity=97%) PDB:2E4W Chain:A (X-ray Resolution=2.40),Region:1-551(Identity=97%) PDB:2E4X Chain:A (X-ray Resolution...=2.75),Region:1-551(Identity=97%) PDB:2E4Y Chain:A (X-ray Resolution=3.40), ...

  8. PDB: CBRC-PCAP-01-1145 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-PCAP-01-1145 1EWK,1EWT,1EWV,1ISR,1ISS, Region:33-522(Identity=98%) PDB:1EWK Chain:A (X-ray Resolution...=2.20),Region:33-522(Identity=98%) PDB:1EWT Chain:A (X-ray Resolution=3.70),Region:33...-522(Identity=98%) PDB:1EWV Chain:A (X-ray Resolution=4.00),Region:33-522(Identity=98%) PDB:1ISR Chain:A (X-ray Resolution...=4.00),Region:33-522(Identity=98%) PDB:1ISS Chain:A (X-ray Resolution=3.30), ...

  9. PDB: CBRC-MMUS-01-0060 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MMUS-01-0060 3ODU,3OE0,3OE6,3OE8,3OE9, Region:6-326(Identity=90%) PDB:3ODU Chain:A (X-ray Resolution...=2.5),Region:6-326(Identity=90%) PDB:3OE0 Chain:A (X-ray Resolution=2.9),Region:6-332(...Identity=90%) PDB:3OE6 Chain:A (X-ray Resolution=3.2),Region:6-326(Identity=90%) PDB:3OE8 Chain:A (X-ray Resolution...=3.1),Region:6-326(Identity=90%) PDB:3OE9 Chain:A (X-ray Resolution=3.1), ...

  10. PDB: CBRC-CFAM-01-0008 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-CFAM-01-0008 1EWK,1EWT,1EWV,1ISR,1ISS, Region:33-522(Identity=98%) PDB:1EWK Chain:A (X-ray Resolution...=2.20),Region:33-522(Identity=98%) PDB:1EWT Chain:A (X-ray Resolution=3.70),Region:33...-522(Identity=98%) PDB:1EWV Chain:A (X-ray Resolution=4.00),Region:33-522(Identity=98%) PDB:1ISR Chain:A (X-ray Resolution...=4.00),Region:33-522(Identity=98%) PDB:1ISS Chain:A (X-ray Resolution=3.30), ...

  11. PDB: CBRC-ACAR-01-1082 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-ACAR-01-1082 2E4U,2E4V,2E4W,2E4X,2E4Y, Region:35-585(Identity=87%) PDB:2E4U Chain:A (X-ray Resolution...=2.35),Region:35-585(Identity=87%) PDB:2E4V Chain:A (X-ray Resolution=2.40),Region:35...-585(Identity=87%) PDB:2E4W Chain:A (X-ray Resolution=2.40),Region:35-585(Identity=87%) PDB:2E4X Chain:A (X-ray Resolution...=2.75),Region:35-585(Identity=87%) PDB:2E4Y Chain:A (X-ray Resolution=3.40), ...

  12. PDB: CBRC-MDOM-02-0383 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MDOM-02-0383 1EWK,1EWT,1EWV,1ISR,1ISS, Region:33-522(Identity=96%) PDB:1EWK Chain:A (X-ray Resolution...=2.20),Region:33-522(Identity=96%) PDB:1EWT Chain:A (X-ray Resolution=3.70),Region:33...-522(Identity=96%) PDB:1EWV Chain:A (X-ray Resolution=4.00),Region:33-522(Identity=96%) PDB:1ISR Chain:A (X-ray Resolution...=4.00),Region:33-522(Identity=96%) PDB:1ISS Chain:A (X-ray Resolution=3.30), ...

  13. Coral skeletal {delta}{sup 15}N reveals isotopic traces of an agricultural revolution

    Energy Technology Data Exchange (ETDEWEB)

    Marion, Guy S. [Department of Biological Sciences, Stanford University, Stanford, CA 94305 (United States)]. E-mail: g.marion@uq.edu.au; Dunbar, Robert B. [Department of Geological and Environmental Sciences, Stanford University, Stanford, CA 94305 (United States); Mucciarone, David A. [Department of Geological and Environmental Sciences, Stanford University, Stanford, CA 94305 (United States); Kremer, James N. [Department of Marine Sciences, University of Connecticut at Avery Point, Groton, CT 06340 (United States); Lansing, J. Stephen [Department of Anthropology, University of Arizona, Tucson, AZ 85721 (United States); Arthawiguna, Alit [Installation for Agricultural Research (IP 2TP), Kotak Pos 3480, Denpasar, Bali (Indonesia)

    2005-09-01

    This study introduces a new method of tracing the history of nutrient loading in coastal oceans via {delta}{sup 15}N analysis of organic nitrogen preserved in the skeleton of the massive Porites coral. Four coral cores were collected in Bali, Indonesia, from reefs exposed to high levels of fertilizers in agricultural run-off, from lagoonal corals impacted by sewage, and from a reef located 30 km offshore. Skeletal {delta}{sup 15}N in the agriculturally exposed coral declined from 10.7 {+-} 0.4 per mille in 1970-1971, when synthetic fertilizers (-0.8 per mille {+-} 0.2 per mille ) were introduced to Bali, to a depleted 'anthropogenic' baseline of 3.5 per mille {+-} 0.4% in the mid-1990s. {delta}{sup 15}N values were negatively correlated with rainfall, suggesting that marine {delta}{sup 15}N lowers during flood-born influxes of waste fertilizers. Reef cores exposed to untreated sewage in terrestrial discharge were enriched (7.8 and 7.3 {+-} 0.4 per mille ), while the offshore core reflected background oceanic signals (6.2 {+-} 0.4 per mille). {delta}{sup 15}N, N concentration, and C:N systematics indicate that the N isotopic composition of skeletal organic matter was generally well preserved over 30 years. We suggest that skeletal organic {delta}{sup 15}N can serve as a recorder of past nitrogen sources. In Bali, this tracer suggests that the intensification of Western style agricultural practices since 1970 are contributing to the degradation of coastal coral reefs.

  14. PDB: CBRC-PHAM-01-1599 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available 2HPY,2I35,2I36,2I37,2J4Y,3C9M,1RY1,1EDS,1EDV,1EDW,1FDF,1NZS,1VQX, Region:1-348(Identity=93%) PDB:2PED Chain:...A (X-ray Resolution=2.95),Region:1-348(Identity=93%) PDB:3C9L Chain:A (X-ray Resolution=2.65),Region:1-348(Identity...=93%) PDB:3CAP Chain:A (X-ray Resolution=2.90),Region:1-40(Identity=95%) P...DB:1EDX Chain:A (NMR),Region:1-348(Identity=93%) PDB:1F88 Chain:A (X-ray Resolution=2.80),Region:1-348(Identity...=93%) PDB:3DQB Chain:A (X-ray Resolution=3.20),Region:1-348(Identity=93%) PDB:1GZM Chain:A (X-ray Resolut

  15. PDB: CBRC-RMAC-11-0073 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available 2HPY,2I35,2I36,2I37,2J4Y,3C9M,1RY1,1EDS,1EDV,1EDW,1FDF,1NZS,1VQX, Region:1-348(Identity=93%) PDB:2PED Chain:...A (X-ray Resolution=2.95),Region:1-348(Identity=93%) PDB:3C9L Chain:A (X-ray Resolution=2.65),Region:1-348(Identity...=93%) PDB:3CAP Chain:A (X-ray Resolution=2.90),Region:1-40(Identity=95%) P...DB:1EDX Chain:A (NMR),Region:1-348(Identity=93%) PDB:1F88 Chain:A (X-ray Resolution=2.80),Region:1-348(Identity...=93%) PDB:3DQB Chain:A (X-ray Resolution=3.20),Region:1-348(Identity=93%) PDB:1GZM Chain:A (X-ray Resolut

  16. PDB: CBRC-PVAM-01-0804 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available 2HPY,2I35,2I36,2I37,2J4Y,3C9M,1RY1,1EDS,1EDV,1EDW,1FDF,1NZS,1VQX, Region:1-348(Identity=94%) PDB:2PED Chain:...A (X-ray Resolution=2.95),Region:1-348(Identity=94%) PDB:3C9L Chain:A (X-ray Resolution=2.65),Region:1-348(Identity...=94%) PDB:3CAP Chain:A (X-ray Resolution=2.90),Region:1-40(Identity=97%) P...DB:1EDX Chain:A (NMR),Region:1-348(Identity=94%) PDB:1F88 Chain:A (X-ray Resolution=2.80),Region:1-348(Identity...=94%) PDB:3DQB Chain:A (X-ray Resolution=3.20),Region:1-348(Identity=94%) PDB:1GZM Chain:A (X-ray Resolut

  17. PDB: CBRC-CFAM-20-0004 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available 2HPY,2I35,2I36,2I37,2J4Y,3C9M,1RY1,1EDS,1EDV,1EDW,1FDF,1NZS,1VQX, Region:1-348(Identity=94%) PDB:2PED Chain:...A (X-ray Resolution=2.95),Region:1-348(Identity=94%) PDB:3C9L Chain:A (X-ray Resolution=2.65),Region:1-348(Identity...=94%) PDB:3CAP Chain:A (X-ray Resolution=2.90),Region:1-40(Identity=97%) P...DB:1EDX Chain:A (NMR),Region:1-348(Identity=94%) PDB:1F88 Chain:A (X-ray Resolution=2.80),Region:1-348(Identity...=94%) PDB:3DQB Chain:A (X-ray Resolution=3.20),Region:1-348(Identity=94%) PDB:1GZM Chain:A (X-ray Resolut

  18. PDB: CBRC-MDOM-06-0154 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available 2HPY,2I35,2I36,2I37,2J4Y,3C9M,1RY1,1EDS,1EDV,1EDW,1FDF,1NZS,1VQX, Region:1-348(Identity=93%) PDB:2PED Chain:...A (X-ray Resolution=2.95),Region:1-348(Identity=93%) PDB:3C9L Chain:A (X-ray Resolution=2.65),Region:1-348(Identity...=93%) PDB:3CAP Chain:A (X-ray Resolution=2.90),Region:1-40(Identity=90%) P...DB:1EDX Chain:A (NMR),Region:1-348(Identity=93%) PDB:1F88 Chain:A (X-ray Resolution=2.80),Region:1-348(Identity...=93%) PDB:3DQB Chain:A (X-ray Resolution=3.20),Region:1-348(Identity=93%) PDB:1GZM Chain:A (X-ray Resolut

  19. PDB: CBRC-RNOR-04-0298 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available 2HPY,2I35,2I36,2I37,2J4Y,3C9M,1RY1,1EDS,1EDV,1EDW,1FDF,1NZS,1VQX, Region:1-348(Identity=93%) PDB:2PED Chain:...A (X-ray Resolution=2.95),Region:1-348(Identity=93%) PDB:3C9L Chain:A (X-ray Resolution=2.65),Region:1-348(Identity...=93%) PDB:3CAP Chain:A (X-ray Resolution=2.90),Region:1-40(Identity=95%) P...DB:1EDX Chain:A (NMR),Region:1-348(Identity=93%) PDB:1F88 Chain:A (X-ray Resolution=2.80),Region:1-348(Identity...=93%) PDB:3DQB Chain:A (X-ray Resolution=3.20),Region:1-348(Identity=93%) PDB:1GZM Chain:A (X-ray Resolut

  20. PDB: CBRC-PTRO-04-0067 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available 2HPY,2I35,2I36,2I37,2J4Y,3C9M,1RY1,1EDS,1EDV,1EDW,1FDF,1NZS,1VQX, Region:1-348(Identity=93%) PDB:2PED Chain:...A (X-ray Resolution=2.95),Region:1-348(Identity=93%) PDB:3C9L Chain:A (X-ray Resolution=2.65),Region:1-348(Identity...=93%) PDB:3CAP Chain:A (X-ray Resolution=2.90),Region:1-40(Identity=95%) P...DB:1EDX Chain:A (NMR),Region:1-348(Identity=93%) PDB:1F88 Chain:A (X-ray Resolution=2.80),Region:1-348(Identity...=93%) PDB:3DQB Chain:A (X-ray Resolution=3.20),Region:1-348(Identity=93%) PDB:1GZM Chain:A (X-ray Resolut

  1. Spatio-temporal distributions of delta>18O, delta D and salinity in the Arabian Sea: Identifying processes and controls

    Digital Repository Service at National Institute of Oceanography (India)

    Deshpande, R.D.; Muraleedharan, P.M.; Singh, R.L.; Kumar, B.; Rao, M.S.; Dave, M.; Sivakumar, K.U.; Gupta, S.K.

    of these parameters. From the distributions of delta>18O and salinity (S), and the relationships between delta>18O– deltaD and delta>18O–S, the following inferences have been drawn: (1) there is a broad correspondence between...

  2. {delta}{sup 15}N of seagrass leaves for monitoring anthropogenic nutrient increases in coral reef ecosystems

    Energy Technology Data Exchange (ETDEWEB)

    Yamamuro, M.; Kayanne, H.; Yamano, H

    2003-04-01

    In a coral reef environment, a slight increase in dissolved inorganic nitrogen (DIN;{>=}1.0 {mu}M) can alter the ecosystem via macroalgal blooms. We collected seagrass leaves from the tropical and subtropical Pacific Ocean in five countries and examined the interactions between nutrient concentrations (C, N, P), molar ratios of nutrients, and {delta}{sup 15}N to find a possible indicator of the DIN conditions. Within most sites, the concentrations of nutrients and their molar ratios showed large variations owing to species-specific values. On the other hand, almost identical {delta}{sup 15}N values were found in seagrass leaves of several species at each site. The correlations between {delta}{sup 15}N and nutrient concentrations and between {delta}{sup 15}N and molar ratios of nutrients suggested that nutrient availability did not affect the {delta}{sup 15}N value of seagrass leaves by altering the physiological condition of the plants. Increases in {delta}{sup 15}N of seagrass leaves mostly matched increases in DIN concentrations in the bottom water. We suggest that {delta}{sup 15}N in seagrass leaves can be a good tool to monitor time-integrated decrease/increase of DIN concentrations at a site, both in the water column and the interstitial water.

  3. Homogeneity of delta{sup 15}N in needles of Masson pine (Pinus massoniana L.) was altered by air pollution

    Energy Technology Data Exchange (ETDEWEB)

    Kuang Yuanwen, E-mail: kuangyw@scbg.ac.c [Institute of Ecology, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou 510650 (China); Pearl River Delta Research Center of Environmental Pollution and Control, Chinese Academy of Sciences, Guangzhou 510650 (China); Wen Dazhi; Li Jiong [Institute of Ecology, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou 510650 (China); Pearl River Delta Research Center of Environmental Pollution and Control, Chinese Academy of Sciences, Guangzhou 510650 (China); Sun Fangfang; Hou Enqing [Institute of Ecology, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou 510650 (China); Graduate University of the Chinese Academy of Sciences, Beijing 100049 (China); Zhou Guoyi; Zhang Deqiang [Institute of Ecology, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou 510650 (China); Huang Longbin [Centre for Mined Land Rehabilitation, Sustainable Minerals Institute, the University of Queensland, QLD 4072 (Australia)

    2010-05-15

    The present study investigated the changes of delta{sup 15}N values in the tip, middle and base section (divided by the proportion to needle length) of current- and previous-year needles of Masson pine (Pinus massoniana L.) from two declining forest stands suffering from air pollution, in comparison with one healthy stand. At the healthy stand, delta{sup 15}N in the three sections of both current- and previous-year needles were found evenly distributed, while at the polluted stands, delta{sup 15}N values in the needles were revealed significantly different from the tip to the base sections. The results implied that the distribution of delta{sup 15}N among different parts or sections in foliages was not always homogeneous and could be affected by air pollution. We suggested that the difference of delta{sup 15}N values among pine needle sections should be reconsidered and should not be primarily ignored when the needle delta{sup 15}N values were used to assess plant responses to air pollution. - Values of delta{sup 15}N in needles of Masson pine (Pinus massoniana L.) were uneven and affected by air pollution.

  4. Effects of growth and change of food on the {delta}{sup 15}N in marine fishes

    Energy Technology Data Exchange (ETDEWEB)

    Kasamatsu, Fujio [Marine Ecology Research Inst., Tokyo (Japan); Sato, Rie; Park, Kwang Lai

    1998-06-01

    Information is limited concerning variation of the {delta}{sup 15}N with growth in marine organisms and consequently the effect of growth of marine biota on the {delta}{sup 15}N is not yet well understood. The {delta}{sup 15}N in 26 species of marine fishes taken from Japanese coastal waters together with 4664 stomach contents of these fishes were examined to investigate the effects of food habits and growth on the {delta}{sup 15}N. The mean {delta}{sup 15}N for two species that fed mainly on large-size fishes and six species that fed mainly on small-size fishes were 14.5{+-}1.0per mille and 12.8{+-}0.7per mille, respectively. For five species that fed mainly on decapod crustaceans, two species that fed mainly on zooplankton, and three species that fed mainly on benthos (mainly Polychaeta), the {delta}{sup 15}N were 13.0{+-}0.7, 9.7{+-}0.9, and 12.2{+-}1.2per mille, respectively. The mean {delta}{sup 15}N in the species whose prey were mainly fish or decapod crustaceans was about 3-5per mille higher than the species whose prey was mainly zooplankton. Within the four species that shift their food habits with growth to higher trophic level, the {delta}{sup 15}N significantly increased with growth in one species (Pacific cod), while not significant increase in the {delta}{sup 15}N with growth in the remaining species. (author)

  5. Possibilities of climate reconstruction in the Holocene using {delta}{sup 13}C and {delta}{sup 2}H values from annual tree rings on the basis of climate chamber experiments and studies on present-day organisms; Moeglichkeiten der Klimarekonstruktion im Holozaen mit {delta}{sup 13}C- und {delta}{sup 2}H-Werten von Baum-Jahrringen auf der Basis von Klimakammerversuchen und Rezentstudien

    Energy Technology Data Exchange (ETDEWEB)

    Mayr, C.

    2002-07-01

    This study deals with the climatic information content of {sup 2}H and {sup 13}C levels in annual tree rings and plant material. The influence of variations in air temperature, relative humidity and water availability on stable isotope ratios in three different C{sub 3} plant species (Brassica oleracea, Eucalyptus globulus, Vicia faba) was studied in climate chamber experiments. Furthermore, calibration studies using {delta}{sup 13}C and {delta}{sup 2}H time series from Southern German spruce (Picea abies) from two stands (Schussbach, Klosterreichenbach) were performed. Correlations with meteorological data from a nearby meteorological station prove stable isotope ratios to be dependent on weather conditions in the summer months (June through August). Using the {delta}{sup 13}C ''response surfaces'' obtained from these experiments as well as correlations from long gridbox precipitation series it was shown that for the climate mode under study the {delta}{sup 13}C values largely reflect water availability to trees, which is greatly influenced by summer precipitation, especially at the more arid of the two sites. The results of the climate chamber experiments also suggest that the spruce {delta}{sup 2}H values largely reflect the isotope variation in soil water and hence the {delta}{sup 2}H fluctuations in summer precipitation. The study closes with a discussion of methodological approaches to creating long isotope series from annual tree rings of subfossil oak trees.

  6. Environmental relevance of correlations of {delta}{sup 13}C and climate in tree rings of young pines (Pinus silvestris L.); Umweltrelevanz von {delta}{sup 13}C-Klimakorrelationen an Jahrringen rezenter Kiefern (Pinus silvestris L.)

    Energy Technology Data Exchange (ETDEWEB)

    Hemmann, A.G.

    1993-08-01

    From two groups of trees, 15 damaged ones and 15 healthy ones, tree slices were taken and in these the tree-ring widths, ratios of {delta}{sup 13}C isotopes in cellulose and trace element concentrations were determined. Healthy trees have wider tree-rings over their entire period of life from 1891 to 1986 than the group of trees of damage category 3 (severely damaged). The pattern of tree-ring width development, however, is similar. From eight synchronous {delta}{sup 13}C traces of non-damaged pines a normal chronology was derived. The ontogenesis of some damaged individuals does not correspond to this normal course. In this way the onset of damage can be reconstructed by means of the {delta}{sup 13}C values. A link between the {delta}{sup 13}C values curves and anthropogenously induced changes of atmospheric CO{sub 2} concentration could not be established. The yearly variations of the {delta}{sup 13}C values of the normal chronology are climate-sensitive. The established trace element concentrations of the wood samples are neither in the toxic nor in the deficiency range. Their magnitude is abour equal in all radial sections, independently of the damage category. (UWA) [Deutsch] Aus einem Probenkollektiv von 15 ungeschaedigten und 15 geschaedigten Kiefern wurden an repraesentativen Baumscheiben Jahrringbreiten, {delta}{sup 13}C-Isotopenverhaeltnisse der Zellulose, sowie Spurenelementkonzentrationen bestimmt. Die Jahrringe in der Gruppe der ungeschaedigten Individuen sind ueber den gesamten Lebenszeitraum von 1891 bis 1986 breiter als im Kollektiv der Baeume der Schadstufe 3 (stark geschaedigt). Die Entwicklung der Jahrringbreitenmuster verlaeuft jedoch parallel. Aus 8 synchron verlaufenden {delta}{sup 13}C-Kurven ungeschaeigter Kiefern wurde eine Normalchronologie entwickelt. Die Ontogenese einiger geschaedigter Individuen entspricht nicht diesem Normalgang. Hiermit kann der Beginn der aktuellen Schaedigung ueber die {delta}{sup 13}C-Werte rekonstruiert werden

  7. Stable carbon isotope analysis ({delta}{sup 13}C values) of polybrominated diphenyl ethers and their UV-transformation products

    Energy Technology Data Exchange (ETDEWEB)

    Rosenfelder, Natalie; Bendig, Paul [University of Hohenheim, Institute of Food Chemistry (170b), Garbenstr. 28, D-70599 Stuttgart (Germany); Vetter, Walter, E-mail: walter.vetter@uni-hohenheim.de [University of Hohenheim, Institute of Food Chemistry (170b), Garbenstr. 28, D-70599 Stuttgart (Germany)

    2011-10-15

    Polybrominated diphenyl ethers (PBDEs) are frequently detected in food and environmental samples. We used compound specific isotope analysis to determine the {delta}{sup 13}C values of individual PBDEs in two technical mixtures. Within the same technical product (DE-71 or DE-79), BDE congeners were the more depleted in {sup 13}C the higher brominated they were. In contrast, the products of light-induced hydrodebromination of BDE 47 and technical DE-79 were more enriched in {sup 13}C because of more stable bonds between {sup 13}C and bromine. As a result, the {delta}{sup 13}C values of the irradiated solution progressed diametrically compared to those of the technical synthesis. The ratio of the {delta}{sup 13}C values of BDE 47 to BDE 99 and of BDE 99 to BDE 153 are thus suggested as indicators to distinguish native technical products from transformation products. Ratios <1 are typical for native congeners (e.g. in DE-71) while the reversed ratio (>1) is typical of transformation products. - Highlights: > {delta}{sup 13}C values of PBDEs were determined by means of compound specific isotope analysis. > PBDEs in technical mixtures were the more depleted in {sup 13}C the higher they were brominated. > Solutions of individual PBDEs and technical PBDE mixtures were irradiated by UV light. > {delta}{sup 13}C values of irradiated PBDEs and technical PBDEs progressed diametrically. > Ratios of the {delta}{sup 13}C values were used to distinguish native from transformed PBDEs. - Diametrically progressing {delta}{sup 13}C values in technical mixtures and UV-transformation products of DE-79 may be useful for source appointment of PBDEs in environmental samples

  8. Late pleistocene-recent atmospheric [delta][sup 13]C record in C[sub 4] grasses

    Energy Technology Data Exchange (ETDEWEB)

    Toolin, L.J. (Univ. of Arizona, Tucson, AZ (United States). NSF Accelerator Facility for Radioisotope Analysis); Eastoe, C. (University of Arizona, Tucson, AZ (United States). Dept. of Geosciences)

    1993-01-01

    Samples of Setaria species from packrat middens, herbarium specimens and modern plants preserve a record of [delta][sup 13]C of atmospheric CO[sub 2] from 12,600 Bp to the present. No secular trend is detected between 12,600 and 1,800 Bp, when the mean value of [delta][sup 13]C during that period was [minus]6.5 [plus minus] 0.1[per thousand] (the error is the standard deviation of the mean). The value agrees with [delta][sup 13]C averages of pre-industrial CO[sub 2] from polar ice cores, and differs significantly from modern regional ([minus]8.2 [plus minus] 0.1[per thousand]) and global ([minus]7.7[per thousand]) values, which are higher because of fossil fuel burning.

  9. {delta}{sup 13}C in Tibetan juniper trees - climate trends through the past 1600 years; {delta}{sup 13}C in tibetischen Wacholdern - Klimaentwicklung der letzten 1600 Jahre

    Energy Technology Data Exchange (ETDEWEB)

    Zimmermann, B.

    1998-09-01

    A {delta}{sup 13}C{sub Zell}-chronology of juniper tree cellulose from the upper treeline covering the last 1600 years was set up. The tree site is situated close to Qamdo in southeast Tibet at an altitude of 4350 m a.s.l. The southwest slope gets rain during the Indian summer monsoon. Ten trees have been sampled either by coring or by cutting of trunc-sections in pentad sampling interval. Three trees were analysed in two different radial directions. The very positive {delta}{sup 13}C{sub Zell}-data generally varying around -18,75 permille show the typical low fractionation of high mountain plants. Different interpretations are suggested for data before and after 1800 A.D. (orig.) [Deutsch] An Zellulose von Wacholdern der oberen Waldgrenze in Suedost-Tibet wurde eine 1600-jaehrige {delta}{sup 13}C{sub Zell}-Chronologie aufgestellt. Der Standort liegt in 4350 m ue.M. in der Naehe von Qamdo, ist nach Suedwest geneigt und erhaelt Niederschlaege in den Sommermonaten durch den Indischen-Suedwest-Monsun. Zehn Baeume wurden anhand von Kernen und Stammscheiben in Abschnitten von fuenf Jahren beprobt. An drei Baeumen konnten zwei Segmente desselben Baumes untersucht werden. Die im Mittel sehr positiven {delta}{sup 13}C{sub Zell}-Daten um -18,75 permille deuten auf eine fuer Hochgebirgspflanzen typische geringere Fraktionierung hin. Unterschiedliche Interpretationswege werden fuer die Daten vor und nach 1800 verfolgt. (orig.)

  10. Radiative {pi}{sup 0} photoproduction on protons in the {delta}{sup +} (1232) region

    Energy Technology Data Exchange (ETDEWEB)

    Schumann, S.; Beck, R.; Lang, M.; Nikolaev, A.; Unverzagt, M. [Johannes Gutenberg-Univ. Mainz, Inst. fuer Kernphysik, Mainz (Germany); Rheinische Friedrich-Wilhelms-Univ. Bonn, Helmholtz-Inst. fuer Strahlen- und Kernphysik, Bonn (Germany); Boillat, B.; Krusche, B.; Zehr, F. [Univ. Basel, Inst. fuer Physik, Basel (Switzerland); Downie, E.J. [Johannes Gutenberg-Univ. Mainz, Inst. fuer Kernphysik, Mainz (Germany); Univ. of Glasgow, Dept. of Physics and Astronomy, Glasgow (United Kingdom); Aguar-Bartolome, P.; Ahrens, J.; Arends, H.J.; Heid, E.; Jahn, O.; Krambrich, D.; Martinez-Fabregate, M.; Ostrick, M.; Rost, M.; Thomas, A.; Walcher, T. [Johannes Gutenberg-Univ. Mainz, Inst. fuer Kernphysik, Mainz (Germany); Annand, J.R.M.; Codling, R.; Livingston, K.; MacGregor, I.J.D.; McGeorge, J.C.; Owens, R.O.; Rosner, G. [Univ. of Glasgow, Dept. of Physics and Astronomy, Glasgow (United Kingdom); Bekrenev, V. [Petersburg Nuclear Physics Inst., Gatchina (Russian Federation); Braghieri, A.; Pedroni, P.; Rostomyan, T. [INFN Sezione di Pavia, Pavia (Italy); Branford, D.; Glazier, D.I.; Tarbert, C.M.; Watts, D.P. [Univ. of Edinburgh, School of Physics, Edinburgh (United Kingdom); Briscoe, W.J. [George Washington Univ., Center for Nuclear Studies, Washington, D.C. (United States); Brudvik, J.W.; Nefkens, B.M.K.; Prakhov, S.N.; Price, J.W.; Starostin, A. [Univ. of California at Los Angeles, CA (United States); Cherepnya, S.; Fil' kov, L.V.; Kashevarov, V.L. [Lebedev Physical Inst., Moscow (Russian Federation); Drexler, P.; Gregor, R.; Kotulla, M.; Lugert, S.; Metag, V.; Novotny, R. [Justus Liebig-Univ. Giessen, II. Physikalisches Inst., Giessen (Germany); Hornidge, D. [Mount Allison Univ., Sackville, NB (Canada); Kondratiev, R.; Lisin, V.; Polonski, A. [Inst. for Nuclear Research, Moscow (Russian Federation); Korolija, M.; Mekterovic, D.; Supek, I. [Rudjer Boskovic Inst., Zagreb (Croatia); Manley, D.M. [Kent State Univ., Kent, OH (United States)] [and others

    2010-03-15

    The reaction {gamma}p{yields}p{pi}{sup 0}{gamma}{sup '} has been measured with the Crystal Ball/TAPS detectors using the energy-tagged photon beam at the electron accelerator facility MAMI-B. Energy and angular differential cross-sections for the emitted photon {gamma}{sup '} and angular differential cross-sections for the {pi}{sup 0} have been determined with high statistics in the energy range of the {delta}{sup +} (1232)-resonance. Cross-sections and the ratio of the cross-section to the nonradiative process {gamma}p{yields}p{pi} {sup 0} are compared to theoretical reaction models, having the anomalous magnetic moment {kappa} {sub {delta}} as free parameter. As the shape of the experimental distributions is not reproduced in detail by the model calculations, currently no extraction of {kappa}{sub {delta}} is feasible. (orig.)

  11. Multivariate analysis of calcareous nanno fossils and stable isotopic ({delta}{sup 18}O and {delta}{sup 13}C) in the upper Campanian - lower Maastrichtian of the Campos Basin, Brazil; Analise multivariada em nanofosseis calcarios e isotopos estaveis ({delta}{sup 18}O e {delta}{sup 13}C) do Campaniano superior - Maastrichtiano inferior na Bacia de Campos

    Energy Technology Data Exchange (ETDEWEB)

    Oliveira, Luiz Carlos Veiga de [PETROBRAS, Rio de Janeiro, RJ (Brazil). Centro de Pesquisas. Gerencia de Bioestratigrafia e Paleoecologia]. E-mail: lcveiga@petrobras.com.br; Rodrigues, Rene; Lemos, Valesca Brasil

    2005-05-01

    Qualitative analysis in calcareous nanno fossils is a powerful tool for bio stratigraphic uses, principally in identification of bio zones and determination of relative age. But quantitative studies must be applied for pale oceanographic applications and high resolution bio stratigraphy. In order to better understand the relationships between the different species of nanno fossils, new methodologies and non-traditional correlation tools were tested on a 18 m upper Campanian - lower Maastrichtian core from Campos Basin. Multiple regression helped to determine the best counting method. Watznaueria barnesae and Micula decussata dominate the fossil assemblage and have inverse abundances to each other. Both were opportunist species in competition for nutrients. Q mode factorial analysis (57 samples, 19 variables) was applied to the same core and shows that two factors explain 99.2% of the total variance of the micro fossil assemblage. The first factor represents 83.6% and the second factor only 15.6% of the total variance. The former is associated with Watznaueria barnesae, Cribrosphaerella ehrenbergii and Stradneria crenulata, which represent the original population of nano plankton. The latter factor is associated with Micula decussata, which is believed to represent the effect of solution at the sediment water interface. Both factors were used to develop a dissolution-sea level curve for nanno fossils. When combined with oxygen and carbon isotopes, this curve clearly shows that higher dissolution occurred during the late Campanian - early Maastrichtian time when {delta}{sup 18}O, {delta}{sup 13} C and TOC all had lower values. These correlations indicate a strong link between high sea levels, high temperatures and lower amount of continental organic debris. (author)

  12. Reading PDB: perception of molecules from 3D atomic coordinates.

    Science.gov (United States)

    Urbaczek, Sascha; Kolodzik, Adrian; Groth, Inken; Heuser, Stefan; Rarey, Matthias

    2013-01-28

    The analysis of small molecule crystal structures is a common way to gather valuable information for drug development. The necessary structural data is usually provided in specific file formats containing only element identities and three-dimensional atomic coordinates as reliable chemical information. Consequently, the automated perception of molecular structures from atomic coordinates has become a standard task in cheminformatics. The molecules generated by such methods must be both chemically valid and reasonable to provide a reliable basis for subsequent calculations. This can be a difficult task since the provided coordinates may deviate from ideal molecular geometries due to experimental uncertainties or low resolution. Additionally, the quality of the input data often differs significantly thus making it difficult to distinguish between actual structural features and mere geometric distortions. We present a method for the generation of molecular structures from atomic coordinates based on the recently published NAOMI model. By making use of this consistent chemical description, our method is able to generate reliable results even with input data of low quality. Molecules from 363 Protein Data Bank (PDB) entries could be perceived with a success rate of 98%, a result which could not be achieved with previously described methods. The robustness of our approach has been assessed by processing all small molecules from the PDB and comparing them to reference structures. The complete data set can be processed in less than 3 min, thus showing that our approach is suitable for large scale applications.

  13. Determination of the {delta}{sup 13}C (per mille) isotopic rate of the Brazilian beer pilsen type; Determinacao da razao isotopica {delta}{sup 13}C (per mille) de cerveja clara tipo pilsen nacional

    Energy Technology Data Exchange (ETDEWEB)

    Rossete, Alexssandra L.R.M.; Bendassolli, Jose Albertino [Centro de Energia Nuclear na Agricultura (CENA), Piracicaba, SP (Brazil). Lab. de Isotopos Estaveis; Lopes, Fabio [Centro de Energia Nuclear na Agricultura (CENA), Piracicaba, SP (Brazil). Lab. de Ecologia Isotopica; Martinelli, Luiz Antonio [Universidade Estadual de Londrina, PR (Brazil). Dept. de Fisica. Lab. de Fisica Nuclear Aplicada

    2002-07-01

    Beer has been consumed in Brazil since the XIX century. However, at that time, this beverage was imported from England, and the first Brazilian breweries just appeared at the end of the XX century. Basically, beer is made from: malt of barley, Humulus lupulus, water and yeast. In this work, twenty brands of national beer (Pilsen type), and also two different cereals, barley, a C3 metabolism plant, corn, a C4 plant, were analysed to determine their isotope composition {delta}{sup 13} C (per mille) utilizing a mass spectrometer Delta Plus Finigam and Anca S.L. An aliquot of each sample was transferred using a capillary of glass to a tin capsule contends a small amount of sorbitol. The isotope compositions, {delta}{sup 13} C, of barley and corn samples determined were -27.2 and -11.5 per mille, respectively. These results were used to calculate the equation of mixture model. Considering the beer samples, the {delta}{sup 13} C ranged from -18.3 to -23.1 per mille; this result means that the percentage of C3 plant is from 43.3 to 73.9 per mille. In this manner, it is possible to concluded that all beer samples has malted cereals (C4 plant), as far as the low values of C3 plants were presented in these samples as shown through the equation of mixtures model. (author)

  14. Metabolic origin of the {delta}{sup 13}C of respired CO{sub 2} in roots of Phaseolus vulgaris

    Energy Technology Data Exchange (ETDEWEB)

    Bathellier, C.; Tcherkez, G.; Cornic, G.; Ghashghaie, J. [Laboratoire d' Ecologie, Systematique et Evolution - ESE, CNRS-UMR 8079 - IFR 87, Batiment 362, Universite Paris-Sud, 91405-Orsay Cedex (France); Tcherkez, G. [Plateforme Metabolisme-Metabolome, IFR87 La Plante et son Environnement, Institut de Biotechnologie des Plantes, Batiment 630, Universite Paris-Sud, 91405-Orsay Cedex (France); Bligny, R.; Gout, E. [Laboratoire de Physiologie Cellulaire Vegetale CEA-Grenoble 17, rue des Martyrs, 38054 Grenoble Cedex 9 (France)

    2009-07-01

    - Root respiration is a major contributor to soil CO{sub 2} efflux, and thus an important component of ecosystem respiration. But its metabolic origin, in relation to the carbon isotope composition ({delta}{sup 13}C), remains poorly understood. - Here, {sup 13}C analysis was conducted on CO{sub 2} and metabolites under typical conditions or under continuous darkness in French bean (Phaseolus vulgaris) roots. {sup 13}C contents were measured either under natural abundance or following pulse-chase labeling with {sup 13}C-enriched glucose or pyruvate, using isotope ratio mass spectrometer (IRMS) and nuclear magnetic resonance (NMR) techniques. - In contrast to leaves, no relationship was found between the respiratory quotient and the {delta}{sup 13}C of respired CO{sub 2}, which stayed constant at a low value (c. -27.5 per thousand) under continuous darkness. With labeling experiments, it is shown that such a pattern is explained by the {sup 13}C-depleting effect of the pentose phosphate pathway; and the involvement of the Krebs cycle fueled by either the glycolytic input or the lipid/protein recycling. The anaplerotic phosphoenolpyruvate carboxylase (PEPc) activity sustained glutamic acid (Glu) synthesis, with no net effect on respired CO{sub 2}. - These results indicate that the root {delta}{sup 13}C signal does not depend on the availability of root respiratory substrates and it is thus plausible that, unless the {sup 13}C photosynthetic fractionation varies at the leaf level, the root {delta}{sup 13}C signal hardly changes under a range of natural environmental conditions. (authors)

  15. PDB ligand conformational energies calculated quantum-mechanically.

    Science.gov (United States)

    Sitzmann, Markus; Weidlich, Iwona E; Filippov, Igor V; Liao, Chenzhong; Peach, Megan L; Ihlenfeldt, Wolf-Dietrich; Karki, Rajeshri G; Borodina, Yulia V; Cachau, Raul E; Nicklaus, Marc C

    2012-03-26

    We present here a greatly updated version of an earlier study on the conformational energies of protein-ligand complexes in the Protein Data Bank (PDB) [Nicklaus et al. Bioorg. Med. Chem. 1995, 3, 411-428], with the goal of improving on all possible aspects such as number and selection of ligand instances, energy calculations performed, and additional analyses conducted. Starting from about 357,000 ligand instances deposited in the 2008 version of the Ligand Expo database of the experimental 3D coordinates of all small-molecule instances in the PDB, we created a "high-quality" subset of ligand instances by various filtering steps including application of crystallographic quality criteria and structural unambiguousness. Submission of 640 Gaussian 03 jobs yielded a set of about 415 successfully concluded runs. We used a stepwise optimization of internal degrees of freedom at the DFT level of theory with the B3LYP/6-31G(d) basis set and a single-point energy calculation at B3LYP/6-311++G(3df,2p) after each round of (partial) optimization to separate energy changes due to bond length stretches vs bond angle changes vs torsion changes. Even for the most "conservative" choice of all the possible conformational energies-the energy difference between the conformation in which all internal degrees of freedom except torsions have been optimized and the fully optimized conformer-significant energy values were found. The range of 0 to ~25 kcal/mol was populated quite evenly and independently of the crystallographic resolution. A smaller number of "outliers" of yet higher energies were seen only at resolutions above 1.3 Å. The energies showed some correlation with molecular size and flexibility but not with crystallographic quality metrics such as the Cruickshank diffraction-component precision index (DPI) and R(free)-R, or with the ligand instance-specific metrics such as occupancy-weighted B-factor (OWAB), real-space R factor (RSR), and real-space correlation coefficient

  16. Reconstruction of past variations of {delta}{sup 13}C in atmospheric CO{sub 2} from i vertical distribution observed in the firn at Dome Fuji, Antarctica

    Energy Technology Data Exchange (ETDEWEB)

    Sugawara, S. [Miyagi Univ. of Education, Sendai (Japan). Inst. of Earth Science; Kawamura, K.; Aoki, S.; Nakazawa, T. [Tohoku Univ., Sendai (Japan). Center for Atmospheric and Oceanic Studies; Hashida, G. [National Inst. of Polar Research (Japan)

    2003-04-01

    Temporal variations of {delta}{sup 13}C of atmospheric CO{sub 2} in the past have been reconstructed from the {delta}{sup 13}C values of CO{sub 2} observed in firn at Dome Fuji, Antarctica. The effective diffusivities of CO{sub 2} in firn were estimated for Dome Fuji and another Antarctic site, H72. The age distributions of {sup 13}CO{sub 2} in firn were first calculated by using a one-dimensional diffusion model, and then the past values of the atmospheric {delta}{sup 13}C were derived by using an iterative procedure so that the calculated and observed vertical profiles of {delta}{sup 13}C of CO{sub 2} in firn agreed with each other. This reconstruction method was also applied to the CH{sub 4} concentration to confirm its validity. The values of the atmospheric {delta}{sup 13}C thus estimated were in good agreement with those from direct atmospheric measurements at Syowa Station, Antarctica, even for the levelling off of the secular decrease observed in the first half of the 1990s. The statistical uncertainty of the iterative procedure was examined by adding normal pseudo-random numbers to the observed {delta}{sup 13}C values in firn. We also calculated the {delta}{sup 13}C values for firn at H72 using the reconstructed history of the atmospheric {delta}{sup 13}C, and its vertical profile was found to be in close agreement with the observational result.

  17. Reconstruction of past variations of (delta){sup 13}C in atmospheric CO{sub 2} from i vertical distribution observed in the firn at Dome Fuji, Antarctica

    Energy Technology Data Exchange (ETDEWEB)

    Sugawara, S. [Miyagi Univ. of Education, Sendai (Japan). Inst. of Earth Science; Kawamura, K.; Aoki, S.; Nakazawa, T. [Tohoku Univ., Sendai (Japan). Center for Atmospheric and Oceanic Studies; Hashida, G. [National Inst. of Polar Research (Japan)

    2003-04-01

    Temporal variations of (delta){sup 13}C of atmospheric CO{sub 2} in the past have been reconstructed from the (delta){sup 13}C values of CO{sub 2} observed in firn at Dome Fuji, Antarctica. The effective diffusivities of CO{sub 2} in firn were estimated for Dome Fuji and another Antarctic site, H72. The age distributions of {sup 13}CO{sub 2} in firn were first calculated by using a one-dimensional diffusion model, and then the past values of the atmospheric (delta){sup 13}C were derived by using an iterative procedure so that the calculated and observed vertical profiles of (delta){sup 13}C of CO{sub 2} in firn agreed with each other. This reconstruction method was also applied to the CH{sub 4} concentration to confirm its validity. The values of the atmospheric (delta){sup 13}C thus estimated were in good agreement with those from direct atmospheric measurements at Syowa Station, Antarctica, even for the levelling off of the secular decrease observed in the first half of the 1990s. The statistical uncertainty of the iterative procedure was examined by adding normal pseudo-random numbers to the observed (delta){sup 13}C values in firn. We also calculated the (delta){sup 13}C values for firn at H72 using the reconstructed history of the atmospheric (delta){sup 13}C, and its vertical profile was found to be in close agreement with the observational result.

  18. Seasonal mercury concentrations and {delta}{sup 15}N and {delta}{sup 13}C values of benthic macroinvertebrates and sediments from a historically polluted estuary in south central Chile

    Energy Technology Data Exchange (ETDEWEB)

    Diaz-Jaramillo, Mauricio, E-mail: mdiazjaramillo@conicet.gov.ar [Aquatic Systems Research Unit, EULA Chile Environmental Sciences Centre, Universidad de Concepcion (Chile); Munoz, Claudia; Rudolph, Ignacio [Aquatic Systems Research Unit, EULA Chile Environmental Sciences Centre, Universidad de Concepcion (Chile); Servos, Mark [Department of Biology, University of Waterloo, ON (Canada); Barra, Ricardo [Aquatic Systems Research Unit, EULA Chile Environmental Sciences Centre, Universidad de Concepcion (Chile)

    2013-01-01

    The Lenga Estuary is one of the most industrialized sites in south central Chile where the historic operation of chlor-alkali plants resulted in large quantities of mercury (Hg) being deposited into the estuary. This historical contamination may still represent a risk to the biota in the estuary. To investigate this four macroinvertebrates, Neotrypaea uncinata (ghostshrimp), Elminius kingii (barnacle), Hemigrapsus crenulatus (shore crab) and Perinereis gualpensis (ragworm) were collected seasonally from three different sites in the Lenga Estuary and one in a reference estuary (Tubul Estuary), and analyzed for Hg and stable isotopes ({delta}{sup 15}N and {delta}{sup 13}C). Mercury concentrations in Lenga sediments ranged from 0.4 {+-} 0.1 to 13 {+-} 3 mg/kg, while those in Tubul sediments ranged from 0.02 {+-} 0.01 to 0.07 {+-} 0.09 mg/kg. Total Hg concentrations of invertebrates were significantly different between estuaries (p < 0.05), but not by species or season for each estuary (p > 0.05). In contrast, organic Hg concentrations were different by species and season with shore crab muscle tissues exhibiting the greatest percent difference. Site-specific relationships demonstrated that total Hg concentrations in ragworm best reflected the total Hg sediment mercury concentrations. Signatures of {delta}{sup 13}C were correlated to the organic Hg % rather than total Hg. This suggests that organic Hg concentrations in these species were related to the carbon sources. -- Highlights: Black-Right-Pointing-Pointer Hg in sediments and biota from Lenga Estuary were elevated compared to nearby estuary. Black-Right-Pointing-Pointer Invertebrates showed interspecific and seasonal differences in terms of organic Hg %. Black-Right-Pointing-Pointer Total Hg levels in the ragworm best reflect Hg sediment gradient in Lenga Estuary. Black-Right-Pointing-Pointer Interspecific variation in {delta}{sup 13}C signatures indicated different feeding modes. Black

  19. PDB4DNA: Implementation of DNA geometry from the Protein Data Bank (PDB) description for Geant4-DNA Monte-Carlo simulations

    Science.gov (United States)

    Delage, E.; Pham, Q. T.; Karamitros, M.; Payno, H.; Stepan, V.; Incerti, S.; Maigne, L.; Perrot, Y.

    2015-07-01

    This paper describes PDB4DNA, a new Geant4 user application, based on an independent, cross-platform, free and open source C++ library, so-called PDBlib, which enables use of atomic level description of DNA molecule in Geant4 Monte Carlo particle transport simulations. For the evaluation of direct damage induced on the DNA molecule by ionizing particles, the application makes use of an algorithm able to determine the closest atom in the DNA molecule to energy depositions. Both the PDB4DNA application and the PDBlib library are available as free and open source under the Geant4 license.

  20. Analisis Hubungan Ekspor, Impor, PDB dan Utang Luar Negeri Indonesia Periode 1970-2013

    Directory of Open Access Journals (Sweden)

    Dison M.H. Batubara

    2015-11-01

    Full Text Available Tujuan penelitian ini adalah untuk mengetahui ada tidaknya hubungan kausalitas serta kointegrasi di antara ekspor, impor, PDB dan utang luar negeri Indonesia dengan memakai data sekunder time series tahun 1970-2013. Penelitian ini menerapkan metode Vector Autoregression (VAR yang meliputi Granger-Causality test dan Johansen Co-Integration test, yang dilanjutkan dengan estimasi Vector Error Correction Model (VECM dan forecasting melalui analisis Impulse Response Function (IRF dan Forecast Error Variance Decomposition (FEVD. Hasil uji Granger-Causality menunjukkan diantara keempat variabel tidak terdapat kausalitas, namun terdapat lima hubungan satu arah (unidirectional, yang meliputi ekspor ke impor, ekspor ke utang luar negeri, PDB ke impor, impor ke utang luar negeri dan PDB ke utang luar negeri. Johansen Co-Integration test menunjukkan bahwa keempat variabel terkointegrasi. Analisis IRF dan FEVD menunjukkan bahwa variabel yang paling berpengaruh terhadap ekspor, impor dan PDB adalah ekspor, sedangkan variabel yang paling berpengaruh terhadap utang luar negeri adalah impor

  1. Effects of elevated ozone on leaf {delta}{sup 13}C and leaf conductance of plant species grown in semi-natural grassland with or without irrigation

    Energy Technology Data Exchange (ETDEWEB)

    Jaeggi, M. [Agroscope FAL Reckenholz, Swiss Federal Research Station for Agroecology and Agriculture, Air Pollution/Climate Group, CH-8046 Zurich (Switzerland)]. E-mail: maya.jaeggi@psi.ch; Saurer, M. [Paul Scherrer Institut, CH-5232 Villigen PSI (Switzerland); Volk, M. [Agroscope FAL Reckenholz, Swiss Federal Research Station for Agroecology and Agriculture, Air Pollution/Climate Group, CH-8046 Zurich (Switzerland); Fuhrer, J. [Agroscope FAL Reckenholz, Swiss Federal Research Station for Agroecology and Agriculture, Air Pollution/Climate Group, CH-8046 Zurich (Switzerland)

    2005-03-01

    Stable carbon isotope ratios ({delta}{sup 13}C) and leaf conductance (g{sub s}) were measured (2002, 2003) in Holcus lanatus L., Plantago lanceolata L. Ranunculus friesianus (Jord.), and Trifolium pratense L. at two levels of ozone (O{sub 3}) with or without irrigation. In non-irrigated control plots, R. friesianus showed the least negative {delta}{sup 13}C, and the smallest response to the treatments. Irrigation caused more negative {delta}{sup 13}C, especially in H. lanatus. Irrespective of irrigation, O{sub 3} increased {delta}{sup 13}C in relationship to a decrease in g{sub s} in P. lanceolata and T. pratense. The strongest effect of O{sub 3} on {delta}{sup 13}C occurred in the absence of irrigation, suggesting that under field conditions lack of moisture in the top soil does not always lead to protection from O{sub 3} uptake. It is concluded that in species such as T. pratense plants can maintain stomatal O{sub 3} uptake during dry periods when roots can reach deeper soil layers where water is not limiting. - Under natural field conditions, lack of precipitation may not protect semi-natural vegetation from O{sub 3} effects on leaf gas exchange.

  2. Sediment features, macrozoobenthic assemblages and trophic relationships ({delta}{sup 13}C and {delta}{sup 15}N analysis) following a dystrophic event with anoxia and sulphide development in the Santa Giusta lagoon (western Sardinia, Italy)

    Energy Technology Data Exchange (ETDEWEB)

    Magni, P. [CNR-IAMC National Research Council - Institute for Coastal Marine Environment c/o IMC - International Marine Centre, Loc. Sa Mardini, Torregrande, 09072 Oristano (Italy); IMC - International Marine Centre, Loc. Sa Mardini, Torregrande, 09072 Oristano (Italy)], E-mail: paolo.magni@iamc.cnr.it; Rajagopal, S. [Department of Animal Ecology and Ecophysiology, Institute for Water and Wetland Research, Radboud University Nijmegen, Toernooiveld, 6525 ED Nijmegen (Netherlands); Velde, G. van der [Department of Animal Ecology and Ecophysiology, Institute for Water and Wetland Research, Radboud University Nijmegen, Toernooiveld, 6525 ED Nijmegen (Netherlands); National Museum of Natural History Naturalis, P.O. Box 9517, 2300 RA Leiden (Netherlands); Fenzi, G. [IMC - International Marine Centre, Loc. Sa Mardini, Torregrande, 09072 Oristano (Italy); Kassenberg, J. [Department of Animal Ecology and Ecophysiology, Institute for Water and Wetland Research, Radboud University Nijmegen, Toernooiveld, 6525 ED Nijmegen (Netherlands); Vizzini, S.; Mazzola, A. [Dipartimento di Biologia Animale, Universita di Palermo, via Archirafi 18, 90123 Palermo (Italy); Giordani, G. [Dipartimento di Scienze Ambientali, Universita di Parma, Via Usberti 33/A, 43100 Parma (Italy)

    2008-07-01

    Macrozoobenthic assemblages and stable carbon ({delta}{sup 13}C) and nitrogen ({delta}{sup 15}N) isotope values of various primary producers (macroalgae and angiosperms) and consumers (macroinvertebrate filter/suspension feeders, deposit feeders, detritivores/omnivores and carnivores and fishes) were studied in the Santa Giusta lagoon (Sardinia, Italy) before (spring) and after (autumn) a dystrophic event which occurred in the summer of 2004. A few days after the dystrophy, the physico-chemical characteristics of sediments and macrozoobenthic assemblages were also investigated. In the latter occasion, high total organic carbon (3.9%) and organic matter (15.9%) contents of surface sediments went together with peaks in acid-volatile sulphide concentrations. Certain immediate effects were quite extreme, such as the drastic reduction in macrozoobenthos and the massive fish kill in August 2004. Among the macrozoobenthos, there were few individuals of chironomid larvae and Capitella cf. capitata left. However, by October, chironomid larvae were numerous, indicating a lack of predators (e.g. fish) and competitors. In addition, some bivalve species and polychaetes which were absent, or present in small numbers before the event, became relatively numerous. The results are discussed based on a knowledge of the sulphide tolerance of these species. Stable isotope analysis clearly showed that the basal level of the food web for most consumers consisted mainly of macroalgae and sedimentary organic matter, and that the values before and after the dystrophic event were not significantly different from one another. This indicates that the relations among different trophic levels were quickly restored following the dystrophic event.

  3. 22 years cycle in the planktonic {delta}{sup 18} O of a shallow-water Ionian sea area

    Energy Technology Data Exchange (ETDEWEB)

    Cini Castagnoli, G.; Bonino, G.; Taricco, C. [Turin Univ., Turin (Italy). Dipt. di Fisica Generale; Consiglio Nazionale delle Ricerche, Turin (Italy). Ist. di Cosmogeofisica

    2000-08-01

    The {delta}{sup 18} O profile of Globigerinoides ruber was measured in the GT90/3 Ionian sea core between 1205 and 1898 AD. The high temporal resolution of 3.87 years allowed to determine the presence in the time series of an 11 years component with an amplitude of 0.07%, at significance level of 99% (by Monte Carlo singular spectrum analysis, MC-SSA). The paper focuses attention on 22 years periodicity in the time series and shows the Hale solar cycle, obtained by inverting the odd cycles of the sunspot number series. This result shows that the even and odd Schwabe cycles do not have the same influence on this climatic record.

  4. Assessment of atmospheric sulfur with the epilithic moss Haplocladium microphyllum: Evidences from tissue sulfur and delta{sup 34}S analysis

    Energy Technology Data Exchange (ETDEWEB)

    Liu Xueyan, E-mail: liuxueyan@vip.skleg.c [State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, Guanshui Road 46, Guiyang 550002, Guizhou Province (China); Xiao Huayun, E-mail: xiaohuayun@vip.skleg.c [State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, Guanshui Road 46, Guiyang 550002, Guizhou Province (China); Liu Congqiang, E-mail: liucongqiang@vip.skleg.c [State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, Guanshui Road 46, Guiyang 550002, Guizhou Province (China); Xiao Hongwei; Wang Yanli [State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, Guanshui Road 46, Guiyang 550002, Guizhou Province (China); Graduate University of the Chinese Academy of Sciences, Beijing 100049 (China)

    2009-07-15

    The application of geochemical signals in mosses is more and more popular to investigate the deposition of atmospheric pollutants, but it is unclear whether records of atmospheric sulfur in mosses differ between their diverse habitats. This study aimed to investigate the influence of growing condition on tissue sulfur and delta{sup 34}S of Haplocladium microphyllum. Epilithic and terricolous mosses in open fields, mosses under different canopy conditions were considered. We found that tissue sulfur and delta{sup 34}S of mosses under different habitats were not consistent and could not be compared for atmospheric sulfur research with each other even collected at the same site, moss sulfur and delta{sup 34}S records would be distorted by subsoil and upper canopies in different degrees, which possibly mislead the interpretation of atmospheric sulfur level and sources. Consequently, mosses on open rocks can be used reliably to assess atmospheric-derived sulfur in view of their identical sulfur and delta{sup 34}S evidences. - Mosses on open rocky surfaces are reliable bioindicators of atmospheric sulfur deposition.

  5. MetalPDB: a database of metal sites in biological macromolecular structures.

    Science.gov (United States)

    Andreini, Claudia; Cavallaro, Gabriele; Lorenzini, Serena; Rosato, Antonio

    2013-01-01

    We present here MetalPDB (freely accessible at http://metalweb.cerm.unifi.it), a novel resource aimed at conveying the information available on the three-dimensional (3D) structures of metal-binding biological macromolecules in a consistent and effective manner. This is achieved through the systematic and automated representation of metal-binding sites in proteins and nucleic acids by way of Minimal Functional Sites (MFSs). MFSs are 3D templates that describe the local environment around the metal(s) independently of the larger context of the macromolecular structure embedding the site(s), and are the central objects of MetalPDB design. MFSs are grouped into equistructural (broadly defined as sites found in corresponding positions in similar structures) and equivalent sites (equistructural sites that contain the same metals), allowing users to easily analyse similarities and variations in metal-macromolecule interactions, and to link them to functional information. The web interface of MetalPDB allows access to a comprehensive overview of metal-containing biological structures, providing a basis to investigate the basic principles governing the properties of these systems. MetalPDB is updated monthly in an automated manner.

  6. Outcome of the First wwPDB Hybrid/Integrative Methods Task Force Workshop

    NARCIS (Netherlands)

    Sali, Andrej; Berman, Helen M.; Schwede, Torsten; Trewhella, Jill; Kleywegt, Gerard; Burley, Stephen K.; Markley, John; Nakamura, Haruki; Adams, Paul; Bonvin, Alexandre M J J|info:eu-repo/dai/nl/113691238; Chiu, Wah; Peraro, Matteo Dal; Di Maio, Frank; Ferrin, Thomas E.; Grünewald, Kay; Gutmanas, Aleksandras; Henderson, Richard; Hummer, Gerhard; Iwasaki, Kenji; Johnson, Graham; Lawson, Catherine L.; Meiler, Jens; Marti-Renom, Marc A.; Montelione, Gaetano T.; Nilges, Michael; Nussinov, Ruth; Patwardhan, Ardan; Rappsilber, Juri; Read, Randy J.; Saibil, Helen; Schröder, Gunnar F.; Schwieters, Charles D.; Seidel, Claus A M; Svergun, Dmitri; Topf, Maya; Ulrich, Eldon L.; Velankar, Sameer; Westbrook, John D.

    2015-01-01

    Structures of biomolecular systems are increasingly computed by integrative modeling that relies on varied types of experimental data and theoretical information. We describe here the proceedings and conclusions from the first wwPDB Hybrid/Integrative Methods Task Force Workshop held at the European

  7. Web servers and services for electrostatics calculations with APBS and PDB2PQR.

    Science.gov (United States)

    Unni, Samir; Huang, Yong; Hanson, Robert M; Tobias, Malcolm; Krishnan, Sriram; Li, Wilfred W; Nielsen, Jens E; Baker, Nathan A

    2011-05-01

    APBS and PDB2PQR are widely utilized free software packages for biomolecular electrostatics calculations. Using the Opal toolkit, we have developed a Web services framework for these software packages that enables the use of APBS and PDB2PQR by users who do not have local access to the necessary amount of computational capabilities. This not only increases accessibility of the software to a wider range of scientists, educators, and students but also increases the availability of electrostatics calculations on portable computing platforms. Users can access this new functionality in two ways. First, an Opal-enabled version of APBS is provided in current distributions, available freely on the web. Second, we have extended the PDB2PQR web server to provide an interface for the setup, execution, and visualization of electrostatic potentials as calculated by APBS. This web interface also uses the Opal framework which ensures the scalability needed to support the large APBS user community. Both of these resources are available from the APBS/PDB2PQR website: http://www.poissonboltzmann.org/.

  8. Impact of carbohydrate supply on stem growth, wood and respired CO{sub 2} {delta}{sup 13}C : assessment by experimental girdling

    Energy Technology Data Exchange (ETDEWEB)

    Maunoury-Danger, F. [Paris-Sud Univ., Orsay Cedex (France). Laboratoire Ecologie, Systematique et Evolution; Centre National de la Recherche Scientifique, Orsay CEDEX (France); AgroParisTech, Paris (France); Paul Verlaine-Metz Univ., Metz (France). Laboratoire des Interactions Ecotoxicologie Biodiversite Ecosystemes; Fresneau, C.; Eglin, T.; Berveiller, D.; Francois, C.; Damesin, C. [Paris-Sud Univ., Orsay Cedex (France). Laboratoire Ecologie, Systematique et Evolution; Centre National de la Recherche Scientifique, Orsay CEDEX (France); AgroParisTech, Paris (France); Lelarge-Trouverie, C. [Paris-Sud Univ., Orsay Cedex (France). Inst. de Biotechnologie des Plantes, Plateforme Metabolisme-Metabolome

    2010-07-15

    In trees, carbohydrate storage and remobilization may affect the carbon isotope signals of sugars exported from leaves, tree organic matter and respired carbon dioxide (CO{sub 2}). This study characterized the impact of a change in the carbon (C) source used for stem functioning on the {delta}{sup 13} C of stem organic matter and respired CO{sub 2}. Girdling experiments were carried out on 2-year old oaks that consisted in removing the bark and phloem around the stem so that the sap would cease to flow. The stem was therefore forced to use its own C reserves to maintain metabolic activity. Trees were girdled at 3 different periods, notably just after budburst, during stem growth, and just after cessation of stem radial growth. Stem radial growth and respiration rate were measured throughout the year. Other measured variables included {delta}{sup 13} C of respired CO{sub 2} and contents of starch and water-soluble fraction in stems and leaves. The study showed that girdling stopped growth, even early in the growing season, leading to a decrease in stem CO{sub 2} efflux. The study demonstrated that leaf carbohydrate supply versus reserve use could be an important factor controlling stem growth and {delta}{sup 13} C of both ring and stem CO{sub 2} efflux. 69 refs., 3 tabs., 5 figs.

  9. Macroalgal bioindicators (growth, tissue N, {delta}{sup 15}N) detect nutrient enrichment from shrimp farm effluent entering Opunohu Bay, Moorea, French Polynesia

    Energy Technology Data Exchange (ETDEWEB)

    Lin, David T. [Department of Zoology, University of Hawaii at Manoa, 2538 McCarthy Mall, Edmondson 152, Honolulu, HI 96822 (United States)], E-mail: david.t.lin@ucla.edu; Fong, Peggy [Department of Ecology and Evolutionary Biology, University of California, Los Angeles, 621 Young Drive South, Los Angeles, CA 90095 (United States)

    2008-02-15

    Nutrient enrichment from shrimp aquaculture poses an increasing environmental threat due to the industry's projected rapid growth and unsustainable management practices. Traditional methods to monitor impacts emphasize water quality sampling; however, there are many advantages to bioindicators, especially in developing countries. We investigated the usefulness of three bioindicators-growth, tissue nitrogen content and nitrogen stable isotope signature ({delta}{sup 15}N)-in the tropical red macroalga Acanthophora spicifera. Algae were collected, cultured, and deployed in a spatial array around the outflow from a shrimp farm in Moorea, French Polynesia, to detect nitrogenous wastes. All three parameters were highest adjacent to the shrimp farm indicating nutrient enrichment, and {delta}{sup 15}N values confirmed the shrimp farm as the dominant nutrient source (5.63-5.96 per mille ). Isotope ratios proved the most sensitive indicator, as {delta}{sup 15}N signatures were detected at the most distant sites tested, confirming their usefulness in tracing nutrients and mapping the spatial extent of enrichment.

  10. Outcome of the First wwPDB/CCDC/D3R Ligand Validation Workshop.

    Science.gov (United States)

    Adams, Paul D; Aertgeerts, Kathleen; Bauer, Cary; Bell, Jeffrey A; Berman, Helen M; Bhat, Talapady N; Blaney, Jeff M; Bolton, Evan; Bricogne, Gerard; Brown, David; Burley, Stephen K; Case, David A; Clark, Kirk L; Darden, Tom; Emsley, Paul; Feher, Victoria A; Feng, Zukang; Groom, Colin R; Harris, Seth F; Hendle, Jorg; Holder, Thomas; Joachimiak, Andrzej; Kleywegt, Gerard J; Krojer, Tobias; Marcotrigiano, Joseph; Mark, Alan E; Markley, John L; Miller, Matthew; Minor, Wladek; Montelione, Gaetano T; Murshudov, Garib; Nakagawa, Atsushi; Nakamura, Haruki; Nicholls, Anthony; Nicklaus, Marc; Nolte, Robert T; Padyana, Anil K; Peishoff, Catherine E; Pieniazek, Susan; Read, Randy J; Shao, Chenghua; Sheriff, Steven; Smart, Oliver; Soisson, Stephen; Spurlino, John; Stouch, Terry; Svobodova, Radka; Tempel, Wolfram; Terwilliger, Thomas C; Tronrud, Dale; Velankar, Sameer; Ward, Suzanna C; Warren, Gregory L; Westbrook, John D; Williams, Pamela; Yang, Huanwang; Young, Jasmine

    2016-04-05

    Crystallographic studies of ligands bound to biological macromolecules (proteins and nucleic acids) represent an important source of information concerning drug-target interactions, providing atomic level insights into the physical chemistry of complex formation between macromolecules and ligands. Of the more than 115,000 entries extant in the Protein Data Bank (PDB) archive, ∼75% include at least one non-polymeric ligand. Ligand geometrical and stereochemical quality, the suitability of ligand models for in silico drug discovery and design, and the goodness-of-fit of ligand models to electron-density maps vary widely across the archive. We describe the proceedings and conclusions from the first Worldwide PDB/Cambridge Crystallographic Data Center/Drug Design Data Resource (wwPDB/CCDC/D3R) Ligand Validation Workshop held at the Research Collaboratory for Structural Bioinformatics at Rutgers University on July 30-31, 2015. Experts in protein crystallography from academe and industry came together with non-profit and for-profit software providers for crystallography and with experts in computational chemistry and data archiving to discuss and make recommendations on best practices, as framed by a series of questions central to structural studies of macromolecule-ligand complexes. What data concerning bound ligands should be archived in the PDB? How should the ligands be best represented? How should structural models of macromolecule-ligand complexes be validated? What supplementary information should accompany publications of structural studies of biological macromolecules? Consensus recommendations on best practices developed in response to each of these questions are provided, together with some details regarding implementation. Important issues addressed but not resolved at the workshop are also enumerated. Copyright © 2016 Elsevier Ltd. All rights reserved.

  11. {delta}{sup 13}C of Tree-Ring Lignin as an Indirect Measure of Climate Change

    Energy Technology Data Exchange (ETDEWEB)

    Robertson, I. [CSIR Environmentek, Quaternary Dating Research Unit (South Africa)], E-mail: i.robertson@swansea.ac.uk; Loader, N. J.; McCarroll, D. [University of Wales Swansea, Department of Geography (United Kingdom); Carter, A. H. C. [University of Cambridge, Godwin Institute for Quaternary Research (United Kingdom); Cheng, L.; Leavitt, S. W. [University of Arizona, Laboratory of Tree-Ring Research (United States)

    2004-06-15

    High-resolution paleoclimatic data are an essential requirement for testing numerical models of climate change and the global carbon cycle. If the long tree-ring chronologies, originally established for the purpose of dendrochronology, are to be fully exploited as an indirect measure of past climatic variability, additional techniques are required to obtain this information. The determination of the {delta}{sup 13}C value of tree-ring cellulose has been used successfully to reconstruct past climates. However, under both aerobic and anaerobic conditions, the polysaccharide components of vascular plants (mainly cellulose and hemicelluloses) are more prone to rapid degradation than lignin. This has serious implications for the use of carbon isotope values of tree-ring cellulose as an indirect measure of past climates. An absolutely dated ring-width chronology was established for oaks (Quercus robur L.) growing at Sandringham Park in eastern England. Carbon isotope values were determined on {alpha}-cellulose and 'Klason' lignin isolated from annual latewood samples over the period AD 1895-1999. The carbon isotope values of earlywood lignin are correlated with the latewood carbon isotope values of the previous year, supporting the theory that some of the carbon utilised in earlywood synthesis is assimilated in the previous year. The high-frequency variance in the carbon isotope indices of latewood lignin and cellulose is highly correlated with combined July and August environmental variables, indicating that they were formed at similar times. There was no evidence of secondary lignification. These results demonstrate that the determination of carbon isotope values of latewood lignin offers the potential to obtain unambiguous proxy climatic data covering several millennia.

  12. A multi-isotope ({delta}D, {delta}{sup 18}O, {sup 87}Sr/{sup 86}Sr, and {delta}{sup 11}B) approach for identifying saltwater intrusion and resolving groundwater evolution along the Western Caprock Escarpment of the Southern High Plains, New Mexico

    Energy Technology Data Exchange (ETDEWEB)

    Langman, Jeff B., E-mail: jblangman@miners.utep.edu [University of Texas at El Paso, Geological Sciences, El Paso, TX 79968-0555 (United States); Ellis, Andre S. [University of Texas at El Paso, Geological Sciences, El Paso, TX 79968-0555 (United States)

    2010-01-15

    Declining water levels in arid and semi-arid regions increase an aquifer's vulnerability to natural and anthropogenic influences. A multi-isotope ({delta}D, {delta}{sup 18}O, {sup 87}Sr/{sup 86}Sr, and {delta}{sup 11}B) approach was used to resolve the geochemical evolution of groundwater in a declining aquifer in a semi-arid region of the southwestern USA as groundwater composition reacts to source-water mixing, cross-formational flow including saltwater intrusion, water-rock interaction, and likely agricultural recharge. Sub-aquifers or local flow systems are present in the Southern High Plains aquifer along the Western Caprock Escarpment in New Mexico, and the study site's local flow system contains a Na-Cl, high dissolved-solids groundwater that flows from the escarpment until it mixes with a high quality regional aquifer or regional flow system. The local flow system contains water that is similar in composition to the underlying, upper Dockum Group aquifer. Saltwater found in the upper Dockum Group aquifer likely originates in the adjacent Pecos River Basin and crosses beneath or possibly through the hydrologic divide of the Western Caprock Escarpment. Strontium concentrations of 0.9-31 mg/L and a {sup 87}Sr/{sup 86}Sr range of 0.70845-0.70906 were sufficient to estimate source-water fractions, mixing patterns, and contributions from chemical weathering through mass balance inverse calculations. Boron concentrations (59-1740 mg/L) and {delta}{sup 11}B values (+6.0-+46.0 per mille) were used to confirm source-water mixing, further evaluate water-rock interaction, and examine the influence of possible agricultural recharge. Alteration of B concentrations and {delta}{sup 11}B values in an area of likely agricultural recharge indicated the loss of B and decrease in {delta}{sup 11}B values likely from plant uptake, adsorption, and weathering contributions in the soil/vadose zone prior to recharge. The effectiveness of {sup 87}Sr/{sup 86}Sr and {delta}{sup

  13. RCSB PDB Mobile: iOS and Android mobile apps to provide data access and visualization to the RCSB Protein Data Bank.

    Science.gov (United States)

    Quinn, Gregory B; Bi, Chunxiao; Christie, Cole H; Pang, Kyle; Prlić, Andreas; Nakane, Takanori; Zardecki, Christine; Voigt, Maria; Berman, Helen M; Bourne, Philip E; Rose, Peter W

    2015-01-01

    The Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) resource provides tools for query, analysis and visualization of the 3D structures in the PDB archive. As the mobile Web is starting to surpass desktop and laptop usage, scientists and educators are beginning to integrate mobile devices into their research and teaching. In response, we have developed the RCSB PDB Mobile app for the iOS and Android mobile platforms to enable fast and convenient access to RCSB PDB data and services. Using the app, users from the general public to expert researchers can quickly search and visualize biomolecules, and add personal annotations via the RCSB PDB's integrated MyPDB service. RCSB PDB Mobile is freely available from the Apple App Store and Google Play (http://www.rcsb.org). © The Author 2014. Published by Oxford University Press.

  14. Atmospheric CO{sub 2} concentrations and {delta}{sup 13}C values across the Antarctic Circumpolar Current between New Zealand and Antarctica

    Energy Technology Data Exchange (ETDEWEB)

    Longinelli, Antonio; Selmo, Enricomaria [Univ. of Parma, (Italy). Dept. of Earth Sciences; Giglio, Federico; Langone, Leonardo; Lenaz, Renzo; Ori, Carlo [Consiglio Nazionale delle Ricerche, Bologna (Italy). Inst. of Marine Sciences, Marine Geology Section

    2007-02-15

    Measurements of atmospheric CO{sub 2} concentrations were repeatedly carried out on the vessel 'Italica' of the Italian National Research Program in Antarctica, during cruises from Italy to Antarctica. Discrete air samples were also collected in 4-L Pyrex flasks during these cruises in order to carry out {delta}{sup 13}C analyses on atmospheric CO{sub 2}. The results acquired between New Zealand and Antarctica are reported here. The mean growth rate of the CO{sub 2} concentration from 1996 to 2003 in this area of the Southern Oceans is of about 1.8 ppmv/yr, in good agreement with NOAA/CMDL measurements. The rates of increase from cruise to cruise are rather variable. From 1996-1997 to 1998-1999 cruise the yearly growth rate is 2.75 ppmv/yr, close to the large growth rates measured in several areas and mainly related to the most severe El Nino event of the last years. The other yearly growth rates are of about 1.3 and 2 ppmv for the periods 1998-1999 to 2001-2002 and 2001-2002 to 2003-2004, respectively. The large difference between these two values is probably related to the uncertainty on the only two 2001-2002 discrete measurements of CO{sub 2} concentration in this area. The measured {delta}{sup 13}C values show two completely different distributions and a large interannual variability. The 1998-1999, 2002-2003, and 2003-2004 results obtained between about 55 deg S and 65 deg S across the Antarctic Polar Front show a marked negativization of up to more than 0.2% when compared to the background values. The results are related to local source regions of CO{sub 2}, as frequently found in the Southern Ocean by several authors; the negative {delta}{sup 13}C values are tentatively related to the possible contribution of different causes. Among them, the southward negative gradient of {delta}{sup 13}C of the dissolved inorganic carbon, the contribution from upwelling deep waters and from subsurface processes between the Northern SubAntarctic Front and the

  15. Atmospheric CO{sub 2} concentrations and (delta){sup 13}C values across the Antarctic Circumpolar Current between New Zealand and Antarctica

    Energy Technology Data Exchange (ETDEWEB)

    Longinelli, Antonio; Selmo, Enricomaria [Univ. of Parma, (Italy). Dept. of Earth Sciences; Giglio, Federico; Langone, Leonardo; Lenaz, Renzo; Ori, Carlo [Consiglio Nazionale delle Ricerche, Bologna (Italy). Inst. of Marine Sciences, Marine Geology Section

    2007-02-15

    Measurements of atmospheric CO{sub 2} concentrations were repeatedly carried out on the vessel 'Italica' of the Italian National Research Program in Antarctica, during cruises from Italy to Antarctica. Discrete air samples were also collected in 4-L Pyrex flasks during these cruises in order to carry out (delta){sup 13}C analyses on atmospheric CO{sub 2}. The results acquired between New Zealand and Antarctica are reported here. The mean growth rate of the CO{sub 2} concentration from 1996 to 2003 in this area of the Southern Oceans is of about 1.8 ppmv/yr, in good agreement with NOAA/CMDL measurements. The rates of increase from cruise to cruise are rather variable. From 1996-1997 to 1998-1999 cruise the yearly growth rate is 2.75 ppmv/yr, close to the large growth rates measured in several areas and mainly related to the most severe El Nino event of the last years. The other yearly growth rates are of about 1.3 and 2 ppmv for the periods 1998-1999 to 2001-2002 and 2001-2002 to 2003-2004, respectively. The large difference between these two values is probably related to the uncertainty on the only two 2001-2002 discrete measurements of CO{sub 2} concentration in this area. The measured (delta){sup 13}C values show two completely different distributions and a large interannual variability. The 1998-1999, 2002-2003, and 2003-2004 results obtained between about 55 deg S and 65 deg S across the Antarctic Polar Front show a marked negativization of up to more than 0.2% when compared to the background values. The results are related to local source regions of CO{sub 2}, as frequently found in the Southern Ocean by several authors; the negative (delta){sup 13}C values are tentatively related to the possible contribution of different causes. Among them, the southward negative gradient of (delta){sup 13}C of the dissolved inorganic carbon, the contribution from upwelling deep waters and from subsurface processes between the Northern SubAntarctic Front and the

  16. PENGARUH INFLASI, SUKU BUNGA, KURS, DAN PERTUMBUHAN PDB TERHADAP INDEKS HARGA SAHAM GABUNGAN

    Directory of Open Access Journals (Sweden)

    Suramaya Suci Kewal

    2012-04-01

    Full Text Available Abstract: The Effect of Inflation, interest rate, exchange rate, and GDP growth Toward Indonesia Composite Index. This research aims to investigate empirically the effect of selected macroeconomic variables, i.e., inflation rate, Bank Indonesia Certificate rate, the exchange rate on IDR, and GDP growth on Indonesia Composite Index at The Indonesia Stock Exchanges (IDX. This paper examines the direct effect of selected macroeconomic variabel on Indonesia Composite Index. The paper employs a regression model analysis. The result indicates that only the exchange rate on IDR significantly effects to Indonesia Composite Index. The inflation rate, Bank Certificate rate, and GDP growth do not effect to Indonesia Composite Index. This research only covers four selected macroeconomic variables. Therefore, further research should examine other potential macroeconomic variables.   Keywords: macroeconomic variables, Indonesia Composite Index   Abstrak: Pengaruh Inflasi, Suku Bunga, Kurs, dan Pertumbuhan PDB Terhadap Indeks Harga Saham Gabungan. Penelitian ini bertujuan untuk meneliti secara empiris pengaruh variabel-variabel makroekonomi, yaitu : tingkat inflasi, suku bunga sertifikat Bank Indonesia, kurs, dan tingkat pertumbuhan GDP terhadap IHSG di Bursa Efek Indonesia. Teknik analisis yang digunakan adalah regresi berganda. Hasil penelitian menemukan bahwa hanya kurs yang berpengaruh secara signifikan terhadap IHSG, sedangkan tingkat inflasi, suku bunga SBI dan pertumbuhan PDB tidak berpengaruh terhadap IHSG. Penelitian ini hanya menggunakan empat variabel makroekonomi, sehingga penelitian selanjutnya perlu menemukan variabel makroekonomi lain yang diduga berpengaruh terhadap IHSG.   Kata kunci : variabel makroekonomi, IHSG.

  17. Variability of {sup 10}Be and {delta}{sup 18}O in snow pits from Greenland and a surface traverse from Antarctica

    Energy Technology Data Exchange (ETDEWEB)

    Berggren, A.-M. [Dept. of Earth Sciences, Uppsala University, Villav. 16, 752 36 Uppsala (Sweden); Aldahan, A., E-mail: ala.aldahan@geo.uu.se [Dept. of Earth Sciences, Uppsala University, Villav. 16, 752 36 Uppsala (Sweden); Dept. of Geology, United Arab Emirates University, P.O. Box 17551 Al Ain (United Arab Emirates); Possnert, G. [Tandem Laboratory, Uppsala University, P.O. Box 529, 751 20 Uppsala (Sweden); Hansson, M. [Dept. of Physical Geography and Quaternary Geology, Stockholm University, 106 91 Stockholm (Sweden); Steen-Larsen, H.C. [Centre for Ice and Climate, Niels Bohr Institute, University of Copenhagen, Juliane Maries Vej, 30,2100 Copenhagen (Denmark); Sturevik Storm, A. [Dept. of Earth Sciences, Uppsala University, Villav. 16, 752 36 Uppsala (Sweden); Moerth, C.-M. [Dept. of Geology and Geochemistry, Stockholm University, 106 91 Stockholm (Sweden); Murad, A. [Dept. of Geology, United Arab Emirates University, P.O. Box 17551 Al Ain (United Arab Emirates)

    2013-01-15

    To examine temporal variability of {sup 10}Be in glacial ice, we sampled snow to a depth of 160 cm at the NEEM (North Greenland Eemian Ice Drilling) drilling site in Greenland. The samples span three years between the summers of 2006 and 2009. At the same time, spatial variability of {sup 10}Be in glacial ice was explored through collection of the upper {approx}5 cm of surface snow in Antarctica during part of the Swedish-Japanese traverse from Svea to Syowa station during the austral summer in 2007-2008. The results of the Greenlandic {sup 10}Be snow suggested variable concentrations that apparently do not clearly reflect the seasonal change as indicated by the {delta}{sup 18}O data. The {sup 10}Be concentration variability most likely reflects also effects of aerosol loading and deposition pathways, possibly in combination with post-depositional processes. The Antarctic traverse data expose a negative correlation between {sup 10}Be and {delta}{sup 18}O, while there are weaker but still significant correlations to altitude and distance to the coast (approximated by the distance to the 70th latitude). These relationships indicate that geographical factors, mainly the proximity to the coast, may strongly affect {sup 10}Be concentrations in snow in Queen Maud Land, Antarctica.

  18. Concentrations and {delta}{sup 13}C values of atmospheric CO{sub 2} from oceanic atmosphere through time: polluted and non-polluted areas

    Energy Technology Data Exchange (ETDEWEB)

    Longinelli, Antonio; Selmo, Enrico [Univ. of Parma (Italy). Dept. of Earth Sciences; Lenaz, Renzo; Ori, Carlo [C.N.R., ISMAR, Bologna (Italy). Dept. of Marine Geology

    2005-11-01

    CO{sub 2} is one of the primary agents of global climate changes. The increase of atmospheric CO{sub 2} concentration is essentially related to human-induced emissions and, particularly, to the burning of fossil fuel whose {delta}{sup 13}C values are quite negative. Consequently, an increase of the CO{sub 2} concentration in the atmosphere should be paralleled by a decrease of its {delta}{sup 13}C. Continuous and/or spot measurements of CO{sub 2} concentrations were repeatedly carried out during the last decade and in the same period of the year along hemispheric courses from Italy to Antarctica on a vessel of the Italian National Research Program in Antarctica. During these expeditions, discrete air samples were also collected in 4-l Pyrex flasks in order to carry out precise carbon isotope analyses on atmospheric CO{sub 2} from different areas, including theoretically 'clean' open ocean areas, with the main purpose of comparing these open ocean results with the results obtained by the National Oceanic and Atmospheric Administration/World Meteorological Organization (NOAA/WMO) at land-based stations. According to the data obtained for these two variables, a relatively large atmospheric pollution is apparent in the Mediterranean area where the CO{sub 2} concentration has reached the value of 384 ppmv while quite negative {delta}{sup 13}C values have been measured only occasionally. In this area, southerly winds probably help to reduce the effect of atmospheric pollution even though, despite a large variability of CO{sub 2} concentrations, these values are consistently higher than those measured in open ocean areas by a few ppmv to about 10 ppmv. A marked, though non-continuous, pollution is apparent in the area of the Bab-el-Mandeb strait where {delta}{sup 13}C values considerably more negative than in the Central and Southern Red Sea were measured. The concentration of atmospheric CO{sub 2} over the Central Indian Ocean increased from about 361 ppmv at

  19. Concentrations and (delta){sup 13}C values of atmospheric CO{sub 2} from oceanic atmosphere through time: polluted and non-polluted areas

    Energy Technology Data Exchange (ETDEWEB)

    Longinelli, Antonio; Selmo, Enrico [Univ. of Parma (Italy). Dept. of Earth Sciences; Lenaz, Renzo; Ori, Carlo [C.N.R., ISMAR, Bologna (Italy). Dept. of Marine Geology

    2005-11-15

    CO{sub 2} is one of the primary agents of global climate changes. The increase of atmospheric CO{sub 2} concentration is essentially related to human-induced emissions and, particularly, to the burning of fossil fuel whose (delta){sup 13}C values are quite negative. Consequently, an increase of the CO{sub 2} concentration in the atmosphere should be paralleled by a decrease of its (delta){sup 13}C. Continuous and/or spot measurements of CO{sub 2} concentrations were repeatedly carried out during the last decade and in the same period of the year along hemispheric courses from Italy to Antarctica on a vessel of the Italian National Research Program in Antarctica. During these expeditions, discrete air samples were also collected in 4-l Pyrex flasks in order to carry out precise carbon isotope analyses on atmospheric CO{sub 2} from different areas, including theoretically 'clean' open ocean areas, with the main purpose of comparing these open ocean results with the results obtained by the National Oceanic and Atmospheric Administration/World Meteorological Organization (NOAA/WMO) at land-based stations. According to the data obtained for these two variables, a relatively large atmospheric pollution is apparent in the Mediterranean area where the CO{sub 2} concentration has reached the value of 384 ppmv while quite negative (delta){sup 13}C values have been measured only occasionally. In this area, southerly winds probably help to reduce the effect of atmospheric pollution even though, despite a large variability of CO{sub 2} concentrations, these values are consistently higher than those measured in open ocean areas by a few ppmv to about 10 ppmv. A marked, though non-continuous, pollution is apparent in the area of the Bab-el-Mandeb strait where (delta){sup 13}C values considerably more negative than in the Central and Southern Red Sea were measured. The concentration of atmospheric CO{sub 2} over the Central Indian Ocean increased from about 361 ppmv at

  20. CHARMM-GUI PDB manipulator for advanced modeling and simulations of proteins containing nonstandard residues.

    Science.gov (United States)

    Jo, Sunhwan; Cheng, Xi; Islam, Shahidul M; Huang, Lei; Rui, Huan; Zhu, Allen; Lee, Hui Sun; Qi, Yifei; Han, Wei; Vanommeslaeghe, Kenno; MacKerell, Alexander D; Roux, Benoît; Im, Wonpil

    2014-01-01

    CHARMM-GUI, http://www.charmm-gui.org, is a web-based graphical user interface to prepare molecular simulation systems and input files to facilitate the usage of common and advanced simulation techniques. Since it is originally developed in 2006, CHARMM-GUI has been widely adopted for various purposes and now contains a number of different modules designed to setup a broad range of simulations including free energy calculation and large-scale coarse-grained representation. Here, we describe functionalities that have recently been integrated into CHARMM-GUI PDB Manipulator, such as ligand force field generation, incorporation of methanethiosulfonate spin labels and chemical modifiers, and substitution of amino acids with unnatural amino acids. These new features are expected to be useful in advanced biomolecular modeling and simulation of proteins.

  1. FeatureMap3D - a tool to map protein features and sequence conservation onto homologous structures in the PDB

    DEFF Research Database (Denmark)

    Wernersson, Rasmus; Rapacki, Krzysztof; Stærfeldt, Hans Henrik

    2006-01-01

    FeatureMap3D is a web-based tool that maps protein features onto 3D structures. The user provides sequences annotated with any feature of interest, such as post-translational modifications, protease cleavage sites or exonic structure and FeatureMap3D will then search the Protein Data Bank (PDB...... without sequence annotation, to evaluate the quality of the alignment of the input sequences to the most homologous structures in the PDB, through the sequence conservation colored 3D structure visualization tool. FeatureMap3D is available at: http://www.cbs.dtu.dk/services/FeatureMap3D/....

  2. A guest molecule-host cavity fitting algorithm to mine PDB for small molecule targets.

    Science.gov (United States)

    Byrem, William C; Armstead, Stephen C; Kobayashi, Shunji; Eckenhoff, Roderic G; Eckmann, David M

    2006-08-01

    Inhaled anesthetic molecule occupancy of a protein internal cavity depends in part on the volumes of the guest molecule and the host site. Current algorithms to determine volume and surface area of cavities in proteins whose structures have been determined and cataloged make no allowance for shape or small degrees of shape adjustment to accommodate a guest. We developed an algorithm to determine spheroid dimensions matching cavity volume and surface area and applied it to screen the cavities of 6,658 nonredundant structures stored in the Protein Data Bank (PDB) for potential targets of halothane (2-bromo-2-chloro-1,1,1-trifluoroethane). Our algorithm determined sizes of prolate and oblate spheroids matching dimensions of each cavity found. If those spheroids could accommodate halothane (radius 2.91 A) as a guest, we determined the packing coefficient. 394,766 total cavities were identified. Of 58,681 cavities satisfying the fit criteria for halothane, 11,902 cavities had packing coefficients in the range of 0.46-0.64. This represents 20.3% of cavities large enough to hold halothane, 3.0% of all cavities processed, and found in 2,432 protein structures. Our algorithm incorporates shape dependence to screen guest-host relationships for potential small molecule occupancy of protein cavities. Proteins with large numbers of such cavities are more likely to be functionally altered by halothane.

  3. Simulating dynamics of (delta){sup 13}C of CO{sub 2} in the planetary boundary layer a boreal forest region: covariation between surface fluxes and atmospheric mixing

    Energy Technology Data Exchange (ETDEWEB)

    Chen, Baozhang; Chen, Jing M. [Univ. of Toronto, ON (Canada). Dept. of Geography; Tans, Pieter P. [National Oceanic and Atmospheric Administration, Boulder, CO (United States). Earth System Research Lab.; Huang, Lin [Environment Canada, Toronto, ON (Canada). Atmospheric Science and Technology Directorate

    2006-11-15

    Stable isotopes of CO{sub 2} contain unique information on the biological and physical processes that exchange CO{sub 2} between terrestrial ecosystems and the atmosphere. Ecosystem exchange of carbon isotopes with the atmosphere is correlated diurnally and seasonally with the planetary boundary layer (PBL) dynamics. The strength of this kind of covariation affects the vertical gradient of (delta){sup 13}C and thus the global (delta){sup 13}C distribution pattern. We need to understand the various processes involved in transport/diffusion of carbon isotope ratio in the PBL and between the PBL and the biosphere and the troposphere. In this study, we employ a one-dimensional vertical diffusion/transport atmospheric model (VDS), coupled to an ecosystem isotope model (BEPS-EASS) to simulate dynamics of {sup 13}CO{sub 2} in the PBL over a boreal forest region in the vicinity of the Fraserdale (FRD) tower (49 deg 52 min 29.9 sec N, 81 deg 34 min 12.3 sec W) in northern Ontario, Canada. The data from intensive campaigns during the growing season in 1999 at this site are used for model validation in the surface layer. The model performance, overall, is satisfactory in simulating the measured data over the whole course of the growing season. We examine the interaction of the biosphere and the atmosphere through the PBL with respect to (delta){sup 13}C on diurnal and seasonal scales. The simulated annual mean vertical gradient of (delta){sup 13}C in the PBL in the vicinity of the FRD tower was about 0.025% in 1999. The (delta){sup 13}C vertical gradient exhibited strong diurnal (29%) and seasonal (71%) variations that do not exactly mimic those of CO{sub 2}. Most of the vertical gradient (96.5% {+-}) resulted from covariation between ecosystem exchange of carbon isotopes and the PBL dynamics, while the rest (3.5%{+-}) was contributed by isotopic disequilibrium between respiration and photosynthesis. This disequilibrium effect on (delta){sup 13}C of CO{sub 2} dynamics in PBL

  4. Simulating dynamics of {delta}{sup 13}C of CO{sub 2} in the planetary boundary layer a boreal forest region: covariation between surface fluxes and atmospheric mixing

    Energy Technology Data Exchange (ETDEWEB)

    Chen, Baozhang; Chen, Jing M. [Univ. of Toronto, ON (Canada). Dept. of Geography; Tans, Pieter P. [National Oceanic and Atmospheric Administration, Boulder, CO (United States). Earth System Research Lab.; Huang, Lin [Environment Canada, Toronto, ON (Canada). Atmospheric Science and Technology Directorate

    2006-11-15

    Stable isotopes of CO{sub 2} contain unique information on the biological and physical processes that exchange CO{sub 2} between terrestrial ecosystems and the atmosphere. Ecosystem exchange of carbon isotopes with the atmosphere is correlated diurnally and seasonally with the planetary boundary layer (PBL) dynamics. The strength of this kind of covariation affects the vertical gradient of {delta}{sup 13}C and thus the global {delta}{sup 13}C distribution pattern. We need to understand the various processes involved in transport/diffusion of carbon isotope ratio in the PBL and between the PBL and the biosphere and the troposphere. In this study, we employ a one-dimensional vertical diffusion/transport atmospheric model (VDS), coupled to an ecosystem isotope model (BEPS-EASS) to simulate dynamics of {sup 13}CO{sub 2} in the PBL over a boreal forest region in the vicinity of the Fraserdale (FRD) tower (49 deg 52 min 29.9 sec N, 81 deg 34 min 12.3 sec W) in northern Ontario, Canada. The data from intensive campaigns during the growing season in 1999 at this site are used for model validation in the surface layer. The model performance, overall, is satisfactory in simulating the measured data over the whole course of the growing season. We examine the interaction of the biosphere and the atmosphere through the PBL with respect to {delta}{sup 13}C on diurnal and seasonal scales. The simulated annual mean vertical gradient of {delta}{sup 13}C in the PBL in the vicinity of the FRD tower was about 0.025% in 1999. The {delta}{sup 13}C vertical gradient exhibited strong diurnal (29%) and seasonal (71%) variations that do not exactly mimic those of CO{sub 2}. Most of the vertical gradient (96.5% {+-}) resulted from covariation between ecosystem exchange of carbon isotopes and the PBL dynamics, while the rest (3.5%{+-}) was contributed by isotopic disequilibrium between respiration and photosynthesis. This disequilibrium effect on {delta}{sup 13}C of CO{sub 2} dynamics in PBL

  5. PDB2Graph: A toolbox for identifying critical amino acids map in proteins based on graph theory.

    Science.gov (United States)

    Niknam, Niloofar; Khakzad, Hamed; Arab, Seyed Shahriar; Naderi-Manesh, Hossein

    2016-05-01

    The integrative and cooperative nature of protein structure involves the assessment of topological and global features of constituent parts. Network concept takes complete advantage of both of these properties in the analysis concomitantly. High compatibility to structural concepts or physicochemical properties in addition to exploiting a remarkable simplification in the system has made network an ideal tool to explore biological systems. There are numerous examples in which different protein structural and functional characteristics have been clarified by the network approach. Here, we present an interactive and user-friendly Matlab-based toolbox, PDB2Graph, devoted to protein structure network construction, visualization, and analysis. Moreover, PDB2Graph is an appropriate tool for identifying critical nodes involved in protein structural robustness and function based on centrality indices. It maps critical amino acids in protein networks and can greatly aid structural biologists in selecting proper amino acid candidates for manipulating protein structures in a more reasonable and rational manner. To introduce the capability and efficiency of PDB2Graph in detail, the structural modification of Calmodulin through allosteric binding of Ca(2+) is considered. In addition, a mutational analysis for three well-identified model proteins including Phage T4 lysozyme, Barnase and Ribonuclease HI, was performed to inspect the influence of mutating important central residues on protein activity.

  6. Proteins of Unknown Function in the Protein Data Bank (PDB: An Inventory of True Uncharacterized Proteins and Computational Tools for Their Analysis

    Directory of Open Access Journals (Sweden)

    Nurul Nadzirin

    2012-10-01

    Full Text Available Proteins of uncharacterized functions form a large part of many of the currently available biological databases and this situation exists even in the Protein Data Bank (PDB. Our analysis of recent PDB data revealed that only 42.53% of PDB entries (1084 coordinate files that were categorized under “unknown function” are true examples of proteins of unknown function at this point in time. The remainder 1465 entries also annotated as such appear to be able to have their annotations re-assessed, based on the availability of direct functional characterization experiments for the protein itself, or for homologous sequences or structures thus enabling computational function inference.

  7. JET2 Viewer: a database of predicted multiple, possibly overlapping, protein–protein interaction sites for PDB structures

    Science.gov (United States)

    Ripoche, Hugues; Laine, Elodie; Ceres, Nicoletta; Carbone, Alessandra

    2017-01-01

    The database JET2 Viewer, openly accessible at http://www.jet2viewer.upmc.fr/, reports putative protein binding sites for all three-dimensional (3D) structures available in the Protein Data Bank (PDB). This knowledge base was generated by applying the computational method JET2 at large-scale on more than 20 000 chains. JET2 strategy yields very precise predictions of interacting surfaces and unravels their evolutionary process and complexity. JET2 Viewer provides an online intelligent display, including interactive 3D visualization of the binding sites mapped onto PDB structures and suitable files recording JET2 analyses. Predictions were evaluated on more than 15 000 experimentally characterized protein interfaces. This is, to our knowledge, the largest evaluation of a protein binding site prediction method. The overall performance of JET2 on all interfaces are: Sen = 52.52, PPV = 51.24, Spe = 80.05, Acc = 75.89. The data can be used to foster new strategies for protein–protein interactions modulation and interaction surface redesign. PMID:27899675

  8. NMR structure calculation for all small molecule ligands and non-standard residues from the PDB Chemical Component Dictionary

    Energy Technology Data Exchange (ETDEWEB)

    Yilmaz, Emel Maden; Güntert, Peter, E-mail: guentert@em.uni-frankfurt.de [Goethe University Frankfurt am Main, Center for Biomolecular Magnetic Resonance, Institute of Biophysical Chemistry (Germany)

    2015-09-15

    An algorithm, CYLIB, is presented for converting molecular topology descriptions from the PDB Chemical Component Dictionary into CYANA residue library entries. The CYANA structure calculation algorithm uses torsion angle molecular dynamics for the efficient computation of three-dimensional structures from NMR-derived restraints. For this, the molecules have to be represented in torsion angle space with rotations around covalent single bonds as the only degrees of freedom. The molecule must be given a tree structure of torsion angles connecting rigid units composed of one or several atoms with fixed relative positions. Setting up CYANA residue library entries therefore involves, besides straightforward format conversion, the non-trivial step of defining a suitable tree structure of torsion angles, and to re-order the atoms in a way that is compatible with this tree structure. This can be done manually for small numbers of ligands but the process is time-consuming and error-prone. An automated method is necessary in order to handle the large number of different potential ligand molecules to be studied in drug design projects. Here, we present an algorithm for this purpose, and show that CYANA structure calculations can be performed with almost all small molecule ligands and non-standard amino acid residues in the PDB Chemical Component Dictionary.

  9. Pore-water mobility: Distribution of {delta}{sup 37}Cl, {sup 36}Cl/Cl, {sup 129}I/{sup 127}I and dissolved {sup 4}He concentration in the core drilled in the Mobara gas field, Japan

    Energy Technology Data Exchange (ETDEWEB)

    Mahara, Yasunori, E-mail: mahara@rri.kyoto-u.ac.jp [Reactor Research Institute, Kyoto University, 2-chome, Asashiro-nishi, Kumatori, Osaka 590-0494 (Japan); Ohta, Tomoko [Reactor Research Institute, Kyoto University, 2-chome, Asashiro-nishi, Kumatori, Osaka 590-0494 (Japan); Tokunaga, Tomochika [Dept. Environmental Systems, School of Frontier Sciences, University of Tokyo, Kashiwa-no-ha 5-1-5, Kashiwa, Chiba 277-8563 (Japan); Matsuzaki, Hiroyuki [Dept. Nuclear Engineering and Management, School of Engineering, University of Tokyo, Yayoi 2-11-16, Bunkyou, Tokyo 113-0032 (Japan); Nagao, Keisuke [Laboratory for Earthquake Chemistry, Graduate School of Science, University of Tokyo, Honngo, Bunkyou, Tokyo 113-0033 (Japan); Nakata, Eiji; Miyamoto, Yuki [Central Research Institute of Electric Power Industry, Abiko 1646, Abiko, Chiba 270-1194 (Japan); Kubota, Takumi [Reactor Research Institute, Kyoto University, 2-chome, Asashiro-nishi, Kumatori, Osaka 590-0494 (Japan)

    2013-01-15

    We measured {sup 36}Cl/Cl and {sup 129}I/{sup 127}I isotope ratios, dissolved {sup 4}He concentrations, and {delta}{sup 37}Cl to estimate the residence time and flow characteristics of pore water in rocks of the Kazusa Group in the Mobara gas field, Japan. We deduced a residence time of 0.28-0.85 Ma for the pore water, based on a secular equilibrium value of 7.05 {+-} 1.58 Multiplication-Sign 10{sup -15} for the {sup 36}Cl/Cl ratio in Pleistocene strata of the gas field. Furthermore, the concentration of {sup 4}He corrected by the solubility equilibrium model in the pore water indicated that residence times varied from 0.09 to 0.62 Ma from the depth of 642 to the depth of 1742 m in the core drilled in the gas field. The pore-water dating results have insignificant differences between the ages of the Kazusa Group formations, compared with the iodine ages from {sup 129}I/{sup 127}I ratio. Variations of {delta}{sup 37}Cl in the pore water suggested that mass transport in rocks of the Kazusa Group was dominantly controlled by diffusion.

  10. Organic carbon, nitrogen, sulphur, and {delta}{sup 34}S composition of pyrite and pore waters in the JAPEX/JNOC/GSC et al. Mallik 5L-38 gas hydrate production research well

    Energy Technology Data Exchange (ETDEWEB)

    Chen, Y.F.; Matsumoto, R.; Tomaru, H.; Anton, D. [Tokyo Univ., Tokyo (Japan). Dept. of Earth and Planetary Science

    2005-07-01

    This study examined the geochemical characteristics of the gas-hydrate-bearing sediments and interstitial waters in the JAPEX/JNOC/GSC et al. Mallik 5L-38 research well. Samples taken from 890 m to 1150 m were examined. The {delta}{sup 34}S values of interstitial water sulphates and sedimentary pyrite suggest that high sulphate concentrations in interstitial waters and pyrite formations were influenced by the invasion of seawater and burial diagenesis. Four depositional environmental zones were detected based on organic carbon-nitrogen ratios, organic-carbon to total-carbon ratios, organic-carbon to pyrite-sulphur ratios and {delta}{sup 34}S values. The first zone which occurs at 890 to 930 m, is a fluvial-plain, storm-dominated environment. The second zone occurs at 930 to 1000 m, and is a marsh and shallow-marine deposits from a lower delta-plain environment. The third zone occurs at 1000 to 1070 m, and is an upper delta plain-swamp with minimal marine influence. The fourth zone occurs at 1070 to 1150 m, and is a mixture of freshwater and marine environments of a lower-upper delta-plain setting. These environmental zones are in agreement with facies models determined from lithological features.

  11. Continuous mutual improvement of macromolecular structure models in the PDB and of X-ray crystallographic software: the dual role of deposited experimental data

    Energy Technology Data Exchange (ETDEWEB)

    Terwilliger, Thomas C., E-mail: terwilliger@lanl.gov [Los Alamos National Laboratory, Mail Stop M888, Los Alamos, NM 87507 (United States); Bricogne, Gerard, E-mail: terwilliger@lanl.gov [Global Phasing Ltd, Sheraton House, Castle Park, Cambridge CB3 0AX (United Kingdom); Los Alamos National Laboratory, Mail Stop M888, Los Alamos, NM 87507 (United States)

    2014-10-01

    Macromolecular structures deposited in the PDB can and should be continually reinterpreted and improved on the basis of their accompanying experimental X-ray data, exploiting the steady progress in methods and software that the deposition of such data into the PDB on a massive scale has made possible. Accurate crystal structures of macromolecules are of high importance in the biological and biomedical fields. Models of crystal structures in the Protein Data Bank (PDB) are in general of very high quality as deposited. However, methods for obtaining the best model of a macromolecular structure from a given set of experimental X-ray data continue to progress at a rapid pace, making it possible to improve most PDB entries after their deposition by re-analyzing the original deposited data with more recent software. This possibility represents a very significant departure from the situation that prevailed when the PDB was created, when it was envisioned as a cumulative repository of static contents. A radical paradigm shift for the PDB is therefore proposed, away from the static archive model towards a much more dynamic body of continuously improving results in symbiosis with continuously improving methods and software. These simultaneous improvements in methods and final results are made possible by the current deposition of processed crystallographic data (structure-factor amplitudes) and will be supported further by the deposition of raw data (diffraction images). It is argued that it is both desirable and feasible to carry out small-scale and large-scale efforts to make this paradigm shift a reality. Small-scale efforts would focus on optimizing structures that are of interest to specific investigators. Large-scale efforts would undertake a systematic re-optimization of all of the structures in the PDB, or alternatively the redetermination of groups of structures that are either related to or focused on specific questions. All of the resulting structures should be

  12. High-resolution structure of the M14-type cytosolic carboxypeptidase from Burkholderia cenocepacia refined exploiting PDB-REDO strategies

    Energy Technology Data Exchange (ETDEWEB)

    Rimsa, Vadim; Eadsforth, Thomas C. [University of Dundee, Dundee DD1 5EH, Scotland (United Kingdom); Joosten, Robbie P. [Netherlands Cancer Institute, Plesmanlaan 121, 1066 CX Amsterdam (Netherlands); Hunter, William N., E-mail: w.n.hunter@dundee.ac.uk [University of Dundee, Dundee DD1 5EH, Scotland (United Kingdom)

    2014-02-01

    The structure of a bacterial M14-family carboxypeptidase determined exploiting microfocus synchrotron radiation and highly automated refinement protocols reveals its potential to act as a polyglutamylase. A potential cytosolic metallocarboxypeptidase from Burkholderia cenocepacia has been crystallized and a synchrotron-radiation microfocus beamline allowed the acquisition of diffraction data to 1.9 Å resolution. The asymmetric unit comprises a tetramer containing over 1500 amino acids, and the high-throughput automated protocols embedded in PDB-REDO were coupled with model–map inspections in refinement. This approach has highlighted the value of such protocols for efficient analyses. The subunit is constructed from two domains. The N-terminal domain has previously only been observed in cytosolic carboxypeptidase (CCP) proteins. The C-terminal domain, which carries the Zn{sup 2+}-containing active site, serves to classify this protein as a member of the M14D subfamily of carboxypeptidases. Although eukaryotic CCPs possess deglutamylase activity and are implicated in processing modified tubulin, the function and substrates of the bacterial family members remain unknown. The B. cenocepacia protein did not display deglutamylase activity towards a furylacryloyl glutamate derivative, a potential substrate. Residues previously shown to coordinate the divalent cation and that contribute to peptide-bond cleavage in related enzymes such as bovine carboxypeptidase are conserved. The location of a conserved basic patch in the active site adjacent to the catalytic Zn{sup 2+}, where an acetate ion is identified, suggests recognition of the carboxy-terminus in a similar fashion to other carboxypeptidases. However, there are significant differences that indicate the recognition of substrates with different properties. Of note is the presence of a lysine in the S1′ recognition subsite that suggests specificity towards an acidic substrate.

  13. Ectoine and 5-hydroxyectoine accumulation in the halophile Virgibacillus halodenitrificans PDB-F2 in response to salt stress.

    Science.gov (United States)

    Tao, Ping; Li, Hui; Yu, Yunjiang; Gu, Jidong; Liu, Yongdi

    2016-08-01

    The moderately halophilic bacterium Virgibacillus halodenitrificans PDB-F2 copes with salinity by synthesizing or taking up compatible solutes. The main compatible solutes in this strain were ectoine and hydroxyectoine, as determined by (1)H nuclear magnetic resonance spectroscopy ((1)H-NMR). A high-performance liquid chromatography (HPLC) analysis showed that ectoine was the major solute that was synthesized in response to elevated salinity, while hydroxyectoine was a minor solute. However, the hydroxyectoine/ectoine ratio increased from 0.04 at 3 % NaCl to 0.45 at 15 % NaCl in the late exponential growth phase. A cluster of ectoine biosynthesis genes was identified, including three genes in the order of ectA, ectB, and ectC. The hydroxyectoine biosynthesis gene ectD was not part of the ectABC gene cluster. Reverse transcription-quantitative polymerase chain reactions (RT-qPCR) showed that the expression of the ect genes was salinity dependent. The expression of ectABC reached a maximum at 12 % NaCl, while ectD expression increased up to 15 % NaCl. Ectoine and hydroxyectoine production was growth phase dependent. The hydroxyectoine/ectoine ratio increased from 0.018 in the early exponential phase to 0.11 in the stationary phase at 5 % NaCl. Hydroxyectoine biosynthesis started much later than ectoine biosynthesis after osmotic shock, and the temporal expression of the ect genes differed under these conditions, with the ectABC genes being expressed first, followed by ectD gene. Increased culture salinity triggered ectoine or hydroxyectoine uptake when they were added to the medium. Hydroxyectoine was accumulated preferentially when both ectoine and hydroxyectoine were provided exogenously.

  14. A development of chimeric VEGFR2 TK inhibitor based on two ligand conformers from PDB: 1Y6A complex--medicinal chemistry consequences of a TKs analysis.

    Science.gov (United States)

    Lintnerová, Lucia; García-Caballero, Melissa; Gregáň, Fridrich; Melicherčík, Milan; Quesada, Ana R; Dobiaš, Juraj; Lác, Ján; Sališová, Marta; Boháč, Andrej

    2014-01-24

    VEGFR2 is an important mediator of angiogenesis and influences fate of some cancer stem cells. Here we analysed all 34 structures of VEGFR2 TK available from PDB database. From them a complex PDB: 1Y6A has an exceptional AAZ ligand bound to TK in form of two conformers (U- and S-shaped). This observation inspired us to develop three chimeric bispyridyl VEGFR2 inhibitors by combining structural features of both AAZ conformers and/or their relative ligand AAX (PDB: 1Y6B). Our most interesting inhibitor 22SYM has an enzymatic VEGFR2 TK activity (IC50: 15.1 nM) comparable or better to the active compounds from clinical drugs Nexavar and Sutent. 22SYM inhibits growth, migration and tube formation of endothelial cells (EC) and selectively induces EC apoptosis. 22SYM also inhibits in vivo angiogenesis in Zebrafish embryo assay. Additionally to the above results, we proved here that tyrosine kinases in an inactive form possessing Type I inhibitors can adopt both a closed or an opened conformation of kinase A-loop independently on their DFG-out arrangement. We proposed here that an activity of certain Type I inhibitors (e.g. 22SYM-like) in complex with DFG-out TK can be negatively influenced by collisions with a dynamically moving TK A-loop.

  15. LIBP-Pred: web server for lipid binding proteins using structural network parameters; PDB mining of human cancer biomarkers and drug targets in parasites and bacteria.

    Science.gov (United States)

    González-Díaz, Humberto; Munteanu, Cristian R; Postelnicu, Lucian; Prado-Prado, Francisco; Gestal, Marcos; Pazos, Alejandro

    2012-03-01

    Lipid-Binding Proteins (LIBPs) or Fatty Acid-Binding Proteins (FABPs) play an important role in many diseases such as different types of cancer, kidney injury, atherosclerosis, diabetes, intestinal ischemia and parasitic infections. Thus, the computational methods that can predict LIBPs based on 3D structure parameters became a goal of major importance for drug-target discovery, vaccine design and biomarker selection. In addition, the Protein Data Bank (PDB) contains 3000+ protein 3D structures with unknown function. This list, as well as new experimental outcomes in proteomics research, is a very interesting source to discover relevant proteins, including LIBPs. However, to the best of our knowledge, there are no general models to predict new LIBPs based on 3D structures. We developed new Quantitative Structure-Activity Relationship (QSAR) models based on 3D electrostatic parameters of 1801 different proteins, including 801 LIBPs. We calculated these electrostatic parameters with the MARCH-INSIDE software and they correspond to the entire protein or to specific protein regions named core, inner, middle, and surface. We used these parameters as inputs to develop a simple Linear Discriminant Analysis (LDA) classifier to discriminate 3D structure of LIBPs from other proteins. We implemented this predictor in the web server named LIBP-Pred, freely available at , along with other important web servers of the Bio-AIMS portal. The users can carry out an automatic retrieval of protein structures from PDB or upload their custom protein structural models from their disk created with LOMETS server. We demonstrated the PDB mining option performing a predictive study of 2000+ proteins with unknown function. Interesting results regarding the discovery of new Cancer Biomarkers in humans or drug targets in parasites have been discussed here in this sense.

  16. Distributions of fossil fuel originated CO{sub 2} in five metropolitan areas of Korea (Seoul, Busan, Daegu, Daejeon, and Gwangju) according to the {Delta}{sup 14}C in ginkgo leaves

    Energy Technology Data Exchange (ETDEWEB)

    Park, J.H.; Hong, W. [Korea Institute of Geoscience and Mineral Resources, 124 Gwahang-no Yuseong, Daejeon 305-350 (Korea, Republic of); Park, G., E-mail: junghun@kigam.re.kr [Korea Institute of Geoscience and Mineral Resources, 124 Gwahang-no Yuseong, Daejeon 305-350 (Korea, Republic of); Sung, K.S.; Lee, K.H.; Kim, Y.E.; Kim, J.K.; Choi, H.W.; Kim, G.D.; Woo, H.J. [Korea Institute of Geoscience and Mineral Resources, 124 Gwahang-no Yuseong, Daejeon 305-350 (Korea, Republic of)

    2013-01-15

    We collected a batch of ginkgo (Ginkgo biloba Linnaeus) leaf samples at five metropolitan areas of Korea (Seoul, Busan, Daegu, Daejeon, and Gwangju) in 2009 to obtain the regional distribution of fossil fuel originated CO{sub 2} (fossil fuel CO{sub 2}) in the atmosphere. Regions assumed to be free of fossil fuel CO{sub 2} were also selected, namely Mt. Chiak, Mt. Kyeryong, Mt. Jiri, Anmyeon Island, and Jeju Island and ginkgo leaf samples were collected in those areas during the same period. The {Delta}{sup 14}C values of the samples were measured using Accelerator Mass Spectrometry (AMS) and the fossil fuel CO{sub 2} ratios in the atmosphere were obtained in the five metropolitan areas. The average ratio of fossil fuel CO{sub 2} in Seoul was higher than that in the other four cities. The leaves from the Sajik Tunnel in Seoul recorded the highest FFCTC (fossil fuel CO{sub 2} over total CO{sub 2} in atmosphere), 13.9 {+-} 0.5%, as the air flow of the surrounding neighborhood of the Sajik Tunnel was blocked.

  17. Widespread occurrence of the tfd-II genes in soil bacteria revealed by nucleotide sequence analysis of 2,4-dichlorophenoxyacetic acid degradative plasmids pDB1 and p712.

    Science.gov (United States)

    Kim, Dong-Uk; Kim, Min-Sun; Lim, Jong-Sung; Ka, Jong-Ok

    2013-05-01

    Variovorax sp. strain DB1 and Pseudomonas pickettii strain 712 are 2,4-dicholorophenoxy-acetic acid (2,4-D)-degrading bacteria, which were isolated from agricultural soils in Republic of Korea and USA, respectively. Each strain harbors a 2,4-D degradative plasmid and is able to utilize 2,4-D as the sole source of carbon for its growth. The 2,4-D degradative plasmid pDB1 of strain DB1 consisted of a 65,269-bp circular molecule with a G+C content of 66.23% and had 68 ORFs. The 2,4-D degradative plasmid p712 of strain 712 was composed of a 62,798-bp circular molecule with a 62.11% G+C content and had 62 ORFs. The plasmids pDB1 and p712 share significantly homologous 2,4-D degradative genes with high similarity to the tfdR, tfdB-II, tfdC-II, tfdD-II, tfdE-II, tfdF-II, tfdK and tfdA genes of plasmid pJP4 of Alcaligenes eutrophus isolated from Australia. In a phylogenetic analysis with trfA, traL, and trbA genes, pDB1 belonged to IncP-1β with pJP4, while p712 belonged to IncP-1ε with pKJK5 and pEMT3. The results indicated that, in spite of the differences in their backbone regions, the 2,4-D catabolic genes of the two plasmids were closely related and also related to the well-known 2,4-D degradative plasmid pJP4 even though all were isolated from different geographic regions. Other similarities in the genetic organization and the presence of IS1071 suggested that these catabolic genes may be on a transposable element, leading to widespread occurrence in soil bacteria. Copyright © 2013 Elsevier Inc. All rights reserved.

  18. The PDB database is a rich source of alpha-helical anti-microbial peptides to combat disease causing pathogens [version 2; referees: 2 approved, 1 approved with reservations

    Directory of Open Access Journals (Sweden)

    Sandeep Chakraborty

    2015-06-01

    Full Text Available The therapeutic potential of α-helical anti-microbial peptides (AH-AMP to combat pathogens is fast gaining prominence. Based on recently published open access software for characterizing α-helical peptides (PAGAL, we elucidate a search methodology (SCALPEL that leverages the massive structural data pre-existing in the PDB database to obtain AH-AMPs belonging to the host proteome. We provide in vitro validation of SCALPEL on plant pathogens (Xylella fastidiosa, Xanthomonas arboricola and Liberibacter crescens by identifying AH-AMPs that mirror the function and properties of cecropin B, a well-studied AH-AMP. The identified peptides include a linear AH-AMP present within the existing structure of phosphoenolpyruvate carboxylase (PPC20, and an AH-AMP mimicing the properties of the two α-helices of cecropin B from chitinase (CHITI25. The minimum inhibitory concentration of these peptides are comparable to that of cecropin B, while anionic peptides used as control failed to show any inhibitory effect on these pathogens. Substitute therapies in place of conventional chemotherapies using membrane permeabilizing peptides like these might also prove effective to target cancer cells. The use of native structures from the same organism could possibly ensure that administration of such peptides will be better tolerated and not elicit an adverse immune response. We suggest a similar approach to target Ebola epitopes, enumerated using PAGAL recently, by selecting suitable peptides from the human proteome, especially in wake of recent reports of cationic amphiphiles inhibiting virus entry and infection.

  19. C, O and Sr isotopic stratigraphy of carbonates pre and pos Jequitai glaciation: Bezerra-Formosa area, Goias, BR;Variacoes dos isotopos de C e Sr em carbonatos pre e pos-glaciacao Jequitai (Esturtiano) na regiao de Bezerra-Formosa, Goias

    Energy Technology Data Exchange (ETDEWEB)

    Alvarenga, Carlos Jose Souza de; Della Giustina, Maria Emilia Schuteski; Silva, Nivea Goulart Carramal; Santos, Roberto Ventura; Gioia, Simone Maria Costa Lima; Guimaraes, Edi Mendes; Dardenne, Marcel Auguste, E-mail: alva1@unb.b [Universidade de Brasilia (IG/UnB), DF (Brazil). Inst. de Geociencias; Sial, Alcides Nobrega; Ferreira, Valderez Pinto [Universidade Federal de Pernambuco (UFPE), Recife, PE (Brazil). Lab. de Isotopos Estaveis (LABISE)

    2007-12-15

    Carbonate rocks of the upper Paranoa Group and lower Bambui Group (Sete Lagoas Formation) have been founded at the occidental border of the Sao Francisco craton. These units have been separated by the Sturtian glaciation, identified by Jequitai Formation, but in some localities the glacial record is absent and is difficult to separate these two carbonates units. In this paper two sections with a good stratigraphic control have been chosen to find C, O and Sr isotopic values to have tools for the correlations. Carbonates of the Paranoa Group present a trend of positive {delta}{sup 13}C{sub PDB} varying between +0.8 e +2.7 %o, of {delta}{sup 18}O{sub PDB} varying between -9.0 e -4.7 %o and {sup 87}Sr/{sup 86}Sr ranging from 0.7063 to 0.7068. The diamictite sample of Jequitai Formation has {delta}{sup 13}C{sub PDB} values of -1.8%o and {delta}{sup 18}O{sub PDB} values of -5.1%o. The cap dolomites of the Sete Lagoas Formation are associated with an extremely negative {delta}{sup 13}C{sub PDB} values between -6.0 e -3.2 %o, {delta}{sup 18}O{sub PDB} values between -9.1 e -5.3%o and high {sup 87}Sr/{sup 86}Sr ratios suggesting a radiogenic Sr isotope anomaly. Limestone and muddy-limestone above the cap dolomite still starts with extremely negative {delta}{sup 13}C{sub PDB} values (-6.0%o) and are followed by an upward trend of increasing carbon isotope values up to +9.2 %o. In the same interval the {delta}{sup 18}O{sub PDB} values ranging from -10.1%o at the base to -5.5%o in direction to the top of formation and primary {sup 87}Sr/{sup 86}Sr ratios between 0.70745 and 0.70758. The Carbon and Sr isotope data presented here reveal significant differences between carbonates from the Paranoa Group and the Bambui Group. These data developed here provides the framework for a new regional isotopic correlation model to the carbonates units of the Paranoa and Bambui groups. (author)

  20. Using Homology Information From PDB to Improve The Accuracy of Protein β-turn Prediction by NetTurnP%运用PDB中的同源信息提高NetTurnP的蛋白质β转角预测精度

    Institute of Scientific and Technical Information of China (English)

    钱刚; 王海燕; 袁哲明

    2012-01-01

    β转角作为一种蛋白质二级结构类型在蛋白质折叠、蛋白质稳定性、分子识别等方面具有重要作用.现有的β转角预测方法,没有将PDB等结构数据库中先前存在的同源序列的结构信息映射到待预测的蛋白质序列上.PDB存储的结构已超过70000,因此对一条新确定的序列,有较大可能性从PDB中找到其同源序列.本文融合PDB中提取的同源结构信息(对每一待测序列,仅使用先于该序列存储于PDB中的同源信息)与NetTurnP预测,提出了一种新的β转角预测方法BTMapping,在经典的BT426数据集和本文构建的数据集EVA937上,以马修斯相关系数表示的预测精度分别为0.56、0.52,而仅使用NetTurnP的为0.50、0.46,以Qtotal表示的预测精度分别为81.4%、80.4%,而仅使用NetTurnP的为78.2%、77.3%.结果证实同源结构信息结合先进的β转角预测器如NetTurnP有助于改进β转角识别.BTMapping程序及相关数据集可从http://www.bio530.weebly.com获得.%β-Turn is a secondary protein structure type that is important in protein folding,protein stability and molecular recognition processes.To date,various methods have been put forward to predict β-tums,but none of them have tried directly to map the structures of pre-existing homologues from structural databases like RCSB PDB to the protein to be predicted.Given the large size of PDB (>70 000 structures),it is actually of high possibility to find a structural homologuc for a newly identified sequence.In this work,we present a new method that predicts β-turns by combining homology information extracted from PDB with the results predicted by NetTurnP.Two datasets,the golden set BT426 and the self-constructed dataset EVA937,are used to assess our method.For each sequence in both datasets,only homologues deposited earlier than the sequence in PDB are employed.We have achieved Matthews correlation coefficients (MCCs) of 0.56,0.52 respectively,which are higher

  1. {delta}{sup 13}C and {delta}{sup 15}N shifts in benthic invertebrates exposed to sewage from McMurdo Station, Antarctica

    Energy Technology Data Exchange (ETDEWEB)

    Conlan, Kathleen E. [Canadian Musem of Nature, P.O. Box 3443 Station D, Ottawa, Ont., K1P 6P4 (Canada)]. E-mail kconlan@mus-nature.ca; Rau, Greg H. [Institute of Marine Sciences, University of California, Santa Cruz, CA 95064 (United States); Kvitek, Rikk G. [Earth Systems Science and Policy, California State University Monterey Bay, 100 Campus Center, Seaside, CA 93955 (United States)

    2006-12-15

    In an effort to identify biomonitors for contamination of Antarctic marine benthos by sewage, this study determines whether the US Antarctic Program's McMurdo Station produces a benthic sewage footprint and whether resident megafauna are assimilating sewage-derived material. We identified strong C and N isotopic gradients in benthic sediment as a function of downstream distance from McMurdo Station's point-source sewage addition. Sediment C and N isotope ratios approached marine background levels at the sampling end-point 612 m downcurrent. Based on isotope abundances in their tissues, at least some sewage C and N were assimilated by the sedentary, suspension feeding soft coral Alcyonium antarcticum, ascidian Cnemidocarpa verrucosa and bivalve Laternula elliptica. However, as inferred by tissue-sediment differences in downstream isotope trends, such assimilation was not in proportion to sewage exposure and input, therefore implying non-generalist feeding behavior by these species. In contrast, the motile, generalist feeding sea urchin Sterechinus neumayeri, sea star Odontaster validus and ribbon worm Parborlasia corrugatus showed isotopic evidence of sewage C and N assimilation roughly in proportion to sewage input. We recommend these generalist feeders for further use as biomonitors at this site now that sewage treatment has been implemented. As these species are circumpolar in distribution, they may also prove useful elsewhere in the Antarctic.

  2. Molmil: a molecular viewer for the PDB and beyond.

    Science.gov (United States)

    Bekker, Gert-Jan; Nakamura, Haruki; Kinjo, Akira R

    2016-01-01

    We have developed a new platform-independent web-based molecular viewer using JavaScript and WebGL. The molecular viewer, Molmil, has been integrated into several services offered by Protein Data Bank Japan and can be easily extended with new functionality by third party developers. Furthermore, the viewer can be used to load files in various formats from the user's local hard drive without uploading the data to a server. Molmil is available for all platforms supporting WebGL (e.g. Windows, Linux, iOS, Android) from http://gjbekker.github.io/molmil/. The source code is available at http://github.com/gjbekker/molmil under the LGPLv3 licence.

  3. Isotopic composition ([delta][sup 18]O) of the upper stalagmitic floor of Lazaret cave at Nice. Analyse de la composition isotopique ([delta][sup 18]O) du plancher stalagmitique superieur de la grotte du Lazaret a Nice

    Energy Technology Data Exchange (ETDEWEB)

    Rousseau, L.; Lumley, H. de; Bahain, J.J.; Falgueres, C. (Institut de Paleontologie, 75 - Paris (France)); Robert, F. (Museum National d' Histoire Naturelle, 75 - Paris (France))

    1994-03-17

    Radiochronological and mineralogical studies of the stalagmitic floor 'Ensemble E' of the Lazaret cave at Nice revealed that its formation has been continuous during the climatic period corresponding to 'stage 5'. In addition, biochemical analyses of this floor showed that the crystals behave as a closed system with respect to organic compounds (sterols). Oxygen isotopic compositions have registered variations which are qualitatively in agreement with those ascribed to stage 5. Therefore, these oxygen isotopic variations may be used as an independent geochemical chronometer. (authors). 15 refs.

  4. Diagenesis and reservoir quality evolution of palaeocene deep-water, marine sandstones, the Shetland-Faroes Basin, British continental shelf

    Energy Technology Data Exchange (ETDEWEB)

    Mansurbeg, H. [Department of Earth Sciences, Uppsala University, Villavaegen 16, SE 752 36 Uppsala (Sweden); Morad, S. [Department of Earth Sciences, Uppsala University, Villavaegen 16, SE 752 36 Uppsala (Sweden); Department of Petroleum Geosciences, The Petroleum Institute, P.O. Box 2533, Abu Dhabi (United Arab Emirates); Salem, A. [Faculty of Education at Kafr El-Sheikh, Tanta University, Kafr El-Sheikh (Egypt); Marfil, R.; Caja, M.A. [Departmento Petrologia y Geoquimica, Facultad de Geologia, UCM, 28040 Madrid (Spain); El-ghali, M.A.K. (Geology Department, Al-Fateh University, P.O. Box 13696, Libya); Nystuen, J.P. [Department of Geosciences, University of Oslo, P.O. Box 1047 Blindern, NO-0316 Oslo (Norway); Amorosi, A. [Department of Earth Sciences, University of Bologna, Via Zamboni 67, 40127 Bologna (Italy); Garcia, D. [Centre SPIN, Department GENERIC, Ecole Nationale Superieure des Mines de Saint Etienne 158, Cours Fauriel 42023, Saint-Etienne (France); La Iglesia, A. [Instituto de Geologia Economica (CSIC-UCM), Facultad de Geologia, UCM, 28040 Madrid (Spain)

    2008-06-15

    The Palaeocene, deep-water marine sandstones recovered from six wells in the Shetland-Faroes Basin represent lowstand, transgressive and highstand systems tract turbiditic sediments. Mineralogic, petrographic, and geochemical analyses of these siliciclastics are used to decipher and discuss the diagenetic alterations and subsequent reservoir quality evolution. The Middle-Upper Palaeocene sandstones (subarkoses to arkoses) from the Shetland-Faroes Basin, British continental shelf are submarine turbiditic deposits that are cemented predominantly by carbonates, quartz and clay minerals. Carbonate cements (intergranular and grain replacive calcite, siderite, ferroan dolomite and ankerite) are of eogenetic and mesogenetic origins. The eogenetic alterations have been mediated by marine, meteoric and mixed marine/meteoric porewaters and resulted mainly in the precipitation of calcite ({delta}{sup 18}O{sub V-PDB}=-10.9 permille and -3.8 permille), trace amounts of non-ferroan dolomite, siderite ({delta}{sup 18}O{sub V-PDB}=-14.4 permille to -0.6 permille), as well as smectite and kaolinite in the lowstand systems tract (LST) and highstand systems tract (HST) turbiditic sandstone below the sequence boundary. Minor eogenetic siderite has precipitated between expanded and kaolinitized micas, primarily biotite. The mesogenetic alterations are interpreted to have been mediated by evolved marine porewaters and resulted in the precipitation of calcite ({delta}{sup 18}O{sub V-PDB}=-12.9 permille to -7.8 permille) and Fe-dolomite/ankerite ({delta}{sup 18}O{sub V-PDB}=-12.1 permille to -6.3 permille) at temperatures of 50-140 and 60-140 C, respectively. Quartz overgrowths and outgrowth, which post- and pre-date the mesogenetic carbonate cements is more common in the LST and TST of distal turbiditic sandstone. Discrete quartz cement, which is closely associated with illite and chlorite, is the final diagenetic phase. The clay minerals include intergranular and grain replacive

  5. Modern marine dolomite cement in a north Jamaican fringing reef

    Energy Technology Data Exchange (ETDEWEB)

    Mitchell, J.T.; Land, L.S.; Miser, D.E.

    1987-06-01

    Minor quantities of ordered dolomite (..delta../sup 18/O = +2.0 per thousand PDB; composition = Ca/sub 1.22/Mg/sub 0.78/ (CO/sub 3/)/sub 2/) have formed from near-normal seawater in a subtidal hardground as part of a modern fringing coral reef. Crystals 5 ..mu..m in diameter precipitated within the past 1.8 ka in the form of syntaxial fringes on Mg-calcite marine cements and skeletal allochems. The crystals have a fine modulated microstructure and c reflections, both apparently formed during crystal growth

  6. PRI-Modeler: extracting RNA structural elements from PDB files of protein-RNA complexes.

    Science.gov (United States)

    Han, Kyungsook; Nepal, Chirag

    2007-05-01

    A complete understanding of protein and RNA structures and their interactions is important for determining the binding sites in protein-RNA complexes. Computational approaches exist for identifying secondary structural elements in proteins from atomic coordinates. However, similar methods have not been developed for RNA, due in part to the very limited structural data so far available. We have developed a set of algorithms for extracting and visualizing secondary and tertiary structures of RNA and for analyzing protein-RNA complexes. These algorithms have been implemented in a web-based program called PRI-Modeler (protein-RNA interaction modeler). Given one or more protein data bank files of protein-RNA complexes, PRI-Modeler analyzes the conformation of the RNA, calculates the hydrogen bond (H bond) and van der Waals interactions between amino acids and nucleotides, extracts secondary and tertiary RNA structure elements, and identifies the patterns of interactions between the proteins and RNAs. This paper presents PRI-Modeler and its application to the hydrogen bond and van der Waals interactions in the most representative set of protein-RNA complexes. The analysis reveals several interesting interaction patterns at various levels. The information provided by PRI-Modeler should prove useful for determining the binding sites in protein-RNA complexes. PRI-Modeler is accessible at http://wilab.inha.ac.kr/primodeler/, and supplementary materials are available in the analysis results section at http://wilab.inha.ac.kr/primodeler/.

  7. PENGARUH PDB RIIL DAN VARIABEL FISKAL TERHADAP PENANAMAN MODAL ASING LANGSUNG DI INDONESIA

    Directory of Open Access Journals (Sweden)

    Yosi Eka Putri

    2012-10-01

    Full Text Available This study aims to determine the influence of Real GDP and fiscal variables for foreign direct investment in Indonesia in period 1980 to 2006, and also to determine the level of sensitivity (elasticity of foreign direct investment to GDP Real and fiscal variables in Indonesia in 1980 to 2006. The data used in this study is time series data or annual data for 27 years secondary. Data obtained from Statistics Economics and Finance Indonesia (SEKI BI. The research method used a model with a Multiple Linear Regression analysis: analysis of correlation (R, the analysis of the coefficient of determination (R2, the elasticity analysis, and test the stability of the model, while the tests performed were F test, t test, and test autocorrelation with Durbin Watson and multicollinearity test using Eviews program. From the results of this study showed that 96.16% of foreign direct investment in Indonesia is influenced by real GDP, income tax, property tax, sales tax, economic development spending, government spending on transport and communications, government spending on education, as well as the economic crisis while the rest of 3.84 % influenced by other factors outside the model. Effect of Real GDP, PBB, government spending on transport and communications and in partial dummy variable is not significant while the Income Tax, sales tax, government spending for education and development are significant on direct foreign investment in Indonesia from 1980 to 2006.

  8. The RCSB PDB "Molecule of the Month": Inspiring a Molecular View of Biology.

    Directory of Open Access Journals (Sweden)

    David S Goodsell

    2015-05-01

    Full Text Available The Research Collaboratory for Structural Bioinformatics (RCSB Molecule of the Month series provides a curated introduction to the 3-D biomolecular structures available in the Protein Data Bank archive and the tools that are available at the RCSB website for accessing and exploring them. A variety of educational materials, such as articles, videos, posters, hands-on activities, lesson plans, and curricula, build on this series for use in a variety of educational settings as a general introduction to key topics, such as enzyme action, protein synthesis, and viruses. The series and associated educational materials are freely available at www.rcsb.org.

  9. Hydration sites of unpaired RNA bases: a statistical analysis of the PDB structures

    Directory of Open Access Journals (Sweden)

    Carugo Oliviero

    2011-10-01

    Full Text Available Abstract Background Hydration is crucial for RNA structure and function. X-ray crystallography is the most commonly used method to determine RNA structures and hydration and, therefore, statistical surveys are based on crystallographic results, the number of which is quickly increasing. Results A statistical analysis of the water molecule distribution in high-resolution X-ray structures of unpaired RNA nucleotides showed that: different bases have the same penchant to be surrounded by water molecules; clusters of water molecules indicate possible hydration sites, which, in some cases, match those of the major and minor grooves of RNA and DNA double helices; complex hydrogen bond networks characterize the solvation of the nucleotides, resulting in a significant rigidity of the base and its surrounding water molecules. Interestingly, the hydration sites around unpaired RNA bases do not match, in general, the positions that are occupied by the second nucleotide when the base-pair is formed. Conclusions The hydration sites around unpaired RNA bases were found. They do not replicate the atom positions of complementary bases in the Watson-Crick pairs.

  10. The NMR restraints grid at BMRB for 5,266 protein and nucleic acid PDB entries.

    NARCIS (Netherlands)

    Doreleijers, J.F.; Vranken, W.F.; Schulte, C.; Lin, J.; Wedell, J.R.; Penkett, C.J.; Vuister, G.W.; Vriend, G.; Markley, J.L.; Ulrich, E.L.

    2009-01-01

    Several pilot experiments have indicated that improvements in older NMR structures can be expected by applying modern software and new protocols (Nabuurs et al. in Proteins 55:483-186, 2004; Nederveen et al. in Proteins 59:662-672, 2005; Saccenti and Rosato in J Biomol NMR 40:251-261, 2008). A recen

  11. BLOCKS - PDB matching - DB-SPIRE | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available English ]; } else { document.getElementById(lang).innerHTML= '[ Japanese | English ]'; } } window.onload = switchLang...en/,/jp/); document.getElementById(lang).innerHTML=[ Japanese | English ]; } else if ( url.search(//contents...//) != -1 ) { url = url.replace(/contents/,/contents-en/); document.getElementById(lang).innerHTML=[ Japanes...e(/contents-en/,/contents/); document.getElementById(lang).innerHTML=[ Japanese | English ]; } else if( url....search(/contents-en/) != -1 || url.search(/index-e.html/) != -1 ) { document.getElementById(lang).innerHTML=

  12. Biogenic fabrics in seep carbonates from an active gas vent site in Green Canyon Block 238, Gulf of Mexico

    Energy Technology Data Exchange (ETDEWEB)

    Fu Chen, Duo; Liu, Qian [Key Laboratory of Marginal Sea Geology, Guangzhou Institute of Geochemistry, Chinese Academy of Sciences, Wushan, Guangzhou, Guangdong 510640 (China); Zhang, Zhengwei [Institute of Geochemistry, Chinese Academy of Sciences, No 46 Guanshui Road, Guiyang, Guizhou 550002 (China); Cathles, Lawrence M. III. [Department of Earth and Atmospheric Sciences, Cornell University, Ithaca, NY 14853 (United States); Roberts, Harry H. [Coastal Studies Institute, Louisiana State University, Batton Rouge, LA 70803 (United States)

    2007-05-15

    Carbonate crusts collected from an active methane seep site in the offshore Louisiana of Gulf of Mexico have {delta}{sup 13}C{sub PDB}=-49.16 permille to -52.29 permille and a group of unsaturated 2,6,10,15,19-pentamethylicosane (PMI{delta}) compounds produced by methane oxidizing archaea (MOA) with {delta}{sup 13}C{sub PDB} of PMI{delta} compounds from -107.2 permille to -115.5 permille, indicating that the crusts formed as the result of bacterially catalyzed methane oxidation and sulfate reduction. The fabric of the two flat sides of the crust is distinctly different. The ''top'' side is composed entirely of microcrystalline calcite while the bottom is composed entirely of ''wormy'' carbonate cement that could be a random, low fidelity replacement of bacteria. In the interior of the {proportional_to}1cm thick crust microcrystalline calcite is coated by ''wormy'' carbonate cement, and dispersed pyrite framboids appear to be collaborating colonies of MOA and sulfate reducing bacteria (SRB). We propose that the ''wormy'' carbonate texture, particularly with microcrystalline calcite and pyrite framboids present, may be a useful indicator of biologically controlled fabrics produced during methane oxidation and sulfate reduction by MOA and SRB. (author)

  13. Organic Aggregates with (delta)D and delta(sup 15)N Anomalies in the Zag Clast Revealed by STXM and NanoSIMS

    Science.gov (United States)

    Kebukawa, Y.; Ito, M.; Zolensky, M. E.; Rahman, Z.; Kilcoyne, A. L. D.; Nakato, A.; Takeichi, Y.; Suga, H.; Miyamoto, C.; Mase, K.; Takahashi, Y.; Chan, Q.; Fries, M.

    2016-01-01

    Xenolithic clasts are often found in a wide variety of meteorite groups. Some ordinary chondrite clasts are interesting since these clasts might have originated from Ceres which shares crossing orbits with a possible ordinary chondrite parent body, Hebe. The Zag meteorite contains a dark clast dominated by saponite, serpentine, carbonates, sulfides, magnetite, minor olivine and pyroxene, which is consistent with formation on a large, carbonaceous, aqueously active body, e.g., Ceres. Abundant large C-rich grains up to 20 microns were found in the Zag clast as well. Such large C-rich grains are unique among any other meteorites in our knowledge, and will provide important clues to decipher the origin of the clast and accretion history. C-rich grains were selected in the Zag dark clast using SEM and approximately 100 nm-thick sections were prepared using a focused ion beam (FIB) at NASA-JSC. The sections were analyzed using the scanning transmission X-ray microscope (STXM) on beamline 5.3.2.2 at Advanced Light Source, LBNL, and BL-13A at the Photon Factory, KEK. Subsequently, the FIB section was analyzed for H, C and N isotopic compositions using a CAMECA NanoSIMS 50L ion microprobe at Kochi Institute for Core Sample Research, JAMSTEC

  14. Radiocarbon dating of VIRI bone samples using ultrafiltration

    Energy Technology Data Exchange (ETDEWEB)

    Minami, Masayo, E-mail: minami@nendai.nagoya-u.ac.jp [Center for Chronological Research, Nagoya University, Nagoya 464-8602 (Japan); Yamazaki, Kana [Faculty of Science, Nagoya University, Nagoya 464-8602 (Japan); Omori, Takayuki [University Museum, University of Tokyo, Tokyo 113-0033 (Japan); Nakamura, Toshio [Center for Chronological Research, Nagoya University, Nagoya 464-8602 (Japan)

    2013-01-15

    Ultrafiltration can effectively remove low-molecular-weight (LMW) contaminants from bone gelatin to extract high-molecular-weight (HMW) proteins that are derived from original bone collagen, though it cannot remove HMW collagen crosslinked with humic acids. Therefore, ultrafiltration is often used to obtain more accurate {sup 14}C dates of bones. However, ultrafiltration may introduce new contaminants to bone gelatins, mainly from ultrafilters used. To study the effects of ultrafiltration on {sup 14}C age, we analyzed the C/N ratio, {delta}{sup 13}C{sub PDB} and {delta}{sup 15}N{sub AIR} values, and {sup 14}C ages of acid-soluble bone collagen obtained by decalcification, gelatin extracted from acid-insoluble bone collagen, and the HMW gelatin and LMW fractions produced during ultrafiltration of the extracted gelatin. Bone samples from the Fifth International Radiocarbon Intercomparison (VIRI) were used: VIRI-E (mammoth), -F (horse), -G (human), and -I (whale). In this study, carbon and nitrogen content and gelatin yields were used to evaluate collagen preservation in the VIRI bone samples. Radiocarbon ages, {delta}{sup 13}C{sub PDB} and {delta}{sup 15}N{sub AIR} values of unfiltered and HMW gelatins were obtained and compared with the published consensus values. The LMW fraction was found to exhibit different values from those of the other fractions, indicating the possible presence of extraneous contamination. The Vivaspin Trade-Mark-Sign 6 ultrafilters used in this study were analyzed and radiocarbon dated both before and after cleaning. We present evidence to suggest that LMW fraction contaminants could be derived from the ultrafilters rather than humic substances. Excessively long ultrafiltration time was suspected to have contaminated the bone samples with material from the ultrafilter, because those samples exhibited older {sup 14}C ages than did those filtered for shorter durations. The results in this study indicate that {sup 14}C ages of unfiltered

  15. PDB73 – The Expected Value Of Bio-Artificial Pancreas Development In View Of Endocrinologists' And Patients' Preferences

    NARCIS (Netherlands)

    Wissing, T.B.; Apeldoorn, van A.A.; IJzerman, M.J.

    2013-01-01

    Objectives Islet transplantation is an accepted transplantation method in type I Diabetes Mellitus, yet islet survival is hampered due to an insufficient transplantation site and severe immunological and inflammatory responses. The development of a bio-artificial pancreas (BAP) may contribute to tra

  16. Mirrors in the PDB: left-handed α-turns guide design with D-amino acids

    Directory of Open Access Journals (Sweden)

    Nanda Vikas

    2009-09-01

    Full Text Available Abstract Background Incorporating variable amino acid stereochemistry in molecular design has the potential to improve existing protein stability and create new topologies inaccessible to homochiral molecules. The Protein Data Bank has been a reliable, rich source of information on molecular interactions and their role in protein stability and structure. D-amino acids rarely occur naturally, making it difficult to infer general rules for how they would be tolerated in proteins through an analysis of existing protein structures. However, protein elements containing short left-handed turns and helices turn out to contain useful information. Molecular mechanisms used in proteins to stabilize left-handed elements by L-amino acids are structurally enantiomeric to potential synthetic strategies for stabilizing right-handed elements with D-amino acids. Results Propensities for amino acids to occur in contiguous αL helices correlate with published thermodynamic scales for incorporation of D-amino acids into αR helices. Two backbone rules for terminating a left-handed helix are found: an αR conformation is disfavored at the amino terminus, and a βR conformation is disfavored at the carboxy terminus. Helix capping sidechain-backbone interactions are found which are unique to αL helices including an elevated propensity for L-Asn, and L-Thr at the amino terminus and L-Gln, L-Thr and L-Ser at the carboxy terminus. Conclusion By examining left-handed α-turns containing L-amino acids, new interaction motifs for incorporating D-amino acids into right-handed α-helices are identified. These will provide a basis for de novo design of novel heterochiral protein folds.

  17. High precision measurement by mass spectrometry of isotopic ratios {delta} {sup 13}C and {delta}{sup 18}O of carbon dioxide; Mesure haute precision par spectrometrie de masse des rapports isotopiques {delta} {sup 13}C et {delta}{sup 18}O du dioxyde de carbone

    Energy Technology Data Exchange (ETDEWEB)

    Bourg, Chr.; Ciais, Ph.

    1998-02-01

    Carbon dioxide (CO{sub 2}) is the second natural greenhouse gas in the Earth's atmosphere, after vapor water. Its concentration levels have been increasing by 25% due to human activities over the past 200 years, thus increasing the radiative forcing at the surface and potentially including major climate change for the next centuries. It is of primary importance to better quantify the role of carbon contained into the oceans and the land biota in moderating the anthropic perturbation. To do so, {sup 13}C and {sup 18}O isotopes are unique tools which allow to estimate indirectly the terrestrial CO{sub 2} fluxes based on atmospheric measurements. The present reports describes the experimental set-up used at the CFR-LMCE laboratory to measure the {sup 13}C and {sup 18}O natural abundance in atmospheric carbon dioxide. This technique requires high levels of both precision and accuracy because the geochemical signal nevertheless consists of very small changes in isotopic composition (on the order of 0.01 permits). Also, given the large number of samples to analyses routinely, it must be run in an automatic mode. Our experiment design consists of 'extraction line' where CO{sub 2} is separated cryogenically from the air, which is coupled to a (Finnigan MAT 252) mass spectrometer. (authors)

  18. Carbon and oxygen isotopes of marbles associated to the phosphorous-uranium deposit of Itataia, Ceara state, Brazil; Isotopos de carbono e oxigenio dos marmores associados com o deposito fosforo uranifero de Itataia, Ceara

    Energy Technology Data Exchange (ETDEWEB)

    Castro, Givaldo Lessa [Universidade Federal do Ceara (UFC), Fortaleza (Brazil). Dept. de Geologia]. E-mail: givaldolessa@rapix.com.br; Parente, Clovis Vaz; Verissimo, Cesar Ulisses Vieira; Garcia, Maria da Gloria Motta; Melo, Rafael Castro de; Santos, Aldiney Almeida [Universidade Federal do Ceara (UFC/INB), Fortaleza, CE (Brazil). Dept. de Geologia]. E-mail : clovis@ufc.br; Sial, Alcides Nobrega [Universidade Federal de Pernambuco (UFPE), Recife, PE (Brazil). NEG-LABISE. Dept. de Geologia]. E-mail: ans@ufpe.br; Santos, Roberto Ventura [Universidade de Brasilia (UNB), DF (Brazil). Instituto de Geociencias]. E-mail: rventura@unb.br

    2005-06-15

    The phosphorous-uranium deposit of Itataia, Ceara State, NE Brazil, is characterized by colophanites that occur as massive and irregular bodies, and as veins, associated to marbles and calc-silicate lenses that are enclosed in Meso to neo proterozoic pelitic and psamitic metasediments rocks metamorphosed under high amphibolite-facies. Centimetric to metric muscovite- and tourmaline-bearing pegmatitic bodies are common and crosscut both the metapelites and their anatetic products. Plagioclase-rich phyllosilicate-poor pegmatites cut different marble levels, some of which are mineralized in colophane. The marble beds, which are the main ore host-rock, show a heterogeneous structural pattern as a result of complex folding and thrusting. C and O isotope analyses in carbonates from one of the sections that crosscut partially mineralized monocarbonate rocks show {delta}13{sub PDB} values ranging from +2,0 to -5,0 per mille and {delta}{sup 18}O{sub SMOW} values from +16,3 to +24,2 per mille. Changes in the original isotopic ratios are mainly related to regional metamorphism, as well as to ductile and ductile-brittle post-depositional events associated with infiltration of hydrothermal and/or supergenic fluids and karstification. The thin, impure dolomitic marble bodies, which show the lowest isotopic ratios, were the most affected by these events. Retromorphic mylonitic levels and especially karstic dissolution breccias found at depths of 144 m and inserted in the carbonate levels are likely to represent fluid percolation channels. The thicker monocarbonate levels, which show the highest delta{sup 13}{sub CPDB} and delta{sup 18}O{sub SMOW} ratios (0{+-} 2 per mille and >20 per mille, respectively), represent isotopically best-preserved beds. The mineral assemblage (deposed, scapolite, phlogopite, clinochlore and tremolite) indicates that devolatilization and/or de carbonation reactions did occur, but this does not preclude the hypothesis of external fluid interaction as

  19. Organic geochemistry of Mid-Continent middle and Late Ordovician oils

    Energy Technology Data Exchange (ETDEWEB)

    Longman, M.W.; Palmer, S.E.

    1987-08-01

    Ordovician oils in Mohawkian and Cincinnatian reservoirs of the US Mid-Continent retain the biochemical imprint of Middle and Upper Ordovician oceanic life before the evolution of land plants and most vertebrates. Thus, these oils have some geochemical features that distinguish them from younger oils. These features include (1) a predominance of n-C/sub 15/, n-C/sub 17/, and n-C/sub 19/ alkanes in the saturated hydrocarbon fraction, (2) relatively low amounts of longer chain n-alkanes, (3) low amounts of chlorophyll-derived isoprenoids, such as pristane and phytane, and (4) abundant C/sub 29/ sterane relative to C/sub 27/ with rearranged forms (diasteranes) predominant over normal steranes. Ordovician oils also generally contain little sulfur and have a somewhat variable light stable carbon isotopic composition with delta/sup 13/C/sub sat/ and delta/sup 13/C/sub aro/ values of -28 to -31 per thousand (PDB), but these features are typical of many marine oils. The unusual chemistry of these Ordovician oils supports the interpretation of Reed, Illich, and Horsfield (1986) that prokaryotic organisms provided the organic matter for most Ordovician oils. Although their claim for Gloeocapsamorpha (a problematic unicellular prokaryote, possibly a blue-green alga or an unusually large bacterium) cannot be proven from oil chemistry alone, knowing that indigenous Mid-Continent Ordovician oils were derived from prokaryotic organisms may aid in future exploration for these reservoirs. 7 figures, 3 tables.

  20. Data of evolutionary structure change - ConfC | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available ID of this table pdbIDA PDB ID of compared protein structure A pdbIDB PDB ID of compared... protein structure B pdbChainA PDB chain ID of compared protein structure A pdbChainA PDB chain ID of compared

  1. Origin and timing of siderite cementation in Upper Ordovician glaciogenic sandstones from the Murzuq basin, SW Libya

    Energy Technology Data Exchange (ETDEWEB)

    El-ghali, M.A.K.; Mansurbeg, H. [Department of Earth Science, Uppsala University, Villavaegen 16, SE 75236 Uppsala (Sweden); Tajori, K.G. [Department of Earth Science, Faculty of Science, Al-Fateh University, P.O. Box 13696, Tripoli (Libya); Ogle, N.; Kalin, R.M. [School of Civil Engineering, Environmental Engineering Research Centre, The Queen' s University of Belfast, Stranmillis Road, Belfast BT9 5AG (United Kingdom)

    2006-05-15

    The origin and timing of siderite cementation have been constrained in relation to depositional facies and sequence stratigraphy of Upper Ordovician glaciogenic sandstones from the Murzuq basin, SW Libya. Optical microscope, backscattered electron imagery, and carbon and oxygen stable isotope analysis have revealed that siderite is of eo- and mesogenetic origin. Eogenetic siderite is Mg-poor with a mean composition of (Fe{sub 91.7}Mg{sub 1.5}Ca{sub 0.3}Mn{sub 6.5})CO{sub 3}, and occurs in paraglacial, tide-dominated deltaic highstand systems tract (HST) sandstones, in paraglacial, foreshore to shoreface HST sandstones and in postglacial, Gilbert-type deltaic lowstand systems tract (LST) sandstones. This siderite is typically of meteoric water origin that influxed into the LST and HST sandstones during relative sea level fall and basinward shift of the strandline. Mesogenetic siderite, which engulfs and thus postdates quartz overgrowths and illite, is Mg-rich with a mean composition of (Fe{sub 72.2}Mg{sub 21.7}Ca{sub 0.8}Mn{sub 5.3})CO{sub 3} and occurs in the paraglacial, tide-dominated deltaic HST sandstones, in paraglacial foreshore to shoreface HST sandstones, in glacial, tide-dominated estuarine transgressive systems tract (TST) sandstones, in postglacial, Gilbert-type deltaic LST sandstones, and in postglacial, shoreface TST sandstones. {delta}{sup 18}O{sub V-PDB} values of this siderite, which range between -22.6 and -13.8%%, suggest that precipitation has occurred from evolved formation waters with {delta}{sup 18}O values between -14.0 and +1.0%% and was either meteoric, mixed marine-meteoric and/or marine in origin by assuming postdating quartz overgrowths and illite temperature between 80 and 130{sup o}C. (author)

  2. Geological setting, isotope studies (C, O and Pb) and associated metals in the Tocantinzinho gold deposit, Tapajos domain, Tapajos-Parima Province; Contexto geologico, estudos isotopicos (C, O e Pb) e associacao metalica do deposito aurifero Tocantinzinho, dominio Tapajos, Provincia Tapajos-Parima

    Energy Technology Data Exchange (ETDEWEB)

    Villas, Raimundo Netuno Nobre [Universidade Federal do Para (UFPA), Belem, PA (Brazil); Santiago, Erika Suellen Barbosa; Castilho, Marilia Portela, E-mail: netuno@ufpa.br, E-mail: esbsantiago@gmail.com, E-mail: castilho.marilia@hotmail.com [Universidade Federal do Para (UFPA), Belem, PA (Brazil). Inst. de Geociencias. Programa de Pos-graduacao em Geologia e Geoquimica

    2013-03-15

    The Tocantinzinho ore deposit is located along a NW-SE-trending lineament, southwestern of Itaituba (Para, Brazil), and is the largest known gold deposit of the Tapajos Province. The host Tocantinzinho granite is essentially isotropic and dominated by syenogranites and monzogranites that have been weakly to moderately altered by hydrothermal fluids. Microclinization (earliest), chloritization, sericitization, silicification and carbonatization (latest) are the main types of alteration. Most mineralization was contemporaneous with the sericitization/silicification and is represented by sulfide- and gold-bearing veinlets which locally occur as stockwork. Pyrite, chalcopyrite, sphalerite and galena are the most common sulfides. Among the ore metals, Cu, Pb and Zn present the highest contents, but Mo, As and Bi locally show anomalous concentrations. The relationship of Au with Cu, Pb or Zn is at random and the Au/Ag ratios range from 0.05 to 0.5. The higher the sulfide contents, the higher the Au concentrations, though it occurs mainly included in pyrite. Zircon monocrystals from the Tocantinzinho granite yielded an average Pb-Pb age of 1982 {+-}8Ma and may represent an earlier event of the Creporizao magmatic arc. {delta}{sup 13}C{sub PDB} values for calcite from the carbonatization stage fall dominantly between -3.45 and -2.29 Per-Mille-Sign , being compatible with a deep crustal source that may include carbonatite reservoirs. In turn, {delta}{sup 18}O{sub SMOW} values vary from +5.97 to +14.10 Per-Mille-Sign , being indicative of magmatic derivation, although the less positive values suggest contribution from surficial waters. Unpublished fluid inclusion study reveals the presence of aquo-carbonic fluids, whose CO{sub 2} could have been dissolved in the granitic magma rather than being related to the shear zone. The available data allow the Tocantinzinho deposit to be classified as a granite-hosted, intrusion-related gold deposit. (author)

  3. Carbon dioxide and helium in hydrothermal fluids from Loihi Seamount, Hawaii, USA: Temporal variability and implications for the release of mantle volatiles

    Energy Technology Data Exchange (ETDEWEB)

    Sedwick, P.N.; McMurtry, G.M. (Univ. of Hawaii, Honolulu, HI (United States)); Hilton, D.R. (Freie Universitaet Berlin (Germany)); Goff, F. (Los Alamos National Laboratory, NM (United States))

    1994-02-01

    Dissolved CO[sub 2], [delta][sup 13]C, He, and [sup 3]He/[sup 4]He were determined in warm (<30[degrees]C) hydrothermal fluids from Pele's Vents on the summit of Lihi Seamount, Hawaii, collected during DSRV Pisces V dives in August and September 1992. Total dissolved CO[sub 2] and He are highly enriched over ambient seawater, with maximum measured concentrations of 190 mmol/kg C[sub T] and 0.193 [mu]mol/kg He, and correlate linearly with dissolved Si concentration and sample temperature. Carbon dioxide [delta][sup 13]C values range from [minus]5.5 to 1.7% (PDB) and corrected [sup 3]He/[sup 4]He ratios from 21.7 to 27.0 R[sub a], indicating a primary magmatic source for both gases. The high concentrations of these volatiles in the vent waters relative to reported bulk concentrations in Lihi basalts suggest that both gases are most likely introduced into the fluids by direct degassing from a magma body, rather than hydrothermal extraction from the summit laves. Comparison of the [sup 3]He/[sup 4]He ratios of the vent waters with reported values for Loihi basalts suggests that the mantle-derived volatiles in the fluids are variably contaminated by radiogenic He, probably due to assimilation of basement rock by the source magma. Such a mechanism could also be responsible for the range of [sup 3]He/[sup 4]He ratios observed in lavas from Loihi. The data demonstrate remarkable temporal variation in the volatile content of the vent fluids. The authors suggest that these temporal changes reflect progressive degassing from a magmatic intrusion with significant fractionation of CO[sub 2] and He, a process which may also account for the range in C/He ratios of Lihi lavas.

  4. Late production of hydrocarbon gases in sedimentary basins: kinetic and isotopic study; Genese tardive des gaz hydrocarbures dans les bassins sedimentaires: etude cinetique et isotopique

    Energy Technology Data Exchange (ETDEWEB)

    Lorant, F.

    1999-06-23

    to describe more precisely these reactions, additional pyrolysis experiments were performed on an aromatic compound, representative of the chemical structure of mature kerogens: the 1-methyl-pyrene. The data show that the methane is mainly produced during secondary and tertiary mechanisms, following to global succeeding stages: E{sub 1} = 56.7 kcal/mol and A{sub 1} = 8.52 x 10{sup 12} s{sup -1}, E{sub 2} = 49.5 kcal/mol and A{sub 2} 2.48 x 10{sup 9} s{sup -1}. By analogy, it was established that the three reactions of late methane generation, as observed by pyrolyzing mature kerogens, are respectively related to beta-scission, demethylation and cokefaction processes. In other respects, the late methane is characterized by {delta}{sup 13}C values between -36 and -24 0/00{sub PDB} (experimental conditions), and for the Type II kerogen by a reversal of the isotopic fractionation between the gas and its source at the high maturity levels: {delta}{sup 13}C{sub CH4/kerogene} = -10 to +2 0/00{sub PDB}. Such an uncommon {delta}{sup 13}C evolution was not observed during the pyrolysis of the I-methyl-pyrene, the generated methane being, on the contrary, strongly {sup 12}C-enriched compared to its source ({delta}{sup 13}C{sub CH4/1-MPy} = -35 to -19 0/00{sub PDB}). Nevertheless, by coupling a model of isotopic fractionation, based on the assumption of strictly kinetically-controlled effects, to the kinetic scheme previously generated, it was shown that the differences of isotopic signature between the model compound and the kerogens are mainly due to highly contrasted precursor effects (i.e. {delta}{sup 13}C of the functional groups from which the methane originates) specific to demethylation processes. Besides the elaboration of a methodology for the acquisition of kinetic, stoichiometric and isotopic parameters specific to the generation of late methane, this work has allowed the validation of a model of isotopic fractionation, especially by emphasizing the synergy between

  5. Late production of hydrocarbon gases in sedimentary basins: kinetic and isotopic study; Genese tardive des gaz hydrocarbures dans les bassins sedimentaires: etude cinetique et isotopique

    Energy Technology Data Exchange (ETDEWEB)

    Lorant, F.

    1999-06-23

    to describe more precisely these reactions, additional pyrolysis experiments were performed on an aromatic compound, representative of the chemical structure of mature kerogens: the 1-methyl-pyrene. The data show that the methane is mainly produced during secondary and tertiary mechanisms, following to global succeeding stages: E{sub 1} = 56.7 kcal/mol and A{sub 1} = 8.52 x 10{sup 12} s{sup -1}, E{sub 2} = 49.5 kcal/mol and A{sub 2} 2.48 x 10{sup 9} s{sup -1}. By analogy, it was established that the three reactions of late methane generation, as observed by pyrolyzing mature kerogens, are respectively related to beta-scission, demethylation and cokefaction processes. In other respects, the late methane is characterized by {delta}{sup 13}C values between -36 and -24 0/00{sub PDB} (experimental conditions), and for the Type II kerogen by a reversal of the isotopic fractionation between the gas and its source at the high maturity levels: {delta}{sup 13}C{sub CH4/kerogene} = -10 to +2 0/00{sub PDB}. Such an uncommon {delta}{sup 13}C evolution was not observed during the pyrolysis of the I-methyl-pyrene, the generated methane being, on the contrary, strongly {sup 12}C-enriched compared to its source ({delta}{sup 13}C{sub CH4/1-MPy} = -35 to -19 0/00{sub PDB}). Nevertheless, by coupling a model of isotopic fractionation, based on the assumption of strictly kinetically-controlled effects, to the kinetic scheme previously generated, it was shown that the differences of isotopic signature between the model compound and the kerogens are mainly due to highly contrasted precursor effects (i.e. {delta}{sup 13}C of the functional groups from which the methane originates) specific to demethylation processes. Besides the elaboration of a methodology for the acquisition of kinetic, stoichiometric and isotopic parameters specific to the generation of late methane, this work has allowed the validation of a model of isotopic fractionation, especially by emphasizing the synergy between

  6. Gas chromatographic separation for the H and C stable isotope ratio determination of coal compounds

    Energy Technology Data Exchange (ETDEWEB)

    Antenucci, D.; Jacquemin, C. [Institut Scientifique de Service Public, Liege (Belgium); Bouquegneau, J.M.; Brasseur, A.; Dauby, P.; Pirard, J.P. [Universite de Liege (Belgium); Letolle, R. [Universite Pierre et Marie Curie, Paris (France)

    1997-06-01

    A new, completely automated gas chromatography technique has been developed to separate the different gaseous compounds produced during underground coal gasification for their {sup 13}C/{sup 12}C and D/H isotope ratio measurements. The technique was designed for separation and collection of H{sub 2}, CO, CO{sub 2}, H{sub 2}O, H{sub 2}S, CH{sub 4}, and heavier hydrocarbons. These gaseous compounds are perfectly separated by the gas-phase chromatograph and quantitatively sent to seven combustion and collection lines. H{sub 2}, CO, CH{sub 4}, and heavier hydrocarbons are quantitatively oxidized to CO{sub 2} and/or H{sub 2}O. The isotopic analyses are performed by the sealed-tube method. The zinc method is used for reduction of both water and H{sub 2}S to hydrogen for D/H analysis. Including all preparation steps, the reproducibility of isotope abundance values, for a quantity higher than or equal to 0.1 mL of individual components in a mixture (5 mL of gases being initially injected in the gas chromatograph), is {+-}0.1 per mil for {delta}{sup 13}C{sub PDB} and {+-}6 per mil for {delta}D{sub SMOW}. 20 refs., 3 figs., 4 tabs.

  7. Evidence of shallow hydrocarbons offshore northern Santa Cruz county, California

    Energy Technology Data Exchange (ETDEWEB)

    Mullins, H.T.; Nagel, D.K.

    1982-08-01

    Analyses of high-resolution seismic reflection profiles and hydrocarbon samples indicate that natural hydrocarbon seepage is occurring along the San Gregorio and Monterey Bay fault zones offshore northern Santa Cruz County, California. A variety of anomalous seismic reflection features such as a water-column anomalies, subsurface amplitude anomalies (''bright spots''), and seismic ''smears/wipeouts'' has been observed and mapped. More than 100 water-column anomalies (probably gas seeps) occur in the study area of approximately 270 mi/sup 2/ (700 km/sup 2/). Many of these seismic anomalies are associated with subsurface geologic structures, which suggest hydrocarbon migration from depth. Samples of natural gas collected from a shallow coastal water well contain 74 to 91% methane, 7 to 23% nitrogen, approx.2% carbon dioxide, and < 1% ethane. The methane appears to be thermogenic in origin, having delta/sup 13/C values of -29.51 to -32.55% PDB. Rock dredges from 2,300 ft (700 m) of water in Ascension Submarine Canyon have also recovered oil-saturated sandstones, further suggesting the seepage of hydrocarbons. The shallow occurrence of most of these hydrocarbons are interpreted to be the result of migration from depth along active faults within the San Gregorio and Monterey Bay faults zones.

  8. Application of information theory to a three-body coarse-grained representation of proteins in the PDB: insights into the structural and evolutionary roles of residues in protein structure.

    Science.gov (United States)

    Thompson, Jared J; Tabatabaei Ghomi, Hamed; Lill, Markus A

    2014-12-01

    Knowledge-based methods for analyzing protein structures, such as statistical potentials, primarily consider the distances between pairs of bodies (atoms or groups of atoms). Considerations of several bodies simultaneously are generally used to characterize bonded structural elements or those in close contact with each other, but historically do not consider atoms that are not in direct contact with each other. In this report, we introduce an information-theoretic method for detecting and quantifying distance-dependent through-space multibody relationships between the sidechains of three residues. The technique introduced is capable of producing convergent and consistent results when applied to a sufficiently large database of randomly chosen, experimentally solved protein structures. The results of our study can be shown to reproduce established physico-chemical properties of residues as well as more recently discovered properties and interactions. These results offer insight into the numerous roles that residues play in protein structure, as well as relationships between residue function, protein structure, and evolution. The techniques and insights presented in this work should be useful in the future development of novel knowledge-based tools for the evaluation of protein structure. © 2014 Wiley Periodicals, Inc.

  9. Inclusive. delta. /sup + +/ production in. pi. /sup -/p interactions at 147 GeV/c

    Energy Technology Data Exchange (ETDEWEB)

    Brick, D.; Fong, D.; Heller, M.; Shapiro, A.M.; Widgoff, M.; Bruyant, F.; Bogert, D.; Johnson, M.; Burnstein, R.; Fu, C.; Petersen, D.; Robertson, M.; Rubin, H.; Sard, R.; Snyder, A.; Tortora, J.; Alyea, E.D. Jr.; Chien, C.; Lucas, P.; Pevsner, A.; Zdanis, R.; Barreiro, F.; Benary, O.; Brau, J.E.; Grunhaus, J.; Hafen, E.S.; Hulsizer, R.I.; Karshon, U.; Kistiakowsky, V.; Levy, A.; Napier, A.; Pless, I.A.; Silverman, J.P.; Trepagnier, P.C.; Wolfson, J.; Yamamoto, R.K.; Cohn, H.; Jacques, R.F.; Ou, T.C.; Plano, R.J.; Watts, T.L.; Brucker, E.B.; Koller, E.L.; Stamer, P.; Taylor, S.; Bugg, W.; Condo, G.; Handler, T.; Hart, E.; Kraybill, H.; Ljung, D.; Ludlam, T.; Taft, H.D.

    1978-11-01

    The inclusive production of the ..delta../sup + +/(1232) resonance in ..pi../sup -/p collisions at 147 GeV/c has been studied. The ..delta../sup + +/ is found to be produced in comparable amounts in four-, six-, eight-, and ten-prong events. The Feynman-x, t', P/sub T//sup 2/, and the decay angular distributions of the ..delta../sup + +/ are found to be consistent with the predictions of a one-pion-exchange model with absorption. Essentially all of the ..delta../sup + +/ are found to be associated with a ..delta../sup + +/ ..pi../sup -/ low-mass enhancement. The ..delta../sup + +/ cross section is approximately constant from 11 to 205 GeV/c, which could indicate that the ..delta../sup + +/ is a decay product of a target-fragmentation object. While the one-pion-exchange character of the ..delta../sup + +/ production and the target-fragmentation character of the ..delta../sup + +/..pi../sup -/ low-mass enhancement can both be described in terms of a Deck-type diagram, a Monte Carlo study indicates that any mechanism that produces particles with limited transverse momentum will yield a ..delta../sup + +/..pi../sup -/ low-mass enhancement.

  10. Stable oxygen and hydrogen isotopes measurement by CF-IRMS with applications in hydrology studies

    Energy Technology Data Exchange (ETDEWEB)

    Costinel, Diana; Vremera, Raluca [National Research and Development Institute for Cryogenics and Isotopic Technologies, 4 Uzinei, POBox Raureni 7, 240050 Ramnicu Valcea (Romania); Grecu, Voicu V [University Bucharest, Faculty of Physics, Department of Atomic and Nuclear Physics, 405 Atomistilor, CP MG 11, 077125 Bucharest-Magurele (Romania); Cuna, Stela, E-mail: diana@icsi.r [National Institute for Research and Development of Isotopic and Molecular Technologies, 65-103 Donath, 400293 Cluj-Napoca (Romania)

    2009-08-01

    The major changes in isotopic composition of natural waters occur in the atmospheric part of the water cycle and in surface waters which are exposed to the atmosphere. This study demonstrated the utility of the Continuous Flow - Isotope Ratio Mass Spectrometry method for measuring natural variation of the occurring isotopes of hydrogen ({sup 2}H) and oxygen ({sup 18}O) in meteoric waters. The variation of {delta}{sup 18}O and {delta}{sup 2}D values from precipitation fallen in Raureni-Valcea area between May-December 2007 and September 2008-March 2009 were measured together with the {delta}{sup 18}O and {delta}{sup 2}D values from the Bistrita River. The Local Meteoric Water Line was reported for this area. Also, the variation of {delta}{sup 18}O and {delta}{sup 2}D values was correlated with the temperature and humidity in the same period.

  11. Preparation data of the bromodomains BRD3(1, BRD3(2, BRD4(1, and BRPF1B and crystallization of BRD4(1-inhibitor complexes

    Directory of Open Access Journals (Sweden)

    Martin Hügle

    2016-06-01

    Full Text Available This article presents detailed purification procedures for the bromodomains BRD3(1, BRD3(2, BRD4(1, and BRPF1B. In addition we provide crystallization protocols for apo BRD4(1 and BRD4(1 in complex with numerous inhibitors. The protocols described here were successfully applied to obtain affinity data by isothermal titration calorimetry (ITC and by differential scanning fluorimetry (DSF as well as structural characterizations of BRD4(1 inhibitor complexes (PDB codes: PDB: 4LYI, PDB: 4LZS, PDB: 4LYW, PDB: 4LZR, PDB: 4LYS, PDB: 5D24, PDB: 5D25, PDB: 5D26, PDB: 5D3H, PDB: 5D3J, PDB: 5D3L, PDB: 5D3N, PDB: 5D3P, PDB: 5D3R, PDB: 5D3S, PDB: 5D3T. These data have been reported previously and are discussed in more detail elsewhere [1,2].

  12. NCBI nr-aa BLAST: CBRC-MEUG-01-2279 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available ecName: Full=Rhodopsin pdb|1JFP|A Chain A, Structure Of Bovine Rhodopsin (Dark Adapted) pdb|1LN6|A Chain A, Structure... Of Bovine Rhodopsin (Metarhodopsin Ii) pdb|1GZM|A Chain A, Structure Of Bovine Rhodopsin In A Trig...onal Crystal Form pdb|1GZM|B Chain B, Structure Of Bovine Rhodopsin In A Trigonal... Crystal Form pdb|1HZX|A Chain A, Crystal Structure Of Bovine Rhodopsin pdb|1HZX|B Chain B, Crystal Structure... Of Bovine Rhodopsin pdb|1L9H|A Chain A, Crystal Structure Of Bovine Rhodopsin At 2.6 Angstroms Resolution

  13. Understanding associations between nitrogen and carbon isotopes and mercury in three Ammodramus sparrows

    Energy Technology Data Exchange (ETDEWEB)

    Winder, Virginia L., E-mail: vlw3056@uncw.edu; Michaelis, Adriane K., E-mail: adri04@hotmail.com; Emslie, Steven D., E-mail: emslies@uncw.edu

    2012-03-01

    We analyzed nitrogen and carbon stable isotope ratios and mercury (Hg) in breast feathers from three species of closely related sparrows, Saltmarsh, Seaside, and Nelson's Sparrows (Ammodramus caudacutus, A. maritimus, and A. nelsoni, respectively), to assess if trophic position and food web structure influence Hg exposure in these species. Sparrows were captured during the non-breeding season from 2006 to 2008 in North Carolina salt marshes near Wrightsville Beach, New Hanover County. Generalized linear models were used to test for the influence of species, {delta}{sup 15}N, and {delta}{sup 13}C on breast feather Hg. The most parsimonious model included species, {delta}{sup 15}N, and their interaction term and explained 36% of the variation in breast feather Hg. Each species exhibited a different association between breast feather {delta}{sup 15}N and Hg with Seaside Sparrows showing a positive correlation (r = 0.27, P = 0.03), Nelson's Sparrows a negative correlation (r = - 0.28, P = 0.01), and Saltmarsh Sparrows with no significant association. For Saltmarsh Sparrows, {delta}{sup 15}N and Hg revealed decoupling between breast feather Hg and trophic position. Our results demonstrate that the influence of {delta}{sup 15}N on breast feather Hg is likely indicative of geographic variation in {delta}{sup 15}N baselines rather than trophic position. - Highlights: Black-Right-Pointing-Pointer Species, {delta}{sup 15}N and {delta}{sup 13}C influence breast feather Hg in coastal sparrows. Black-Right-Pointing-Pointer {delta}{sup 15}N influence may be based more on variation in baselines than trophic position. Black-Right-Pointing-Pointer {delta}{sup 15}N and Hg are decoupled in Saltmarsh Sparrows. Black-Right-Pointing-Pointer Variation in Hg is due to geographic variation in contamination/biomagnification.

  14. Stable isotopes of bulk organic matter to trace carbon and nitrogen dynamics in an estuarine ecosystem in Babitonga Bay (Santa Catarina, Brazil)

    Energy Technology Data Exchange (ETDEWEB)

    Barros, Grace Virginia, E-mail: vgbarros@gmail.com [Dipartimento di Scienze Ambientali, Universita Ca' Foscari, Dorsoduro 2137, 30123 Venezia (Italy); University of UNIVILLE, Joinville, Santa Catarina (Brazil); Martinelli, Luiz Antonio [Centro de Energia Nuclear na Agricultura, Universidade de Sao Paulo, Av. Centenario 303, 13416-000, Piracicaba, SP (Brazil); Oliveira Novais, Therezinha M. [University of UNIVILLE, Joinville, Santa Catarina (Brazil); Ometto, Jean Pierre H.B. [Centro de Energia Nuclear na Agricultura, Universidade de Sao Paulo, Av. Centenario 303, 13416-000, Piracicaba, SP (Brazil); Zuppi, Gian Maria [Dipartimento di Scienze Ambientali, Universita Ca' Foscari, Dorsoduro 2137, 30123 Venezia (Italy)

    2010-04-15

    The biogeochemical processes affecting the transport and cycling of terrestrial organic carbon in coastal and transition areas are still not fully understood. One means of distinguishing between the sources of organic materials contributing to particulate organic matter (POM) in Babitonga Bay waters and sediments is by the direct measurement of {delta}{sup 13}C of dissolved inorganic carbon (DIC) and {delta}{sup 13}C and {delta}{sup 15}N in the organic constituents. An isotopic survey was taken from samples collected in the Bay in late spring of 2004. The results indicate that the {delta}{sup 13}C and {delta}{sup 15}N compositions of OM varied from - 21.7 per mille to - 26.2 per mille and from + 9.2 per mille to - 0.1 per mille , respectively. {delta}{sup 13}C from DIC ranges from + 0.04 per mille to - 12.7 per mille . The difference in the isotope compositions enables the determination of three distinct end-members: terrestrial, marine and urban. Moreover, the evaluation of source contribution to the particulate organic matter (POM) in the Bay, enables assessment of the anthropogenic impact. Comparing the depleted values of {delta}{sup 13}C{sub DIC} and {delta}{sup 13}C{sub POC} it is possible to further understand the carbon dynamic within Babitonga Bay.

  15. Pion content of the nucleon in polarized semi-inclusive DIS

    Energy Technology Data Exchange (ETDEWEB)

    Melnitchouk, W. [Univ. of Regensburg (Germany); Thomas, A.W. [Univ. of Adelaide (Australia)

    1994-04-01

    An explicit pionic component of the nucleon may be identified by measuring polarized {Delta}{sup ++} fragments produced in deep-inelastic scattering (DIS) off polarized protons. The pion-exchange model predicts highly correlated polarizations of the {Delta}{sup ++} and target proton, in marked contrast with the competing diquark fragmentation process.

  16. Palaeohydrological implications in the Baltic area and its relation to the groundwater at Aespoe, south-eastern Sweden - A literature study

    Energy Technology Data Exchange (ETDEWEB)

    Wallin, B. [Geokema AB, Lidingoe (Sweden)

    1995-03-01

    A literature study of different groundwaters in the circum Baltic region is presented in this work. The study is mainly focused on the isotopic signatures observed in different groundwaters in Sweden and Finland. Several saline groundwaters in the Baltic region at depth of 150 to 500m depth show stable ({delta}D, {delta}{sup 13}C, {delta}{sup 18}O) and radiogenic ({delta}{sup 87}Sr) isotope assembly which is suggestive of a marine origin. However, a discrepancy is sometimes observed between the stable as well as radiogenic isotopes of the intermediate groundwater, which suggest a mixture of fossil marine water and a post-glacial runoff of melt water. In order to explain this phenomenon, the initial setting in {delta}{sup 18}O may have been depleted due to large input of high latitude marine water or cold melt waters. A solution to the contradiction between the strontium ({delta}{sup 87}Sr) and stable isotope ({delta}D, {delta}{sup 13}C, {delta}{sup 18}O) signatures of the groundwater and of the calcite fracture fillings at Aespoe and other places is attained, if it is assumed that the strontium in Baltic Sea water has undergone a significant decrease in {delta}{sup 87}Sr since the last glaciation. A scenario can be constructed to suggest that the Baltic Sea during the initial stage of the Litorina sea (8000 to 5000 Y B.P.) contained strontium with much larger {delta}{sup 87}Sr values. Another explanation for the positive {delta}{sup 87}Sr values may be due to water/rock interaction between the groundwater and the abundant fracture clay minerals, which are observed at Aespoe. Typically most of the saline groundwaters occur both in Sweden and Finland below the highest marine shore line during the Holocene. Almost all inland groundwaters show a totally different pattern which is typically non marine, meteoric in origin. (Abstract Truncated)

  17. Palaeohydrological implications in the Baltic area and its relation to the groundwater at Aespoe, south-eastern Sweden - A literature study

    Energy Technology Data Exchange (ETDEWEB)

    Wallin, B. [Geokema AB, Lidingoe (Sweden)

    1995-03-01

    A literature study of different groundwaters in the circum Baltic region is presented in this work. The study is mainly focused on the isotopic signatures observed in different groundwaters in Sweden and Finland. Several saline groundwaters in the Baltic region at depth of 150 to 500m depth show stable ({delta}D, {delta}{sup 13}C, {delta}{sup 18}O) and radiogenic ({delta}{sup 87}Sr) isotope assembly which is suggestive of a marine origin. However, a discrepancy is sometimes observed between the stable as well as radiogenic isotopes of the intermediate groundwater, which suggest a mixture of fossil marine water and a post-glacial runoff of melt water. In order to explain this phenomenon, the initial setting in {delta}{sup 18}O may have been depleted due to large input of high latitude marine water or cold melt waters. A solution to the contradiction between the strontium ({delta}{sup 87}Sr) and stable isotope ({delta}D, {delta}{sup 13}C, {delta}{sup 18}O) signatures of the groundwater and of the calcite fracture fillings at Aespoe and other places is attained, if it is assumed that the strontium in Baltic Sea water has undergone a significant decrease in {delta}{sup 87}Sr since the last glaciation. A scenario can be constructed to suggest that the Baltic Sea during the initial stage of the Litorina sea (8000 to 5000 Y B.P.) contained strontium with much larger {delta}{sup 87}Sr values. Another explanation for the positive {delta}{sup 87}Sr values may be due to water/rock interaction between the groundwater and the abundant fracture clay minerals, which are observed at Aespoe. Typically most of the saline groundwaters occur both in Sweden and Finland below the highest marine shore line during the Holocene. Almost all inland groundwaters show a totally different pattern which is typically non marine, meteoric in origin. (Abstract Truncated)

  18. Environmental isotopes (N, S, C, O, D) to determine natural attenuation processes in nitrate contaminated waters: Example of Osona (NE Spain)

    Energy Technology Data Exchange (ETDEWEB)

    Vitoria, Laura [Grup de Mineralogia Aplicada i Medi Ambient, Departament de Cristal.lografia, Mineralogia i Diposits Minerals, Facultat de Geologia, Universitat de Barcelona, Marti i Franques, s/n, 08028, Barcelona (Spain)], E-mail: lvitoria@ub.edu; Soler, Albert; Canals, Angels [Grup de Mineralogia Aplicada i Medi Ambient, Departament de Cristal.lografia, Mineralogia i Diposits Minerals, Facultat de Geologia, Universitat de Barcelona, Marti i Franques, s/n, 08028, Barcelona (Spain); Otero, Neus [Grup de Mineralogia Aplicada i Medi Ambient, Departament de Cristal.lografia, Mineralogia i Diposits Minerals, Facultat de Geologia, Universitat de Barcelona, Marti i Franques, s/n, 08028, Barcelona (Spain); Departament de Geologia Ambiental, Institut de Ciencies de la Terra ' Jaume Almera' , CSIC C/Lluis Sole i Sabaris s/n, Barcelona 08028 (Spain)

    2008-12-15

    Nitrate-contaminated groundwater from an aquifer in the Osona region (NE Spain) was chemically and isotopically ({delta}{sup 15}N{sub NO{sub 3}},{delta}{sup 18}O{sub NO{sub 3}},{delta}{sup 34}S{sub SO{sub 4}},{delta}{sup 18}O{sub SO{sub 4}}, {delta}D, {delta}{sup 18}O{sub H{sub 2}}{sub O} and {delta}{sup 13}C{sub DIC}) characterized. Diffuse- NO{sub 3}{sup -} contamination reached values of 366 mg/L. Nearly 75% of the 37 sampled sites had higher concentrations than the 50 mg/L in NO{sub 3}{sup -} limit for drinking water. To identify the source of pollution {delta}{sup 15}N{sub NO{sub 3}} and {delta}{sup 18}O{sub NO{sub 3}} were used with results, for most samples, in the range of pig manure NO{sub 3}{sup -}. Nitrification processes were evaluated by means of the {delta}{sup 18}O of NO{sub 3}{sup -} and water. Isotopic data suggested that natural attenuation of NO{sub 3}{sup -} was taking place. This process was confirmed using the {delta}{sup 18}O{sub NO{sub 3}} coupled with the NO{sub 3}{sup -}/Cl{sup -} ratio, avoiding the influence of continuous NO{sub 3}{sup -} inputs. A further insight on denitrification processes was obtained by analyzing the ions involved in denitrification reactions. Although the role of organic matter oxidation could neither be confirmed nor discarded, this approach showed a link between denitrification and pyrite oxidation. Therefore, in areas with no adequate infrastructure (e.g. multipiezometers), such as the one studied, this approach could be useful for implementing better water management.

  19. Gene : CBRC-PHAM-01-0419 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-PHAM-01-0419 UN A UNKNOWN LANC1_HUMAN 4e-91 100% pdb|3E6U|A Chain A, Crystal Structure... Of Human Lancl1 pdb|3E6U|C Chain C, Crystal Structure Of Human Lancl1 pdb|3E6U|B Chain B, Crystal Structure... Of Human Lancl1 pdb|3E6U|D Chain D, Crystal Structure Of Human Lancl1 pdb|3E73|A Chain A, Crystal Structure... Of Human Lancl1 Complexed With Gsh pdb|3E73|B Chain B, Crystal Structure

  20. Discrimination between ginseng from Korea and China by light stable isotope analysis

    Energy Technology Data Exchange (ETDEWEB)

    Horacek, Micha, E-mail: micha.horacek@ait.ac.at [Department of Environmental Resources and Technology, Austrian Institute of Technology, 2444 Seibersdorf (Austria); Min, Ji-Sook; Heo, Sang-Cheol [National Institute of Scientific Investigation, 331-1 Shinwol-7dong, Yangcheon-ku, Seoul 158-707 (Korea, Republic of); Soja, Gerhard [Department of Environmental Resources and Technology, Austrian Institute of Technology, 2444 Seibersdorf (Austria)

    2010-12-03

    Ginseng is a health food and traditional medicine highly valued in Asia. Ginseng from certain origins is higher valued than from other origins, so that a reliable method for differentiation of geographical origin is important for the economics of ginseng production. To discriminate between ginseng samples from South Korea and PR China, 29 samples have been analyzed for the isotopic composition of the elements H, C and N. The results showed {delta}{sup 2}H values between -94 and -79 per mille , for {delta}{sup 13}C -27.9 to -23.7 per mille and for {delta}{sup 15}N 1.3-5.4 per mille for Chinese ginseng. Korean ginseng gave {delta}{sup 2}H ratios between -91 and -69 per mille , {delta}{sup 13}C ratios between -31.2 and -22.4 per mille and {delta}{sup 15}N ratios between -2.4 and +7 per mille . Despite the overlap between the values for individual isotopes, a combination of the isotope systems gave a reasonable differentiation between the two geographic origins. Especially the statistically significant difference in {delta}{sup 2}H ratios facilitated the differentiation between Korean and Chinese ginseng samples.

  1. Stable oxyten and carbon isotope study of recent sediments and cements, Lee Stocking island, Bahamas: Organic vs. inorganic precipitation

    Energy Technology Data Exchange (ETDEWEB)

    Falls, W.F.; Williams, D.F.; Kendall, C.G.St.C.; Dill, R.F. (Univ. of South Carolina, Columbia (USA))

    1990-05-01

    Stable isotope analyses of modern carbonates from the tidal inlet along the north end of Lee Stocking Island indicate a strong correlation of both carbon and oxygen isotope values with grain size. Carbonate samples used in this study include the soft, recently formed outer surface of several large columnar stromatolites, bedded muds from within the tidal channel, and marine hardgrounds from the shallow shoals adjacent to the channel. All samples are predominantly aragonite and were divided into mud-, silt-, and sand-size particles and bleached of organics prior to isotopic analysis. The range in isotopic values for all carbonate samples is 3.3 to 4.6 {per thousand} for {delta}{sup 13}C and {minus}0.3 to {minus}1.4{per thousand} for {delta}{sup 18}O. The {delta}{sup 18}O and {delta}{sup 13}C values of the mud-size aragonite from all of these samples are depleted relative to the silt- and sand-size ooids and peloids and have isotope values lighter than 1.4{per thousand} for {delta}{sup 13}C and 0.8{per thousand} for {delta}{sup 18}O. The {delta}{sup 13}C values for green calcerous algae from the restricted platform behind Lee Stocking are similar to values for the stromatolite mud. {delta}{sup 13}C values for the hardground and channel-based muds are intermediate between the {delta}{sup 13}C values for the calcareous algae, and coarse-grained sediment. These data suggest that the green calcareous algae which fluorish in the restricted platform, are a significant source of aragonite mud in and around the channel but are not the only source.

  2. Data of evolutionary structure change: 1BFOB-3FCTD [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available D 3FCTD PAVLQSSGLYS .../pdbID> D 3FCTD VVTVPSSSLGTQ ...pdbChain>D 3FCTD CTRRD-----MDYWG ...1BFOB-3FCTD 1BFO 3FCT B D EVKLLESGGGLVQPGGSMRLSCAGSGFTFTDFYMNWIRQ...KLSCKASGYTFTSYWMHWVKQRPGRGLEWIGMIDPN--SGGTKYNEKFKSKATLTVDKPSNTAYMQLSSLTSEDSAVYYCT

  3. Protein - Trypanosomes Database | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available English ]; } else { document.getElementById(lang).innerHTML= '[ Japanese | English ]'; } } window.onload = ...ndelian inheritance in Man ) map Location of the gene on a chromosome or its chromosome number pdb PDB ID (P

  4. Protein Data Bank Japan (PDBj): updated user interfaces, resource description framework, analysis tools for large structures

    Science.gov (United States)

    Kinjo, Akira R.; Bekker, Gert-Jan; Suzuki, Hirofumi; Tsuchiya, Yuko; Kawabata, Takeshi; Ikegawa, Yasuyo; Nakamura, Haruki

    2017-01-01

    The Protein Data Bank Japan (PDBj, http://pdbj.org), a member of the worldwide Protein Data Bank (wwPDB), accepts and processes the deposited data of experimentally determined macromolecular structures. While maintaining the archive in collaboration with other wwPDB partners, PDBj also provides a wide range of services and tools for analyzing structures and functions of proteins. We herein outline the updated web user interfaces together with RESTful web services and the backend relational database that support the former. To enhance the interoperability of the PDB data, we have previously developed PDB/RDF, PDB data in the Resource Description Framework (RDF) format, which is now a wwPDB standard called wwPDB/RDF. We have enhanced the connectivity of the wwPDB/RDF data by incorporating various external data resources. Services for searching, comparing and analyzing the ever-increasing large structures determined by hybrid methods are also described. PMID:27789697

  5. NCBI nr-aa BLAST: CBRC-OGAR-01-1299 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available hodopsin pdb|1JFP|A Chain A, Structure Of Bovine Rhodopsin (Dark Adapted) pdb|1LN6|A Chain A, Structure Of B...ovine Rhodopsin (Metarhodopsin Ii) pdb|1GZM|A Chain A, Structure Of Bovine Rhodopsin In A Trigonal Crystal F...pdb|1HZX|A Chain A, Crystal Structure Of Bovine Rhodopsin pdb|1HZX|B Chain B, Crystal Structure Of Bovine Rh...odopsin pdb|1L9H|A Chain A, Crystal Structure Of Bovine Rhodopsin At 2.6 Angstroms Resolution pdb|1L9H|B Chain B, Crystal Structure...ure Of Bovine Rhodopsin At 2.2 Angstroms Resolution pdb|1U19|B Chain B, Crystal Structure

  6. Data of evolutionary structure change: 1BWIA-2CWIA [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available 1BWIA-2CWIA 1BWI 2CWI A A KVFGRCELAAAMKRHGLDNYRGYSLGNWVCAAKFESNFN...SKCELARKLKSMGMDGFHGYSLANWVCMAEYESNFNTQAFNGRNSNGSSDYGIFQLNSKWWCKSNSHS-SANACNIMCSKFLDDNIDDDIACAKRVVKDPNGMSAWVA...pdbChain>A 1BWIA ATNRN-TDGST 2CWI A 2CWIA...x> 1 2CWI Apdb

  7. Strong decays of nonstrange q{sup 3} baryons

    Energy Technology Data Exchange (ETDEWEB)

    Bijker, R. [Instituto de Ciencias Nucleares, Universidad Nacional Autonoma de Mexico, Apartado Postal 70-543, 04510 Mexico, D.F. (Mexico); Iachello, F. [Center for Theoretical Physics, Sloane Laboratory, Yale University, New Haven, Connecticut 06520-8120 (United States); Leviatan, A. [Racah Institute of Physics, The Hebrew University, Jerusalem 91904 (Israel)

    1997-03-01

    We study strong decays of nonstrange baryons by making use of the algebraic approach to hadron structure. Within this framework we derive closed expressions for decay widths in an elementary-meson emission model and use these to analyze the experimental data for N{sup {asterisk}}{r_arrow}N+{pi}, N{sup {asterisk}}{r_arrow}{Delta}+{pi}, N{sup {asterisk}}{r_arrow}N+{eta}, {Delta}{sup {asterisk}}{r_arrow}N+{pi}, {Delta}{sup {asterisk}}{r_arrow}{Delta}+{pi}, and {Delta}{sup {asterisk}}{r_arrow}{Delta}+{eta} decays. {copyright} {ital 1997} {ital The American Physical Society}

  8. Chromium, chromium isotopes and selected trace elements, western Mojave Desert, USA

    Energy Technology Data Exchange (ETDEWEB)

    Izbicki, John A. [U.S. Geological Survey, 4165 Spruance Road, Suite O, San Diego, CA 92123 (United States)], E-mail: jaizbick@usgs.gov; Ball, James W. [U.S. Geological Survey, 3215 Marine Street, Boulder, Colorado, CO 80303 (United States); Bullen, Thomas D. [U.S. Geological Survey, 345 Middlefield Road, Building 15, McKelvey Building, MS-420, Menlo Park, CA 94025 (United States); Sutley, Stephen J. [Denver Federal Center, P.O. Box 25046, MS-964, Denver, CO 80225-0046 (United States)

    2008-05-15

    Chromium(VI) concentrations in excess of the California Maximum Contaminant Level (MCL) of 50 {mu}g/L occur naturally in alkaline, oxic ground-water in alluvial aquifers in the western Mojave Desert, southern California. The highest concentrations were measured in aquifers eroded from mafic rock, but Cr(VI) as high as 27 {mu}g/L was measured in aquifers eroded from granitic rock. Chromium(VI) concentrations did not exceed 5 {mu}g/L at pH < 7.5 regardless of geology. {delta}{sup 53}Cr values in native ground-water ranged from 0.7 to 5.1 per mille and values were fractionated relative to the average {delta}{sup 53}Cr composition of 0 per mille in the earth's crust. Positive {delta}{sup 53}Cr values of 1.2 and 2.3 per mille were measured in ground-water recharge areas having low Cr concentrations, consistent with the addition of Cr(VI) that was fractionated on mineral surfaces prior to entering solution. {delta}{sup 53}Cr values, although variable, did not consistently increase or decrease with increasing Cr concentrations as ground-water flowed down gradient through more oxic portions of the aquifer. However, increasing {delta}{sup 53}Cr values were observed as dissolved O{sub 2} concentrations decreased, and Cr(VI) was reduced to Cr(III), and subsequently removed from solution. As a result, the highest {delta}{sup 53}Cr values were measured in water from deep wells, and wells in discharge areas near dry lakes at the downgradient end of long flow paths through alluvial aquifers. {delta}{sup 53}Cr values at an industrial site overlying mafic alluvium having high natural background Cr(VI) concentrations ranged from -0.1 to 3.2 per mille . Near zero {delta}{sup 53}Cr values at the site were the result of anthropogenic Cr. However, mixing with native ground-water and fractionation of Cr within the plume increased {delta}{sup 53}Cr values at the site. Although {delta}{sup 53}Cr was not necessarily diagnostic of anthropogenic Cr, it was possible to identify the extent

  9. Carbon and Sulfur Isotopic Signatures of Ancient Life and Environment at the Microbial Scale: Neoarchean Shales and Carbonates

    Science.gov (United States)

    Williford, K. H.; Ushikubo, T.; Lepot, K.; Kitajima, K.; Hallmann, C.; Spicuzza, M. J.; Kozdon, R.; Eigenbrode, J. L.; Summons, R. E.; Valley, J. W.

    2015-01-01

    An approach to coordinated, spatially resolved, in situ carbon isotope analysis of organic matter and carbonate minerals, and sulfur three- and four-isotope analysis of pyrite with an unprecedented combination of spatial resolution, precision, and accuracy is described. Organic matter and pyrite from eleven rock samples of Neoarchean drill core express nearly the entire range of delta(sup 13)C, delta(sup 34)S, Delta(sup 33)S, and Delta(sup 36)S known from the geologic record, commonly in correlation with morphology, mineralogy, and elemental composition. A new analytical approach (including a set of organic calibration standards) to account for a strong correlation between H/C and instrumental bias in SIMS delta(sup 13)C measurement of organic matter is identified. Small (2-3 microns) organic domains in carbonate matrices are analyzed with sub-permil accuracy and precision. Separate 20- to 50-micron domains of kerogen in a single approx. 0.5 cu cm sample of the approx. 2.7 Ga Tumbiana Formation have delta(sup 13)C = -52.3 +/- 0.1per mille and -34.4 +/- 0.1per mille, likely preserving distinct signatures of methanotrophy and photoautotrophy. Pyrobitumen in the approx. 2.6 Ga Jeerinah Formation and the approx. 2.5 Ga Mount McRae Shale is systematically 13C-enriched relative to co-occurring kerogen, and associations with uraniferous mineral grains suggest radiolytic alteration. A large range in sulfur isotopic compositions (including higher Delta(sup 33)S and more extreme spatial gradients in Delta(sup 33)S and Delta(sup 36)S than any previously reported) are observed in correlation with morphology and associated mineralogy. Changing systematics of delta(sup 34)S, Delta(sup 33)S, and Delta(sup 36)S, previously investigated at the millimeter to centimeter scale using bulk analysis, are shown to occur at the micrometer scale of individual pyrite grains. These results support the emerging view that the dampened signature of mass-independent sulfur isotope fractionation

  10. Main: 1YPB [RPSD[Archive

    Lifescience Database Archive (English)

    Full Text Available 1YPB 大麦 Barley Hordeum vulgare l. Subtilisin-Chymotrypsin Inhibitor-2a Hordeum Vulg...I=20-83.|PDB; 1YPA; X-ray; I=20-83.|PDB; 1YPB; X-ray; I=20-83.|PDB; 1YPC; X-ray; I=20-83.|PDB; 2CI2; X-ray; ...TEWPELVGKSVEEAKKVILQDKPEAQIIVLPVGTIVTMEYRIDRVRLFVDKLDNIAQVPRVG barley_1YPB.jpg ...

  11. NCBI nr-aa BLAST: CBRC-MLUC-01-0143 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MLUC-01-0143 pdb|2HXY|A Chain A, Crystal Structure Of Human Apo-Eif4aiii pdb|2...HXY|B Chain B, Crystal Structure Of Human Apo-Eif4aiii pdb|2HXY|C Chain C, Crystal Structure Of Human Apo-Ei...f4aiii pdb|2HXY|D Chain D, Crystal Structure Of Human Apo-Eif4aiii 2HXY 1e-127 94% ...

  12. Main: 1UKO [RPSD[Archive

    Lifescience Database Archive (English)

    Full Text Available 1UKO 大豆 Soybean Glycine max (L.) Merrill Beta-Amylase Name=Bmy1; Glycine Max Molecu...B; 1BYC; X-ray; @=1-494.|PDB; 1BYD; X-ray; @=1-494.|PDB; 1Q6C; X-ray; A=1-495.|PDB; 1UKO; X-ray; A/B/C/D=1-495.|PDB; 1UK...SRHHAILNFTCLEMRDSEQPSDAKSGPQELVQQVLSGGWREDIRVAGENALPRYDATAYNQIILNAKPQGVNNNGPPKLSMFGVTYLRLSDDLLQKSNFNIFKKFVLKMHADQDYCANPQKYNHAITPLKPSAPKIPIEVLLEATKPTLPFPWLPETDMKVDG soybean_1UKO.jpg ...

  13. Main: 1UKP [RPSD[Archive

    Lifescience Database Archive (English)

    Full Text Available 1UKP 大豆 Soybean Glycine max (L.) Merrill Beta-Amylase Name=Bmy1; Glycine Max Molecu...B; 1BYC; X-ray; @=1-494.|PDB; 1BYD; X-ray; @=1-494.|PDB; 1Q6C; X-ray; A=1-495.|PDB; 1UKO; X-ray; A/B/C/D=1-495.|PDB; 1UK...SRHHAILNFTCLEMRDSEQPSDAKSGPQELVQQVLSGGWREDIRVAGENALPRYDATAYNQIILNAKPQGVNNNGPPKLSMFGVTYLRLSDDLLQKSNFNIFKKFVLKMHADQDYCANPQKYNHAITPLKPSAPKIPIEVLLEATKPTLPFPWLPETDMKVDG soybean_1UKP.jpg ...

  14. Founder Effect in Different European Countries for the Recurrent P392L SQSTM1 Mutation in Paget’s Disease of Bone

    NARCIS (Netherlands)

    Chung, P.Y.J.; Beyens, G.; Guanabens, N.; Boonen, S.; Papapoulos, S.; Karperien, H.B.J.; Eekhoff, M.; Wesenbeek, van L.; [et al.],

    2008-01-01

    Paget’s Disease of Bone (PDB) is one of the most frequent metabolic bone diseases, affecting 1–5% of Western populations older than 55 years. Mutations in the sequestosome1 (SQSTM1) gene cause PDB in about one-third of familial PDB cases and in 2.4–9.3% of nonfamilial PDB cases, with the 1215C→T (P3

  15. Main: 3CI2 [RPSD[Archive

    Lifescience Database Archive (English)

    Full Text Available 3CI2 大麦 Barley Hordeum vulgare l. Subtilisin-Chymotrypsin Inhibitor-2a Hordeum Vulg...ray; I=20-83.|PDB; 1YPC; X-ray; I=20-83.|PDB; 2CI2; X-ray; I=1-83.|PDB; 2SNI; X-ray; I=1-83.|PDB; 3CI2; NMR;... Length: 83 AA, Molecular weight: 9250 Da SSVEKKPEGVNTGAGDRHNLKTEWPELVGKSVEEAKKVILQDKPEAQIIVLPVGTIVTMEYRIDRVRLFVDKLDNIAQVPRVG barley_3CI2.jpg ...

  16. NCBI nr-aa BLAST: CBRC-SCER-05-0001 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available otide reductase large subunit 1) (Ribonucleotide reductase R1 subunit 1) pdb|1ZYZ|A Chain A, Structures Of Yeast Ribonucloe...tide Reductase I pdb|1ZYZ|B Chain B, Structures Of Yeast Ribonucloetide Reductase I pdb|1ZZD|

  17. Main: 1JTB [RPSD[Archive

    Lifescience Database Archive (English)

    Full Text Available 1JTB 大麦 Barley Hordeum vulgare l. Nonspecific Lipid-Transfer Protein 1 Precursor Na...ALT_SEQ.|PIR; S20507; S20507.|PIR; T05947; T05947.|PDB; 1BE2; NMR; @=27-117.|PDB; 1JTB; NMR; @=27-117.|PDB; ...KMKPCLTYVQGGPGPSGECCNGVRDLHNQAQSSGDRQTVCNCLKGIARGIHNLNLNNAASIPSKCNVNVPYTISPDIDCSRIY barley_1JTB.jpg ...

  18. BLOCKS List - DB-SPIRE | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available his entry blocks3dSeqChainFamilySize Number of PDB chains whose SEQRES matches this entry blocks3dAtomIdFami...lySize Number of PDB entries whose ATOM matches this entry blocks3dAtomChainFamilySize Number of PDB chains

  19. Main: 3GCC [RPSD[Archive

    Lifescience Database Archive (English)

    Full Text Available 3GCC シロイヌナズナ Arabidopsis Arabidopsis thaliana (L.) Heynh. Ethylene Responsive Eleme...AY062533; AAL32611.1; -.|EMBL; BT002578; AAO00938.1; -.|PDB; 1GCC; NMR; A=144-206.|PDB; 2GCC; NMR; @=141-210.|PDB; 3GC...EDAALAYDRAAFRMRGSRALLNFPLRVNSGEPDPVRIKSKRSSFSSSNENGAPKKRRTVAAGGGMDKGLTVKCEVVEVARGDRLLVL arabi_3GCC.jpg ...

  20. Main: 1WGC [RPSD[Archive

    Lifescience Database Archive (English)

    Full Text Available 1WGC 小麦 Bread Wheat Triticum aestivum Agglutinin Isolectin 1 Precursor Triticum Aes...256.1; -.|PIR; S09623; S09623.|PDB; 1WGC; X-ray; A/B=27-197.|PDB; 2CWG; X-ray; A/B=27-197.|PDB; 7WGA; X-ray;...RCGEQGSNMECPNNLCCSQYGYCGMGGDYCGKGCQNGACWTSKRCGSQAGGATCTNNQCCSQYGYCGFGAEYCGAGCQGGPCRADIKCGSQAGGKLCPNNLCCSQWGFCGLGSEFCGGGC...QSGACSTDKPCGKDAGGRVCTNNYCCSKWGSCGIGPGYCGAGCQSGGCDGVFAEAITANSTLLQE wheat_1WGC.jpg ...

  1. Main: 2GCC [RPSD[Archive

    Lifescience Database Archive (English)

    Full Text Available 2GCC シロイヌナズナ Arabidopsis Arabidopsis thaliana (L.) Heynh. Ethylene Responsive Eleme...AY062533; AAL32611.1; -.|EMBL; BT002578; AAO00938.1; -.|PDB; 1GCC; NMR; A=144-206.|PDB; 2GCC; NMR; @=141-210.|PDB; 3GC...ARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPLRVNSGEPDPVRIKSKRSSFSSSNENGAPKKRRTVAAGGGMDKGLTVKCEVVEVARGDRLLVL arabi_2GCC.jpg ...

  2. Main: 1TA3 [RPSD[Archive

    Lifescience Database Archive (English)

    Full Text Available 1TA3 小麦 Bread Wheat Triticum aestivum Xylanase Inhibitor Protein I Precursor. Name=...479.1; -.|PDB; 1OM0; X-ray; A=31-304.|PDB; 1TA3; X-ray; A=-.|PDB; 1TE1; X-ray; A=...CGYPPAAHVGRALATGIFERAHVRTYESDKWCNQNLGWEGSWDKWTAAYPATRFYVGLTADDKSHQWVHPKNVYYGVAPVAQKKDNYGGIMLWDRYFDKQTNYSSLIKYYA wheat_1TA3.jpg ...

  3. NCBI nr-aa BLAST: CBRC-TTRU-01-0246 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-TTRU-01-0246 pdb|3EI4|A Chain A, Structure Of The Hsddb1-Hsddb2 Complex pdb|3E...I4|C Chain C, Structure Of The Hsddb1-Hsddb2 Complex pdb|3EI4|E Chain E, Structure Of The Hsddb1-Hsddb2 Complex 3EI4 1e-25 82% ...

  4. Chemical and isotopic study of thermal springs and gas discharges from Sierra de Chiapas, Mexico

    Energy Technology Data Exchange (ETDEWEB)

    Nencetti, A; Tassi, F; Vaselli, O [Department of Earth Sciences, Florence (Italy); Macias, J. L [Instituto de Geofisica, Universidad Nacional Autonoma de Mexico, D.F. (Mexico); Magro, G [CNR-Institute of Geosciences and Earth Resources, Pisa (Italy); Capaccioni, B [Institute of Volcanology and Geochemistry, Urbino (Italy); Minissale, A [CNR-Institute of Geosciences and Earth Resources, Florence (Italy); Mora, J. C [Instituto de Geofisica, Universidad Nacional Autonoma de Mexico, D.F. (Mexico)

    2005-01-15

    (SDT <250mg/L). La mayoria de estas aguas estan asociadas con descargas de gas compuestas por N{sub 2} (hasta 93 % en vol.), CO{sub 2} (2.4-31.2 % en vol.) y Ar (hasta 1.25 % en vol.) con origen predominantemente meteorico. H{sub 2}S aparece unicamente en las muestras de gas colectadas en El Azufre (hasta 1.1 % en vol.). Los valores de {delta}{sup 1}3C-CO{sub 2} comunmente inferiores a -9.7% (PDB) sugieren un origen parcialmente biogenico del CO{sub 2}. Los parametros quimicos e isotopicos de los manantiales indican que la circulacion de fluidos en la Sierra de Chiapas se regula principalmente por la infiltracion de aguas meteoricas en rocas carbonatadas del Cretacico medio-tardio hasta las formaciones evaporiticas del Jurasico tardio-Cretacico temprano. Estas ultimas representan la fuente principal de las especies en solucion de las aguas. No se encontraron evidencias de la presencia de sistemas con entalpias medias a altas por debajo de la Sierra de Chiapas.

  5. Investigations of the ratios of stable carbon isotopes in atmospheric relevant VOC using simulation and field experiments; Untersuchungen der Verhaeltnisse stabiler Kohlenstoffisotope in atmosphaerisch relevanten VOC in Simulations- und Feldexperimenten

    Energy Technology Data Exchange (ETDEWEB)

    Spahn, Holger

    2010-07-01

    Volatile organic compounds (VOC) play an important role in the regional and global atmospheric chemistry. The author of the contribution under consideration reports on the analysis of the ratios of stable carbon isotopes ({delta}({sup 13}C) analysis) in atmospheric VOCs. At first, the state of the art of this analytical technique is described. For the first time {delta}({sup 13}C) values of different monoterpenes have been determined in the investigation of vegetable emissions at a plant chamber. By means of the oxidation of {beta}-pinene by ozone in an aerosol chamber, the kinetic isotope effect of this reaction was determined. In southern Germany, air samples for the {delta}({sup 13}C) analysis were collected using a zeppelin. This enables a height-resolved measurement of {delta}({sup 13}C) values. Based on these measurements, the average photochemical age for methanol, toluene and p-xylene at different heights was calculated.

  6. Estimation of precipitation rates by measurements of {sup 36}Cl in the GRIP ice core with the PSI/ETH tandem accelerator

    Energy Technology Data Exchange (ETDEWEB)

    Wagner, G.; Baumgartner, S.; Beer, J. [EAWAG, Duebendorf (Switzerland); Synal, H.A. [Paul Scherrer Inst. (PSI), Villigen (Switzerland); Suter, M. [Eidgenoessische Technische Hochschule, Zurich (Switzerland)

    1997-09-01

    Within the European Greenland ice core project (GRIP) {sup 36}Cl AMS measurements have been performed on ice core samples from Summit (Greenland, 73{sup o}N, 37{sup o}W). Most data analysed so far are from the lower part of the ice core. The {sup 36}Cl concentration is well correlated with {delta}{sup 18}O, which is considered as a proxy for paleotemperatures. Assuming that the deposition rate of radionuclides is independent of {delta}{sup 18}O, {sup 36}Cl is used to estimate the relationship between accumulation and {delta}{sup 18}O. The results confirm that the rapid changes of {delta}{sup 18}O, the so-called Dansgaard-Oeschger events, are also reflected in the precipitation rate. (author) 1 fig., 3 refs.

  7. The fate of nitrogen and sulfur in hard-rock aquifers as shown by sulfate-isotope tracing

    Energy Technology Data Exchange (ETDEWEB)

    Pauwels, Helene, E-mail: h.pauwels@brgm.fr [BRGM, Water Division, BP 36009, 45060 Orleans Cedex 2 (France); Ayraud-Vergnaud, Virginie [BRGM, Water Division, BP 36009, 45060 Orleans Cedex 2 (France)] [CAREN-Geosciences, UMR 6118, Universite Rennes 1-CNRS, Rennes (France); Aquilina, Luc [CAREN-Geosciences, UMR 6118, Universite Rennes 1-CNRS, Rennes (France); Molenat, Jerome [CAREN-UMR INRA-Agrocampus Sol Agronomie Spatialisation, Rennes (France)] [IRD-Laboratoire d' etude des Interactions Sol-Agrosystemes-Hydrosystemes, UMR INRA-IRD-Supagro, Montpellier (France)

    2010-01-15

    Stable SO{sub 4} isotopes ({delta}{sup 34}S{sub -SO4} and {delta}{sup 18}O{sub -SO4}), and more occasionally {delta}{sup 15}N{sub -NO3} were studied in groundwater from seven hard-rock aquifer catchments. The sites are located in Brittany (France) and all are characterized by intensive agricultural activity. The purpose of the study was to investigate the potential use of these isotopes for highlighting the fate of both SO{sub 4} and NO{sub 3} in the different aquifer compartments. Nitrate-contaminated groundwater occurs in the regolith; {delta}{sup 34}S fingerprints the origin of SO{sub 4}, such as atmospheric deposition and fertilizers, and {delta}{sup 18}O{sub -SO4} provides evidence of the cycling of S within soil. The correlation between the {delta}{sup 18}O{sub -SO4} of sulfates and the {delta}{sup 15}N{sub -NO3} of nitrates suggests that S and N were both cycled in soil before being leached to groundwater. Autotrophic and heterotrophic denitrification was noted in fissured aquifers and in wetlands, respectively, the two processes being distinguished on the basis of stable SO{sub 4} isotopes. During autotrophic denitrification, both {delta}{sup 34}S{sub -SO4} and {delta}{sup 18}O{sub -SO4} decrease due to the oxidation of pyrite and the incorporation of O from the NO{sub 3} molecule in the newly formed SO{sub 4}. Within wetlands, fractionation occurs of O isotopes on SO{sub 4} in favour of lighter isotopes, probably through reductive assimilation processes. Fractionation of S isotopes is negligible as the redox conditions are not sufficiently reductive for dissimilatory reduction. {delta}{sup 34}S{sub -SO4} and {delta}{sup 18}O{sub -SO4} data fingerprint the presence of a NO{sub 3}-free brackish groundwater in the deepest parts of the aquifer. Through mixing with present-day denitrified groundwater, this brackish groundwater can contribute to significantly increase the salinity of pumped water from the fissured aquifer.

  8. NCBI nr-aa BLAST: CBRC-TBEL-01-0595 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available pdb|2I35|A Chain A, Crystal Structure Of Rhombohedral Crystal Form Of Ground- State Rhodopsin pdb|2I36|A Cha...in A, Crystal Structure Of Trigonal Crystal Form Of Ground-State Rhodopsin pdb|2I36|B Chain B, Crystal Struc...ture Of Trigonal Crystal Form Of Ground-State Rhodopsin pdb|2I36|C Chain C, Cryst...al Structure Of Trigonal Crystal Form Of Ground-State Rhodopsin pdb|2I37|A Chain A, Crystal Structure Of A P

  9. Gene : CBRC-BTAU-01-2416 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available ographic Model Of Lumirhodopsin pdb|2I35|A Chain A, Crystal Structure Of Rhombohedral Crystal Form Of Ground- State... Rhodopsin pdb|2I36|A Chain A, Crystal Structure Of Trigonal Crystal Form Of Ground-State Rhodopsin p...db|2I36|B Chain B, Crystal Structure Of Trigonal Crystal Form Of Ground-State Rho...dopsin pdb|2I36|C Chain C, Crystal Structure Of Trigonal Crystal Form Of Ground-State Rhodopsin pdb|2I37|A C

  10. NCBI nr-aa BLAST: CBRC-BTAU-01-2416 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available pdb|2I35|A Chain A, Crystal Structure Of Rhombohedral Crystal Form Of Ground- State Rhodopsin pdb|2I36|A Cha...in A, Crystal Structure Of Trigonal Crystal Form Of Ground-State Rhodopsin pdb|2I36|B Chain B, Crystal Struc...ture Of Trigonal Crystal Form Of Ground-State Rhodopsin pdb|2I36|C Chain C, Cryst...al Structure Of Trigonal Crystal Form Of Ground-State Rhodopsin pdb|2I37|A Chain A, Crystal Structure Of A P

  11. Seasonally Resolved Surface Water (delta)14C Variability in the Lombok Strait: A Coralline Perspective

    Energy Technology Data Exchange (ETDEWEB)

    Guilderson, T P; Fallon, S J; Moore, M D; Schrag, D P; Charles, C D

    2008-04-23

    We have explored surface water mixing in the Lombok Strait through a {approx}bimonthly resolved surface water {Delta}{sup 14}C time-series reconstructed from a coral in the Lombok Strait that spans 1937 through 1990. The prebomb surface water {Delta}{sup 14}C average is -60.5{per_thousand} and individual samples range from -72{per_thousand} to 134{per_thousand}. The annual average post-bomb maximum occurs in 1973 and is 122{per_thousand}. The timing of the post-bomb maximum is consistent with a primary subtropical source for the surface waters in the Indonesian Seas. During the post-bomb period the coral records regular seasonal cycles of 5-20{per_thousand}. Seasonal high {Delta}{sup 14}C occur during March-May (warm, low salinity), and low {Delta}{sup 14}C occur in September (cool, higher salinity). The {Delta}{sup 14}C seasonality is coherent and in phase with the seasonal {Delta}{sup 14}C cycle observed in Makassar Strait. We estimate the influence of high {Delta}{sup 14}C Makassar Strait (North Pacific) water flowing through the Lombok Strait using a two endmember mixing model and the seasonal extremes observed at the two sites. The percentage of Makassar Strait water varies between 16 and 70%, and between 1955 and 1990 it averages 40%. During La Nina events there is a higher percentage of Makassar Strait (high {Delta}{sup 14}C) water in the Lombok Strait.

  12. Temperature and vital effect controls on Bamboo coral (Isididae) isotopegeochemistry: A test of the "lines method"

    Energy Technology Data Exchange (ETDEWEB)

    Hill, T M; Spero, H J; Guilderson, T P; LaVigne, M; Clague, D; Macalello, S; Jang, N

    2011-03-01

    Deep-sea bamboo corals hold promise as long-term climatic archives, yet little information exists linking bamboo coral geochemistry to measured environmental parameters. This study focuses on a suite of 10 bamboo corals collected from the Pacific and Atlantic basins (250-2136 m water depth) to investigate coral longevity, growth rates, and isotopic signatures. Calcite samples for stable isotopes and radiocarbon were collected from the base the corals, where the entire history of growth is recorded. In three of the coral specimens, samples were also taken from an upper branch for comparison. Radiocarbon and growth band width analyses indicate that the skeletal calcite precipitates from ambient dissolved inorganic carbon and that the corals live for 150-300 years, with extension rates of 9-128 {micro}m/yr. A linear relationship between coral calcite {delta}{sup 18}O and {delta}{sup 13}C indicates that the isotopic composition is influenced by vital effects ({delta}{sup 18}O:{delta}{sup 13}C slope of 0.17-0.47). As with scleractinian deep-sea corals, the intercept from a linear regression of {delta}{sup 18}O versus {delta}{sup 13}C is a function of temperature, such that a reliable paleotemperature proxy can be obtained, using the 'lines method.' Although the coral calcite {delta}{sup 18}O:{delta}{sup 13}C slope is maintained throughout the coral base ontogeny, the branches and central cores of the bases exhibit {delta}{sup 18}O:{delta}{sup 13}C values that are shifted far from equilibrium. We find that a reliable intercept value can be derived from the {delta}{sup 18}O:{delta}{sup 13}C regression of multiple samples distributed throughout one specimen or from multiple samples within individual growth bands.

  13. Stable isotopic composition of deep sea gorgonian corals (Primnoa spp.): a new archive of surface processes.

    Energy Technology Data Exchange (ETDEWEB)

    Sherwood, O A; Heikoop, J M; Scott, D B; Risk, M J; Guilderson, T P; McKinney, R A

    2005-02-03

    The deep-sea gorgonian coral Primnoa spp. lives in the Atlantic and Pacific Oceans at depths of 65-3200 m. This coral has an arborescent growth form with a skeletal axis composed of annual rings made from calcite and gorgonin. It has a lifespan of at least several hundred years. It has been suggested that isotopic profiles from the gorgonin fraction of the skeleton could be used to reconstruct long-term, annual-scale variations in surface productivity. We tested assumptions about the trophic level, intra-colony isotopic reproducibility, and preservation of isotopic signatures in a suite of modern and fossil specimens. Measurements of gorgonin {Delta}{sup 14}C and {delta}{sup 15}N indicate that Primnoa spp. feed mainly on zooplankton and/or sinking particulate organic matter (POM{sub SINK}), and not on suspended POM (POM{sub SUSP}) or dissolved organic carbon (DOC). Gorgonin {delta}{sup 13}C and {delta}{sup 15}N in specimens from NE Pacific shelf waters, NW Atlantic slope waters, the Sea of Japan, and a South Pacific (Southern Ocean sector) seamount were strongly correlated with Levitus 1994 surface apparent oxygen utilization (AOU; the best available measure of surface productivity), demonstrating coupling between skeletal isotopic ratios and biophysical processes in surface water. Time-series isotopic profiles from different sections along the same colony were identical for {delta}{sup 13}C, while {delta}{sup 15}N profiles became more dissimilar with increasing separation along the colony axis. Similarity in C:N, {delta}{sup 13}C and {delta}{sup 15}N between modern and fossil specimens suggest that isotopic signatures are preserved over millennial timescales. Finally, the utility of this new archive was demonstrated by reconstruction of 20th century bomb radiocarbon.

  14. NCBI nr-aa BLAST: CBRC-CJAC-01-0391 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available ain B, Tubulin:stathmin-Like Domain Complex pdb|1FFX|D Chain D, Tubulin:stathmin-Like Domain Complex pdb|1JF...|B Chain B, Kif1a Head-Microtubule Complex Structure In Atp-Form pdb|1SA0|B Chain... B, Tubulin-Colchicine: Stathmin-Like Domain Complex pdb|1SA0|D Chain D, Tubulin-Colchicine: Stathmin-Like Domain Complex... pdb|1SA1|B Chain B, Tubulin-Podophyllotoxin: Stathmin-Like Domain Complex pdb|1SA1|D Chain D, ...Tubulin-Podophyllotoxin: Stathmin-Like Domain Complex pdb|2HXF|B Chain B, Kif1a Head-Microtubule Complex

  15. Characteristics of radial growth and stable isotopes in a single oak tree to be used in climate studies

    Energy Technology Data Exchange (ETDEWEB)

    Weigl, Martin [Competence Center for Wood Composites and Wood Chemistry, Competence Center Wood GmbH, St.-Peter-Str. 25, A-4021 Linz (Austria); University of Natural Resources and Applied Life Sciences, Vienna, Department of Material Sciences and Process Engineering, Peter Jordan Str. 82, A-1190 Vienna (Austria)], E-mail: m.weigl@kplus-wood.at; Grabner, Michael [University of Natural Resources and Applied Life Sciences, Vienna, Department of Material Sciences and Process Engineering, Peter Jordan Str. 82, A-1190 Vienna (Austria); Helle, Gerhard; Schleser, Gerhard H. [Institute for Chemistry and Dynamics of the Geosphere, ICG-V: Sedimentary Systems, Research Centre Juelich (FZJ), Leo-Brandt-Strasse D-52425 Juelich (Germany); Wimmer, Rupert [University of Natural Resources and Applied Life Sciences, Vienna, Department of Material Sciences and Process Engineering, Peter Jordan Str. 82, A-1190 Vienna (Austria)

    2008-04-01

    In this study we have analyzed the variability of tree-ring widths and stable isotopes ({delta}{sup 13}C and {delta}{sup 18}O) of a single sessile oak tree (Quercus petraea (Matt.) Liebl.) since these parameters are critical in reconstructing the environment, particularly climatic conditions. Tree rings were separated into early- and latewood (EW{sub t}; LW{sub t}), tree ring (TR{sub t}), and transfer tree ring (TTR{sub t}, the latter being the latewood plus the earlywood of the subsequent year. Mean sensitivity, simple correlation, partial correlation and autocorrelation analyses were applied to describe data and relationships. Although this research focused on a single tree, the results compared well with average site data. Widths and {delta}{sup 18}O values showed generally low autocorrelation for all tree-ring components, whereas {delta}{sup 13}C revealed highly significant autocorrelations for most tree-ring components. Mean sensitivity of the standardized values turned out to be high for {delta}{sup 18}O, marginally lower for width and the lowest for {delta}{sup 13}C. Correlation analyses have proven that the relationships within the tree-ring widths or within the isotope parameters are much stronger than across widths and isotope parameters. The study demonstrates the unique potential of all measured tree-ring data to be used as climate proxies.

  16. An environmental record of changes in sedimentary organic matter from Lake Sattal in Kumaun Himalayas, India

    Energy Technology Data Exchange (ETDEWEB)

    Choudhary, Preetam [Department of Earth Sciences, Indian Institute of Technology Roorkee, Roorkee 247667 (India); Routh, Joyanto [Department of Geology and Geochemistry, Stockholm University, 10691 Stockholm (Sweden)], E-mail: joyanto.routh@geo.su.se; Chakrapani, Govind J. [Department of Earth Sciences, Indian Institute of Technology Roorkee, Roorkee 247667 (India)

    2009-04-01

    Sattal a small mountainous lake in the Kumaun Himalayas has been impacted by various cultural activities in recent years. We explored the effects of human-induced changes in this lake by using various geochemical proxies. Shifts in TOC and N flux, C/N ratio, stable isotopes ({delta}{sup 13}C and {delta}{sup 15}N), n-alkane, and pigment concentrations in sediments indicate a steady increase in primary productivity over the last few decades. The trophic status of the lake has changed from mesotrophic to eutrophic condition. The C/N, CPI, and TAR based ratios in sediments indicate accumulation of algal matter derived primarily from in situ production, with limited input of terrestrial organic matter from the watershed. The low (between 0.1 and 1 per mille ) {delta}{sup 15}N values imply N{sub 2}-fixation by cyanobacteria, and the decrease in {delta}{sup 13}C values up-core represent the effect of sewage input and land based runoff, or possible contribution from microbial biomass. The pigments change from non-N{sub 2} fixing cyanobacterial species to the N{sub 2}-fixing community, and are consistent with the proxy-based productivity shifts inferred in the lake. The deeper sediments are affected by post-diagenetic changes causing an increase in {delta}{sup 13}C (and possibly {delta}{sup 15}N) due to mineralization of organic C and N.

  17. ASE extraction method for simultaneous carbon and nitrogen stable isotope analysis in soft tissues of aquatic organisms

    Energy Technology Data Exchange (ETDEWEB)

    Bodin, Nathalie [ISM/LPTC, UMR 5255 CNRS, Universite de Bordeaux 1, 351 Cours de la Liberation, 33405 Talence (France); CRH, UMR 212 EME, Institut de Recherche et de Developpement, Av Jean Monnet BP171, 34203 Sete (France); Budzinski, Helene, E-mail: h.budzinski@ism.u-bordeaux1.fr [ISM/LPTC, UMR 5255 CNRS, Universite de Bordeaux 1, 351 Cours de la Liberation, 33405 Talence (France); Le Menach, Karyn; Tapie, Nathalie [ISM/LPTC, UMR 5255 CNRS, Universite de Bordeaux 1, 351 Cours de la Liberation, 33405 Talence (France)

    2009-06-08

    Since lipids are depleted in {sup 13}C relative to proteins and carbohydrates, variations in lipid composition among species and within individuals significantly influence {delta}{sup 13}C and may result in misleading ecological interpretations. Whereas lipid extraction before IRMS analysis constitutes a way of stable isotope result lipid-normalisation, such a procedure was given up because of the un-controlled effects of the methods used (i.e., 'Bligh and Dyer', Soxhlet, etc.) on {delta}{sup 15}N. The aim of this work was to develop a simple, rapid and efficient lipid extraction method allowing for simultaneous C and N stable isotope analysis in the biological soft tissues of aquatic organisms. The goal was to be free from the lipid influence on {delta}{sup 13}C values without interfering with {delta}{sup 15}N values. For that purpose, the modern automated pressurized liquid extraction technique ASE (accelerated solvent extraction) was selected. Eel muscles representative of a broad range of fat contents were extracted via ASE by using different semi-polar solvents (100% dichloromethane and 80% n-hexane/20% acetone) and by operating at different temperature (ambient temperature and 100 deg. C) and pressure (750 and 1900 psi) conditions. The results were discussed in terms of lipid extraction efficiency as well as {delta}{sup 13}C and {delta}{sup 15}N variability.

  18. Pooled versus separate measurements of tree-ring stable isotopes

    Energy Technology Data Exchange (ETDEWEB)

    Dorado Linan, Isabel, E-mail: isabel@gfz-potsdam.de [Universitat de Barcelona, Departament d' Ecologia, Diagonal 645, 08028, Barcelona (Spain); German Centre for Geosciences, Climate Dynamics and Landscape Evolution, Dendro Laboratory, Telegrafenberg, 14473, Potsdam (Germany); Gutierrez, Emilia, E-mail: emgutierrez@ub.edu [Universitat de Barcelona, Departament d' Ecologia, Diagonal 645, 08028, Barcelona (Spain); Helle, Gerhard, E-mail: ghelle@gfz-potsdam.de [German Centre for Geosciences, Climate Dynamics and Landscape Evolution, Dendro Laboratory, Telegrafenberg, 14473, Potsdam (Germany); Heinrich, Ingo, E-mail: heinrich@gfz-potsdam.de [German Centre for Geosciences, Climate Dynamics and Landscape Evolution, Dendro Laboratory, Telegrafenberg, 14473, Potsdam (Germany); Andreu-Hayles, Laia, E-mail: laiandreu@ub.edu [Universitat de Barcelona, Departament d' Ecologia, Diagonal 645, 08028, Barcelona (Spain); Tree-Ring Laboratory, Lamont-Doherty Earth Observatory of Columbia University, Palisades NY (United States); Planells, Octavi, E-mail: leocarpus@hotmail.com [Universitat de Barcelona, Departament d' Ecologia, Diagonal 645, 08028, Barcelona (Spain); Leuenberger, Markus, E-mail: leuenberger@climate.unibe.ch [Climate and Environmental Physics, Physics Institute, University of Bern, Sidlerstrasse 5, 3012 Bern (Switzerland); Oeschger Centre of Climate Change Research, University of Bern, Zaehringerstrasse 25, 3012 Bern (Switzerland); Buerger, Carmen, E-mail: buerger@gfz-potsdam.de [German Centre for Geosciences, Climate Dynamics and Landscape Evolution, Dendro Laboratory, Telegrafenberg, 14473, Potsdam (Germany); Schleser, Gerhard, E-mail: schleser@gfz-potsdam.de [German Centre for Geosciences, Climate Dynamics and Landscape Evolution, Dendro Laboratory, Telegrafenberg, 14473, Potsdam (Germany)

    2011-05-01

    {delta}{sup 13}C and {delta}{sup 18}O of tree rings contain time integrated information about the environmental conditions weighted by seasonal growth dynamics and are well established as sources of palaeoclimatic and ecophysiological data. Annually resolved isotope chronologies are frequently produced by pooling dated growth rings from several trees prior to the isotopic analyses. This procedure has the advantage of saving time and resources, but precludes from defining the isotopic error or statistical uncertainty related to the inter-tree variability. Up to now only a few studies have compared isotope series from pooled tree rings with isotopic measurements from individual trees. We tested whether or not the {delta}{sup 13}C and the {delta}{sup 18}O chronologies derived from pooled and from individual tree rings display significant differences at two locations from the Iberian Peninsula to assess advantages and constraints of both methodologies. The comparisons along the period 1900-2003 reveal a good agreement between pooled chronologies and the two mean master series which were created by averaging raw individual values (Mean) or by generating a mass calibrated mean (MassC). In most of the cases, pooled chronologies show high synchronicity with averaged individual samples at interannual scale but some differences also show up especially when comparing {delta}{sup 18}O decadal to multi-decadal variations. Moreover, differences in the first order autocorrelation among individuals may be obscured by pooling strategies. The lack of replication of pooled chronologies prevents detection of a bias due to a higher mass contribution of one sample but uncertainties associated with the analytical process itself, as sample inhomogeneity, seems to account for the observed differences. - Research Highlights: {yields} Pooled {delta}{sup 13}C and {delta}{sup 18}O chronologies are expected to be similar to the mean. {yields} Empirical pooled chronologies {delta}{sup 13}C and

  19. Carbon isotope systematics of a mantle 'hotspot': A comparison of Loihi Seamount and MORB glasses

    Energy Technology Data Exchange (ETDEWEB)

    Exley, R.A.; Mattey, D.P.; Pillinger, C.T.; Clague, D.A.

    1986-06-01

    The carbon isotope geochemistry of glasses from Loihi Seamount has been compared with that of MORB glasses. Stepped heating shows two carbon components in both sample suites: 1. isotopically light carbon (avg. delta/sup 13/C=-26.3per mille) released <600/sup 0/C, ascribed to surficial contamination, and 2. isotopically heavy carbon released >600/sup 0/C, regarded as indigenous. The high-temperature component in MORB samples varied from 52 to 169 ppm C, average delta/sup 13/C=-6.6per mille, consistent with previous studies (overall MORB average delta/sup 13/C=-6.4 +- 0.9per mille), and new results for Indian Ocean glasses are similar to Atlantic and Pacific Ocean samples. Carbon release profiles produced by stepped heating may be typical of locality, but there are no significant differences in delta/sup 13/C values between MORB samples from different areas. Lower yields (17-110 ppm C) correlated with depth in the Loihi samples suggest that they are partially degassed. This degassing has not affected delta/sup 13/C values significantly (avg. -5.8per mille). Loihi tholeiites have higher delta/sup 13/C (avg. -5.6per mille) than the alkali basalts (avg. -7.1per mille). Carbon abundances correlate well with He concentration data. Comparison of the delta/sup 13/C values with trace element and He, Sr, Nd, and Pb isotope data from the literature suggests that the Loihi samples with highest delta/sup 13/C have high /sup 3/He//sup 4/He and possibly the least depleted /sup 143/Nd//sup 144/Nd and /sup 87/Sr//sup 86/Sr. The carbon isotope data are consistent with previous models for Loihi involving several mantle sources, lithospheric contamination, and mixing. The slightly higher delta/sup 13/C of Loihi tholeiites suggests that the undegassed ''plume'' component manifested by high /sup 3/He//sup 4/He values might have delta/sup 13/C about 1per mille higher than the MORB average.

  20. Radiological features of Paget disease of bone associated with VCP myopathy

    Energy Technology Data Exchange (ETDEWEB)

    Farpour, Farzin [University of California, Department of Radiology, VA Long Beach Health Care, Irvine, CA (United States); Queens Hospital Center, Mount Sinai School of Medicine, New York, NY (United States); Tehranzadeh, Jamshid [University of California, Department of Radiology, VA Long Beach Health Care, Irvine, CA (United States); Donkervoort, Sandra; Vanjara, Pari [University of California, Division of Genetics and Metabolism, Department of Pediatrics, Irvine, CA (United States); Smith, Charles [University of Kentucky, Department of Neurology and Sanders-Brown Center on Aging, Lexington, KY (United States); Martin, Barbara [University of Kentucky, Lexington, KY (United States); Osann, Kathryn [University of California, Department of Medicine, Division of Hematology/Oncology, Irvine, CA (United States); Kimonis, Virginia E. [University of California, Division of Genetics and Metabolism, Department of Pediatrics, Irvine, CA (United States); UC Irvine Medical Center, Division of Genetics and Metabolism, Orange, CA (United States)

    2012-03-15

    Mutations in the Valosin-containing protein (VCP) gene cause a unique disorder characterized by classic Paget disease of bone (PDB), inclusion body myopathy, and frontotemporal dementia (IBMPFD). Our objective was to analyze the radiographic features of PDB associated with VCP mutations since there is a dearth of literature on the PDB component of VCP disease. Radiographic bone surveys were examined in 23 individuals with VCP mutation and compared with their unaffected relatives. Laboratory testing relevant for VCP disease was performed in all individuals. Of the 17 affected individuals with clinical manifestations of VCP disease, 16 of whom had myopathy, radiographic analysis revealed classic PDB in 11 individuals (65%). The mean age of diagnosis for myopathy was 43.8 years and for PDB was 38.1 years of age. Radiological evidence of PDB was seen in one individual (16%) amongst six clinically asymptomatic VCP mutation carriers. Alkaline phosphatase was a useful marker for diagnosing PDB in VCP disease. Radiographic findings of classic PDB are seen in 52% of individuals carrying VCP mutations at a significantly younger age than conventional PDB. Screening for PDB is warranted in at-risk individuals because of the benefit of early treatment with the new powerful bisphosphonates that hold the potential for prevention of disease. (orig.)

  1. NCBI nr-aa BLAST: CBRC-TTRU-01-0305 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-TTRU-01-0305 pdb|2QW9|A Chain A, Crystal Structure Of Bovine Hsc70 (1-394aa)in... The Apo State pdb|2QW9|B Chain B, Crystal Structure Of Bovine Hsc70 (1-394aa)in The Apo State pdb|2QWL|A Chain A, Crystal Structure... Of Bovine Hsc70 (1-394aa)in The Adp State pdb|2QWL|B Chain B, Crystal Structure Of ...Bovine Hsc70 (1-394aa)in The Adp State pdb|2QWM|A Chain A, Crystal Structure Of B...ovine Hsc70 (1-394aa)in The AdpVi State pdb|2QWM|B Chain B, Crystal Structure Of Bovine Hsc70 (1-394aa)in The AdpVi State 2QW9 1e-117 91% ...

  2. NCBI nr-aa BLAST: CBRC-MDOM-07-0085 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MDOM-07-0085 pdb|3E6U|A Chain A, Crystal Structure Of Human Lancl1 pdb|3E6U|C Chain C, Crystal Structur...e Of Human Lancl1 pdb|3E6U|B Chain B, Crystal Structure Of Human Lancl1 pdb|3E6U|D Chain D, Crystal Structur...e Of Human Lancl1 pdb|3E73|A Chain A, Crystal Structure Of Human Lancl1 Complexed W...ith Gsh pdb|3E73|B Chain B, Crystal Structure Of Human Lancl1 Complexed With Gsh 3E6U 0.0 83% ...

  3. NCBI nr-aa BLAST: CBRC-GGOR-01-0343 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-GGOR-01-0343 pdb|3E6U|A Chain A, Crystal Structure Of Human Lancl1 pdb|3E6U|C Chain C, Crystal Structur...e Of Human Lancl1 pdb|3E6U|B Chain B, Crystal Structure Of Human Lancl1 pdb|3E6U|D Chain D, Crystal Structur...e Of Human Lancl1 pdb|3E73|A Chain A, Crystal Structure Of Human Lancl1 Complexed W...ith Gsh pdb|3E73|B Chain B, Crystal Structure Of Human Lancl1 Complexed With Gsh 3E6U 1e-123 76% ...

  4. NCBI nr-aa BLAST: CBRC-TTRU-01-0061 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-TTRU-01-0061 pdb|3E6U|A Chain A, Crystal Structure Of Human Lancl1 pdb|3E6U|C Chain C, Crystal Structur...e Of Human Lancl1 pdb|3E6U|B Chain B, Crystal Structure Of Human Lancl1 pdb|3E6U|D Chain D, Crystal Structur...e Of Human Lancl1 pdb|3E73|A Chain A, Crystal Structure Of Human Lancl1 Complexed W...ith Gsh pdb|3E73|B Chain B, Crystal Structure Of Human Lancl1 Complexed With Gsh 3E6U 0.0 91% ...

  5. NCBI nr-aa BLAST: CBRC-GGOR-01-0919 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-GGOR-01-0919 pdb|2QW9|A Chain A, Crystal Structure Of Bovine Hsc70 (1-394aa)in... The Apo State pdb|2QW9|B Chain B, Crystal Structure Of Bovine Hsc70 (1-394aa)in The Apo State pdb|2QWL|A Chain A, Crystal Structure... Of Bovine Hsc70 (1-394aa)in The Adp State pdb|2QWL|B Chain B, Crystal Structure Of ...Bovine Hsc70 (1-394aa)in The Adp State pdb|2QWM|A Chain A, Crystal Structure Of B...ovine Hsc70 (1-394aa)in The AdpVi State pdb|2QWM|B Chain B, Crystal Structure Of Bovine Hsc70 (1-394aa)in The AdpVi State 2QW9 1e-155 89% ...

  6. NCBI nr-aa BLAST: CBRC-PCAP-01-0873 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-PCAP-01-0873 pdb|3E6U|A Chain A, Crystal Structure Of Human Lancl1 pdb|3E6U|C Chain C, Crystal Structur...e Of Human Lancl1 pdb|3E6U|B Chain B, Crystal Structure Of Human Lancl1 pdb|3E6U|D Chain D, Crystal Structur...e Of Human Lancl1 pdb|3E73|A Chain A, Crystal Structure Of Human Lancl1 Complexed W...ith Gsh pdb|3E73|B Chain B, Crystal Structure Of Human Lancl1 Complexed With Gsh 3E6U 0.0 89% ...

  7. NCBI nr-aa BLAST: CBRC-MEUG-01-0749 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MEUG-01-0749 pdb|2QW9|A Chain A, Crystal Structure Of Bovine Hsc70 (1-394aa)in... The Apo State pdb|2QW9|B Chain B, Crystal Structure Of Bovine Hsc70 (1-394aa)in The Apo State pdb|2QWL|A Chain A, Crystal Structure... Of Bovine Hsc70 (1-394aa)in The Adp State pdb|2QWL|B Chain B, Crystal Structure Of ...Bovine Hsc70 (1-394aa)in The Adp State pdb|2QWM|A Chain A, Crystal Structure Of B...ovine Hsc70 (1-394aa)in The AdpVi State pdb|2QWM|B Chain B, Crystal Structure Of Bovine Hsc70 (1-394aa)in The AdpVi State 2QW9 1e-116 83% ...

  8. NCBI nr-aa BLAST: CBRC-OPRI-01-1265 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-OPRI-01-1265 pdb|3E6U|A Chain A, Crystal Structure Of Human Lancl1 pdb|3E6U|C Chain C, Crystal Structur...e Of Human Lancl1 pdb|3E6U|B Chain B, Crystal Structure Of Human Lancl1 pdb|3E6U|D Chain D, Crystal Structur...e Of Human Lancl1 pdb|3E73|A Chain A, Crystal Structure Of Human Lancl1 Complexed W...ith Gsh pdb|3E73|B Chain B, Crystal Structure Of Human Lancl1 Complexed With Gsh 3E6U 1e-102 57% ...

  9. NCBI nr-aa BLAST: CBRC-STRI-01-2401 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-STRI-01-2401 pdb|3E6U|A Chain A, Crystal Structure Of Human Lancl1 pdb|3E6U|C Chain C, Crystal Structur...e Of Human Lancl1 pdb|3E6U|B Chain B, Crystal Structure Of Human Lancl1 pdb|3E6U|D Chain D, Crystal Structur...e Of Human Lancl1 pdb|3E73|A Chain A, Crystal Structure Of Human Lancl1 Complexed W...ith Gsh pdb|3E73|B Chain B, Crystal Structure Of Human Lancl1 Complexed With Gsh 3E6U 0.0 91% ...

  10. NCBI nr-aa BLAST: CBRC-MEUG-01-1112 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MEUG-01-1112 pdb|3E6U|A Chain A, Crystal Structure Of Human Lancl1 pdb|3E6U|C Chain C, Crystal Structur...e Of Human Lancl1 pdb|3E6U|B Chain B, Crystal Structure Of Human Lancl1 pdb|3E6U|D Chain D, Crystal Structur...e Of Human Lancl1 pdb|3E73|A Chain A, Crystal Structure Of Human Lancl1 Complexed W...ith Gsh pdb|3E73|B Chain B, Crystal Structure Of Human Lancl1 Complexed With Gsh 3E6U 1e-128 58% ...

  11. NCBI nr-aa BLAST: CBRC-PVAM-01-1319 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-PVAM-01-1319 pdb|3E6U|A Chain A, Crystal Structure Of Human Lancl1 pdb|3E6U|C Chain C, Crystal Structur...e Of Human Lancl1 pdb|3E6U|B Chain B, Crystal Structure Of Human Lancl1 pdb|3E6U|D Chain D, Crystal Structur...e Of Human Lancl1 pdb|3E73|A Chain A, Crystal Structure Of Human Lancl1 Complexed W...ith Gsh pdb|3E73|B Chain B, Crystal Structure Of Human Lancl1 Complexed With Gsh 3E6U 0.0 92% ...

  12. NCBI nr-aa BLAST: CBRC-VPAC-01-1237 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-VPAC-01-1237 pdb|3E6U|A Chain A, Crystal Structure Of Human Lancl1 pdb|3E6U|C Chain C, Crystal Structur...e Of Human Lancl1 pdb|3E6U|B Chain B, Crystal Structure Of Human Lancl1 pdb|3E6U|D Chain D, Crystal Structur...e Of Human Lancl1 pdb|3E73|A Chain A, Crystal Structure Of Human Lancl1 Complexed W...ith Gsh pdb|3E73|B Chain B, Crystal Structure Of Human Lancl1 Complexed With Gsh 3E6U 0.0 90% ...

  13. NCBI nr-aa BLAST: CBRC-PHAM-01-0419 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-PHAM-01-0419 pdb|3E6U|A Chain A, Crystal Structure Of Human Lancl1 pdb|3E6U|C Chain C, Crystal Structur...e Of Human Lancl1 pdb|3E6U|B Chain B, Crystal Structure Of Human Lancl1 pdb|3E6U|D Chain D, Crystal Structur...e Of Human Lancl1 pdb|3E73|A Chain A, Crystal Structure Of Human Lancl1 Complexed W...ith Gsh pdb|3E73|B Chain B, Crystal Structure Of Human Lancl1 Complexed With Gsh 3E6U 6e-90 100% ...

  14. NCBI nr-aa BLAST: CBRC-TSYR-01-0154 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-TSYR-01-0154 pdb|2QW9|A Chain A, Crystal Structure Of Bovine Hsc70 (1-394aa)in... The Apo State pdb|2QW9|B Chain B, Crystal Structure Of Bovine Hsc70 (1-394aa)in The Apo State pdb|2QWL|A Chain A, Crystal Structure... Of Bovine Hsc70 (1-394aa)in The Adp State pdb|2QWL|B Chain B, Crystal Structure Of ...Bovine Hsc70 (1-394aa)in The Adp State pdb|2QWM|A Chain A, Crystal Structure Of B...ovine Hsc70 (1-394aa)in The AdpVi State pdb|2QWM|B Chain B, Crystal Structure Of Bovine Hsc70 (1-394aa)in The AdpVi State 2QW9 0.0 94% ...

  15. NCBI nr-aa BLAST: CBRC-TTRU-01-1388 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-TTRU-01-1388 pdb|3E6U|A Chain A, Crystal Structure Of Human Lancl1 pdb|3E6U|C Chain C, Crystal Structur...e Of Human Lancl1 pdb|3E6U|B Chain B, Crystal Structure Of Human Lancl1 pdb|3E6U|D Chain D, Crystal Structur...e Of Human Lancl1 pdb|3E73|A Chain A, Crystal Structure Of Human Lancl1 Complexed W...ith Gsh pdb|3E73|B Chain B, Crystal Structure Of Human Lancl1 Complexed With Gsh 3E6U 1e-130 71% ...

  16. NCBI nr-aa BLAST: CBRC-TSYR-01-1041 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-TSYR-01-1041 pdb|3E6U|A Chain A, Crystal Structure Of Human Lancl1 pdb|3E6U|C Chain C, Crystal Structur...e Of Human Lancl1 pdb|3E6U|B Chain B, Crystal Structure Of Human Lancl1 pdb|3E6U|D Chain D, Crystal Structur...e Of Human Lancl1 pdb|3E73|A Chain A, Crystal Structure Of Human Lancl1 Complexed W...ith Gsh pdb|3E73|B Chain B, Crystal Structure Of Human Lancl1 Complexed With Gsh 3E6U 0.0 93% ...

  17. NCBI nr-aa BLAST: CBRC-MLUC-01-0915 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MLUC-01-0915 pdb|3E6U|A Chain A, Crystal Structure Of Human Lancl1 pdb|3E6U|C Chain C, Crystal Structur...e Of Human Lancl1 pdb|3E6U|B Chain B, Crystal Structure Of Human Lancl1 pdb|3E6U|D Chain D, Crystal Structur...e Of Human Lancl1 pdb|3E73|A Chain A, Crystal Structure Of Human Lancl1 Complexed W...ith Gsh pdb|3E73|B Chain B, Crystal Structure Of Human Lancl1 Complexed With Gsh 3E6U 0.0 89% ...

  18. NCBI nr-aa BLAST: CBRC-MEUG-01-0702 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MEUG-01-0702 pdb|3E6U|A Chain A, Crystal Structure Of Human Lancl1 pdb|3E6U|C Chain C, Crystal Structur...e Of Human Lancl1 pdb|3E6U|B Chain B, Crystal Structure Of Human Lancl1 pdb|3E6U|D Chain D, Crystal Structur...e Of Human Lancl1 pdb|3E73|A Chain A, Crystal Structure Of Human Lancl1 Complexed W...ith Gsh pdb|3E73|B Chain B, Crystal Structure Of Human Lancl1 Complexed With Gsh 3E6U 1e-129 64% ...

  19. NCBI nr-aa BLAST: CBRC-MEUG-01-0807 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MEUG-01-0807 pdb|2QW9|A Chain A, Crystal Structure Of Bovine Hsc70 (1-394aa)in... The Apo State pdb|2QW9|B Chain B, Crystal Structure Of Bovine Hsc70 (1-394aa)in The Apo State pdb|2QWL|A Chain A, Crystal Structure... Of Bovine Hsc70 (1-394aa)in The Adp State pdb|2QWL|B Chain B, Crystal Structure Of ...Bovine Hsc70 (1-394aa)in The Adp State pdb|2QWM|A Chain A, Crystal Structure Of B...ovine Hsc70 (1-394aa)in The AdpVi State pdb|2QWM|B Chain B, Crystal Structure Of Bovine Hsc70 (1-394aa)in The AdpVi State 2QW9 1e-139 85% ...

  20. NCBI nr-aa BLAST: CBRC-TTRU-01-0246 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-TTRU-01-0246 pdb|3EI1|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 14 Bp 6...-4 Photoproduct Containing Dna-Duplex pdb|3EI2|A Chain A, Structure Of Hsddb1-Drddb2 Bound To A 16 Bp Abasic... Site Containing Dna-Duplex pdb|3EI3|A Chain A, Structure Of The Hsddb1-Drddb2 Complex 3EI1 1e-25 82% ...

  1. Main: 2CI2 [RPSD[Archive

    Lifescience Database Archive (English)

    Full Text Available 2CI2 大麦 Barley Hordeum vulgare l. Subtilisin-Chymotrypsin Inhibitor-2a Hordeum Vulg...DB; 1YPC; X-ray; I=20-83.|PDB; 2CI2; X-ray; I=1-83.|PDB; 2SNI; X-ray; I=1-83.|PDB; 3CI2...ecular weight: 9250 Da SSVEKKPEGVNTGAGDRHNLKTEWPELVGKSVEEAKKVILQDKPEAQIIVLPVGTIVTMEYRIDRVRLFVDKLDNIAQVPRVG barley_2CI2.jpg ...

  2. Main: 1I2C [RPSD[Archive

    Lifescience Database Archive (English)

    Full Text Available 1I2C シロイヌナズナ Arabidopsis Arabidopsis thaliana (L.) Heynh. Udp-Sulfoquinovose Syntha... AAM47379.1; -.|PIR; T05311; T05311.|PDB; 1I24; X-ray; A=74-477.|PDB; 1I2B; X-ray; A=74-477.|PDB; 1I2C; X-ra...FCVQAAVGHPLTVYGKGGQTRGYLDIRDTVQCVEIAIANPAKAGEFRVFNQFTEQFSVNELASLVTKAGSKLGLDVKKMTVPNPRVEAEEHYYNAKHTKLMELGLEPHYLSDSLLDSLLNFAVQFKDRVDTKQIMPSVSWKKIGVKTKSMTT arabi_1I2C.jpg ...

  3. Main: 1I24 [RPSD[Archive

    Lifescience Database Archive (English)

    Full Text Available 1I24 シロイヌナズナ Arabidopsis Arabidopsis thaliana (L.) Heynh. Udp-Sulfoquinovose Syntha...71; AAM47379.1; -.|PIR; T05311; T05311.|PDB; 1I24; X-ray; A=74-477.|PDB; 1I2B; X-ray; A=74-477.|PDB; 1I2...LNRFCVQAAVGHPLTVYGKGGQTRGYLDIRDTVQCVEIAIANPAKAGEFRVFNQFTEQFSVNELASLVTKAGSKLGLDVKKMTVPNPRVEAEEHYYNAKHTKLMELGLEPHYLSDSLLDSLLNFAVQFKDRVDTKQIMPSVSWKKIGVKTKSMTT arabi_1I24.jpg ...

  4. ClusPro: a fully automated algorithm for protein–protein docking

    OpenAIRE

    Comeau, Stephen R.; Gatchell, David W.; Vajda, Sandor; Camacho, Carlos J.

    2004-01-01

    ClusPro (http://nrc.bu.edu/cluster) represents the first fully automated, web-based program for the computational docking of protein structures. Users may upload the coordinate files of two protein structures through ClusPro's web interface, or enter the PDB codes of the respective structures, which ClusPro will then download from the PDB server (http://www.rcsb.org/pdb/). The docking algorithms evaluate billions of putative complexes, retaining a preset number with favorable surface compleme...

  5. Natural climate variations in historical times up to 10.000 years ago. Final report; Natuerliche Klimavariationen in historischen Zeiten bis 10.000 Jahre vor heute. Abschlussbericht

    Energy Technology Data Exchange (ETDEWEB)

    Mayr, C.; Graf, W.; Stichler, W.; Trimborn, P.

    2001-07-01

    The climatic information of the {sup 2}H and {sup 13}C concentrations of year rings of trees and plant material in general was investigated in climate chamber experiments, in which the influence of variations in the air temperature, relative humidity and water availability on the ratios between the stable isotopes of three different C{sub 3} species (Brassica olearacea, Eucalyptus globulus, Vicia faba) was analyzed. The findings show that the {delta}{sup 2}H values of the plant stems depend mainly on the isotope ratio of the water that was taken up, as well as on the {sup 2}H concentration of the leaf water, which in turn was influenced by the relative humidity of the ambient air. The {sup 13}C concentrations in the plant stems were influenced by all three parameters and had a negative correlation both with the relative humidity and with temperature. The water availability status was shown to have great influence on the {sup 13}C discrimination of the plant insofar as higher availability of water caused lower {sup 13}C concentrations. The results of the isotope analysis were proved by cyclic gas supply measurements. - Further, callibration studies were carried out with {delta}{sup 2}H and {delta}{sup 13}C time series of pine trees (Picea abies) in two sites in southern Germany (Schussbach, Klosterreichenbach). A methodology for establishing long isotope series from year-rings of subfossil oak trees was developed. Investigations on subfossil wood take account of the different components of the year-rings, i.e. early and late wood, and of the sample preparation method (raw wood, wood without soluble constitutents, and cellulose nitrate). Further, possibilities of recording and correcting {delta}{sup 2} growth trends are presented. Application of the methods resulted in steady and consistent {delta}{sup 13}C and {delta}{sup 2}H time series from partial sample series comprising different types of samples. The resulting time series cover the period from 8,230 BC for

  6. Annual Growth Bands in Hymenaea courbaril

    Energy Technology Data Exchange (ETDEWEB)

    Westbrook, J A; Guilderson, T P; Colinvaux, P A

    2004-02-09

    One significant source of annual temperature and precipitation data arises from the regular annual secondary growth rings of trees. Several tropical tree species are observed to form regular growth bands that may or may not form annually. Such growth was observed in one stem disk of the tropical legume Hymenaea courbaril near the area of David, Panama. In comparison to annual reference {Delta}{sup 14}C values from wood and air, the {Delta}{sup 14}C values from the secondary growth rings formed by H. courbaril were determined to be annual in nature in this one stem disk specimen. During this study, H. courbaril was also observed to translocate recently produced photosynthate into older growth rings as sapwood is converted to heartwood. This process alters the overall {Delta}{sup 14}C values of these transitional growth rings as cellulose with a higher {Delta}{sup 14}C content is translocated into growth rings with a relatively lower {Delta}{sup 14}C content. Once the annual nature of these growth rings is established, further stable isotope analyses on H. courbaril material in other studies may help to complete gaps in the understanding of short and of long term global climate patterns.

  7. Oxygen isotope compositions of sinistral Neogloboquadrina pachyderma tests in surface sediments: North Atlantic Ocean

    Energy Technology Data Exchange (ETDEWEB)

    Wu, G.; Hillaire-Marcel, C. (Universite de Quebec a Montreal (Canada))

    1994-02-01

    Neogloboquadrina pachyderma (Left-coiled) is a planktonic foraminifer indicator species for polar waters. It is present in both the glacial and interglacial sediments of the high-latitude oceans, and therefore is frequently used as a signal-carrier for constructing late Pleistocene-Holocene planktonic [delta][sup 18]O records. In this study the [delta][sup 18]O compositions of N. pachyderma (L) tests from deep-sea surface sediments are compared with surface water [delta][sup 18]O values and summer sea surface temperatures (SST) in the North Atlantic Ocean, the Norwegian-Greenland Sea, and the Labrador Sea. The authors document that for a temperature range of 2-8[degrees]C, the planktonic [delta][sup 18]O values follow paleotemperature equations with an offset of less than 0.4%, and that above 8[degrees]C the planktonic [delta][sup 18]O compositions become almost independent of SST and remain nearly constant. This pattern suggests that N. pachyderma (L) precipitates its shell nearly at isotopic equilibrium with surface waters colder than 8[degrees]C, and that in warmer surface waters N. pachyderma (L) changes its habitat depth or its growth season to secrete its shell at an ambient temperature around 7-9[degrees]C.

  8. Late Holocene Radiocarbon Variability in Northwest Atlantic Slope Waters

    Energy Technology Data Exchange (ETDEWEB)

    Sherwood, O; Edinger, E; Guilderson, T P; Ghaleb, B; Risk, M J; Scott, D B

    2008-08-15

    Deep-sea gorgonian corals secrete a 2-part skeleton of calcite, derived from dissolved inorganic carbon at depth, and gorgonin, derived from recently fixed and exported particulate organic matter. Radiocarbon contents of the calcite and gorgonin provide direct measures of seawater radiocarbon at depth and in the overlying surface waters, respectively. Using specimens collected from Northwest Atlantic slope waters, we generated radiocarbon records for surface and upper intermediate water layers spanning the pre- and post bomb-{sup 14}C eras. In Labrador Slope Water (LSW), convective mixing homogenizes the pre-bomb {Delta}{sup 14}C signature (-67 {+-} 4{per_thousand}) to at least 1000 m depth. Surface water bomb-{sup 14}C signals were lagged and damped (peaking at {approx} +45{per_thousand} in the early 1980s) relative to other regions of the northwest Atlantic, and intermediate water signals were damped further. Off southwest Nova Scotia, the vertical gradient in {Delta}{sup 14}C is much stronger. In surface water, pre-bomb {Delta}{sup 14}C averaged -75 {+-} 5{per_thousand}. At 250-475 m depth, prebomb {Delta}{sup 14}C oscillated quasi-decadally between -80 and -100{per_thousand}, likely reflecting interannual variability in the presence of Labrador Slope Water vs. Warm Slope Water (WSW). Finally, subfossil corals reveal no systematic changes in vertical {Delta}{sup 14}C gradients over the last 1200 years.

  9. Development and application of the mollusc Arctica islandica as a paleoceanographic tool for the North Atlantic Ocean

    Energy Technology Data Exchange (ETDEWEB)

    Weidman, C.R.

    1995-09-01

    Until now there has been no tool comparable to corals for reconstructing long term high-resolution geochemical time-series for the colder, higher-latitude oceans. In this thesis, the long-lived (+100 years) boreal mollusc (Bivalvia) Arctica islandica is shown to be practical for this purpose in the northern North Atlantic Ocean. The evidence, compiled here, demonstrates that the carbonate shell of this species faithfully records the ambient dissolved inorganic carbon`s (DIC) radiocarbon ({Delta}{sup 14}C) concentration and accurately reflects the ambient temperature in its stable oxygen isotope ({delta}{sup 18}O) composition. However, the stable carbon isotope ({delta}{sup 13}C) composition of the A. islandica shell likely is not a good recorder of ambient DIC {delta}{sup 13}C, and likely responds to physiological controls. Four {Delta}{sup 14}C time histories are reconstructed from the annual bands of A. islandica shells for the higher-latitudes of the northern North Atlantic Ocean (from 41{degree}N to 70{degree}N).

  10. Main: 1YPA [RPSD[Archive

    Lifescience Database Archive (English)

    Full Text Available 1YPA 大麦 Barley Hordeum vulgare l. Subtilisin-Chymotrypsin Inhibitor-2a Hordeum Vulg...placed By Ala (S31a,E33a,E34a) Proteinase Inhibitor(Chymotrypsin) Y.Harpaz, N.Elmasry, A.R.Fersht, K.Henrick Y.Harpa...PDB; 1COA; X-ray; I=20-83.|PDB; 1CQ4; X-ray; A=20-66, B=60-83.|PDB; 1LW6; X-ray; I=20-83.|PDB; 1YPA...TEWPELVGKSVEEAKKVILQDKPEAQIIVLPVGTIVTMEYRIDRVRLFVDKLDNIAQVPRVG barley_1YPA.jpg ...

  11. EST Table: FS922063 [KAIKOcDNA[Archive

    Lifescience Database Archive (English)

    Full Text Available FS922063 E_FL_fwgP_03I14_F_0 10/09/28 53 %/117 aa pdb|3HOS|A Chain A, Crystal Structure Of The Marine...r Mos1 Paired End Complex With Mg pdb|3HOS|B Chain B, Crystal Structure Of The Mariner Mos...1 Paired End Complex With Mg pdb|3HOT|A Chain A, Crystal Structure Of The Mos1 Mariner Paired End Complex Wi...th Mn pdb|3HOT|B Chain B, Crystal Structure Of The Mos1 Mariner Paired End Comple

  12. Main: 1AVW [RPSD[Archive

    Lifescience Database Archive (English)

    Full Text Available 1AVW 大豆 Soybean Glycine max (L.) Merrill Trypsin Inhibitors A/C Precursor Name=Kti3...SWS:ITRA_SOYBN,P01070|EMBL; S45092; AAB23464.1; -.|PIR; JQ0968; JQ0968.|PDB; 1AVU; X-ray; @=25-205.|PDB; 1AV...W; X-ray; B=25-201.|PDB; 1AVX; X-ray; B=25-201.|PDB; 1BA7; X-ray; A/B=25-205.|InterPro; IPR011065; Kunitz_li...GTIISSPYRIRFIAEGHPLSLKFDSFAVIMLCVGIPTEWSVVEDLPEGPAVKIGENKDAMDGWFRLERVSDDEFNNYKLVFCPQQAEDDKCGDIGISIDHDDGTRRLVVSKNKPLVVQFQKLDKESLAKKNHGLSRSE soybean_1AVW.jpg ...

  13. Data of evolutionary structure change: 1JHBA-3CTGA [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available 1JHBA-3CTGA 1JHB 3CTG A A ----AQEFVNCKIQPGKVVVFIKPTCPYCRRAQEILSQ-...LPIKQGLLEFVDITATNHTNEIQDYLQQLTGARTVPRVFIGKDCIGGCSDLVSLQQSGELLTRLKQIGALQ VSQETVAHVKDLIGQKEVFVAAK.../pdbChain> 3CTGA STLFQELNVPK

  14. EST Table: BP124755 [KAIKOcDNA[Archive

    Lifescience Database Archive (English)

    Full Text Available BP124755 fbS20263 10/09/28 93 %/160 aa pdb|3C7T|A Chain A, Crystal Structure Of The Ecdyson...3C7T|C Chain C, Crystal Structure Of The Ecdysone Phosphate Phosphatase, Eppase, ...From Bombix Mori In Complex With Tungstate pdb|3C7T|D Chain D, Crystal Structure Of The Ecdysone Phosphate P...e Phosphate Phosphatase, Eppase, From Bombix Mori In Complex With Tungstate pdb|3C7T|B Chain B, Crys...tal Structure Of The Ecdysone Phosphate Phosphatase, Eppase, From Bombix Mori In Complex With Tungstate pdb|

  15. NCBI nr-aa BLAST: CBRC-MDOM-05-0008 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available H ATP pdb|3FZH|A Chain A, Crystal Structures Of Hsc70BAG1 IN COMPLEX WITH SMALL Molecule Inhibitors pdb|3FZK...|A Chain A, Crystal Structures Of Hsc70BAG1 IN COMPLEX WITH SMALL Molecule Inhibitors pdb|3FZL|A Chain A, Cr...ystal Structures Of Hsc70BAG1 IN COMPLEX WITH SMALL Molecule Inhibitors pdb|3FZM|...A Chain A, Crystal Structures Of Hsc70BAG1 IN COMPLEX WITH SMALL Molecule Inhibitors 3FZF 1e-107 89% ...

  16. NCBI nr-aa BLAST: CBRC-TTRU-01-0305 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available H ATP pdb|3FZH|A Chain A, Crystal Structures Of Hsc70BAG1 IN COMPLEX WITH SMALL Molecule Inhibitors pdb|3FZK...|A Chain A, Crystal Structures Of Hsc70BAG1 IN COMPLEX WITH SMALL Molecule Inhibitors pdb|3FZL|A Chain A, Cr...ystal Structures Of Hsc70BAG1 IN COMPLEX WITH SMALL Molecule Inhibitors pdb|3FZM|...A Chain A, Crystal Structures Of Hsc70BAG1 IN COMPLEX WITH SMALL Molecule Inhibitors 3FZF 1e-117 91% ...

  17. NCBI nr-aa BLAST: CBRC-MEUG-01-0807 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available H ATP pdb|3FZH|A Chain A, Crystal Structures Of Hsc70BAG1 IN COMPLEX WITH SMALL Molecule Inhibitors pdb|3FZK...|A Chain A, Crystal Structures Of Hsc70BAG1 IN COMPLEX WITH SMALL Molecule Inhibitors pdb|3FZL|A Chain A, Cr...ystal Structures Of Hsc70BAG1 IN COMPLEX WITH SMALL Molecule Inhibitors pdb|3FZM|...A Chain A, Crystal Structures Of Hsc70BAG1 IN COMPLEX WITH SMALL Molecule Inhibitors 3FZF 1e-139 85% ...

  18. Main: 1GCC [RPSD[Archive

    Lifescience Database Archive (English)

    Full Text Available 1GCC シロイヌナズナ Arabidopsis Arabidopsis thaliana (L.) Heynh. Ethylene Responsive Eleme...ex, Ethylene Inducible, Complex (Transcription Factor/Dna) GB:AB008103,3434966|PDB:1GCC,1GCC|EMBL; AB008103;...58174; AAL25588.1; -.|EMBL; AY062533; AAL32611.1; -.|EMBL; BT002578; AAO00938.1; -.|PDB; 1GC...C; NMR; A=144-206.|PDB; 2GCC; NMR; @=141-210.|PDB; 3GCC; NMR; @=141-210.|TRANSFAC; T04633; -.|Int...KIETPESFAAVDSVPVKKEKTSPVSAAVTAAKGKHYRGVRQRPWGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPLRVNSGEPDPVRIKSKRSSFSSSNENGAPKKRRTVAAGGGMDKGLTVKCEVVEVARGDRLLVL arabi_1GCC.jpg ...

  19. NCBI nr-aa BLAST: CBRC-MMUR-01-1235 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MMUR-01-1235 pdb|2HYI|C Chain C, Structure Of The Human Exon Junction Complex ...With A Trapped Dead-Box Helicase Bound To Rna pdb|2HYI|I Chain I, Structure Of The Human Exon Junction Compl...ex With A Trapped Dead-Box Helicase Bound To Rna pdb|3EX7|C Chain C, The Crystal Structure Of Ejc In Its Tra...nsition State pdb|3EX7|H Chain H, The Crystal Structure Of Ejc In Its Transition State 2HYI 0.0 94% ...

  20. Data of evolutionary structure change: 1DXIB-1XLDA [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available 1DXIB-1XLDA 1DXI 1XLD B A MSFQPTPEDRFTFGLWTVGWQGRDPFGDATRPALDPVET...VQRLAELGAYGVTFHDDDLIPFGSSDTERESHIKRFRQALDATGMTVPMATTNLFTHPVFKDGGFTANDRDVRRYALRKTIGNIDLAAELGAKTYVAWGGREGAESGG...pdbID>1XLD A 1XLDA NAGESAADLMND

  1. NCBI nr-aa BLAST: CBRC-PTRO-27-0071 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-PTRO-27-0071 pdb|1DEQ|A Chain A, The Crystal Structure Of Modified Bovine Fibr...inogen (At ~4 Angstrom Resolution) pdb|1DEQ|D Chain D, The Crystal Structure Of Modified Bovine Fibrinogen (...At ~4 Angstrom Resolution) pdb|1DEQ|N Chain N, The Crystal Structure Of Modified Bovine Fibrinogen (At ~4 An...gstrom Resolution) pdb|1DEQ|Q Chain Q, The Crystal Structure Of Modified Bovine Fibrinogen (At ~4 Angstrom Resolution) 1DEQ 8e-04 39% ...

  2. Proxy Records of the Indonesian Low and the El Ni{tilde n}o-Southern Oscillation (ENSO) from Stable Isotope Measurements of Indonesian Reef Corals

    Energy Technology Data Exchange (ETDEWEB)

    Moore, M.D.

    1995-12-31

    The Earth`s largest atmospheric convective center is the Indonesian Low. It generates the Australasian monsoon, drives the zonal tropospheric Walker Circulation, and is implicated in the genesis of the El Nino-Southern Oscillation (ENSO). The long-term variability of the Indonesian Low is poorly characterized, yet such information is crucial for evaluating whether changes in the strength and frequency of ENSO events are a possible manifestation of global warming. Stable oxygen isotope ratios ({delta}{sup 18}O) in shallow-water reef coral skeletons track topical convective activity over hundreds of years because the input of isotopically-depleted rainwater dilutes seawater {delta}{sup 18}O. Corals also impose a temperature-dependent fractionation on {delta}{sup 18}O, but where annual rainfall is high and sea surface temperature (SST) variability is low the freshwater flux effect dominates.

  3. Sr/Ca and {delta} {sup 18}O ratios measured from Acropora nobilis and Porites lutea: Is Sr/Ca paleo-thermometry always reliable?; Mesures conjointes des rapports Sr/Ca et {delta} {sup 18}O effectuees sur Acropora nobilis et Porites lutea: le paleothermometre Sr/Ca est-il toujours fiable?

    Energy Technology Data Exchange (ETDEWEB)

    Boiseau, M.; Trupin, L.; Juillet-Leclerc, A. [Centre National de la Recherche Scientifique (CNRS), 91 - Gif-sur-Yvette (France). Centre des Faibles Radioactivites; Cornu, H. [Centre National de la Recherche Scientifique (CNRS), Lab. d' oceanographie dynamique et de climatologie, Unite mixte CNRS-ORSTOM-UPCM, 75 - Paris (France)

    1997-11-01

    We measured the Sr/Ca and {sup 18}O/{sup 16}O ratios in Acropora nobilis and Porites lutea, from the Mayotte lagoon. As the variations of {delta}{sup 18}O{sub seawater} are negligible, coral {delta}{sup 18}O{sub aragonite} reflects only seasonal temperature variations. While there is a good agreement between the Sr/Ca ratio and {delta}{sup 18}O for Acropora nobilis, it is not the case for Porites lutea. Coral biological and environmental parameters cannot explain the discrepancies between Sr/Ca ratios and isotopic measurements. However transport mechanisms of Sr{sup 2+} and Ca{sup 2+} and the presence of two mineralogical structures of strontium may affect the Sr/Ca ratio.

  4. Stable sulphur isotope ratios in the moss species Hylocomium splendens (Hedw.) B.S.G. and Pleurozium schreberi (Brid.) Mitt. from the Kielce area (south-central Poland)

    Energy Technology Data Exchange (ETDEWEB)

    Migaszewski, Z.M.; Dolegowska, S.; Halas, S.; Trembaczowski, A. [Jan Kochanowski University, Kielce (Poland). Inst. of Chemistry

    2010-07-01

    Stable sulphur isotope determinations were performed on 18 moss samples collected at nine sites in forested areas of the city of Kielce. The {delta}{sup 34} S of Hylocomium splendens varied from 4.4 to 7.1%, whereas the {delta}{sup 34} S of Pleurozium schreberi was in the range of 3.7-9.1%. The Holy Cross Mountains mosses display a positive delta S-34 signature of airborne SO{sub 2} and sulphates of anthropogenic origin, which is characteristic for this part of Europe. Some spatial variations in the {delta}{sup 34}S of mosses are due to the interactions that occur between coal combustion emissions with diverse isotopic imprints, variations in wind direction and topographic features combined with biological fractionation.

  5. Carbon and oxygen isotopic variation in Upper Maastrichtian chalk, Danish Central Graben. M-10X (Dan Field), E-5X (Tyra SE Field)

    Energy Technology Data Exchange (ETDEWEB)

    Schovsbo, N.H.; Buchardt, B.

    2004-07-01

    The chemostratigraphic potential of the carbon isotopic variation in Upper Maastrichtian chalk has been evaluated based on 143 bulk chalk samples from the M-10X and E-5X wells. The wells are situated 30 km apart and are located in the Dan and Tyra SE oil and gas fields, respectively. Samples were taken each metre to record the stratigraphic variation. In addition, an interval in the M-10X well was sampled on a decimetre scale to resolve the link between {delta}{sup 13}C- and {delta}{sup 18}0-isotopic variation and lithology. Across three laminated to bioturbated chalk cycles, the m-scale variation in {delta}{sup 13}C is 0.1 %o. In the middle cycle, more negative {delta}{sup 13}C values were measured in the laminated chalk compared to bioturbated chalk. These more negative {delta}{sup 13}C values are interpreted to reflect early diagenetic cement characterised by light {delta}{sup 13}C values that formed as a response to a semiclosed pore-water environment. No consistent trend was observed in the other cycles. The laminated interval is here weakly developed and possibly reflects a depositional environment characterised by a more open pore-water system that did not allow a diagenetic component to form. The m-scale variation in {delta}{sup 18}0 values amounts to 0.5 %o and shows no apparent relationship to lithology. A chemostratigraphic correlation between the wells is presented. The correlation is consistent with the established biostratigraphy based on nannofossils, pelagic foraminifers and dinoflagellates. The chemostratigraphy was established based on the m-scale variation in {delta}{sup 13}C values and consists of seven units; the chemostratigraphy thus allows a high degree of stratigraphical resolution in the uppermost Maastrichtian interval. Moreover, the combined chemo- and biostratigraphic framework confirms the stratigraphic significance of the logbased porosity markers that form the basis of the cyclostratigraphic correlation system proposed. The recorded

  6. Coral Radiocarbon Records of Indian Ocean Water Mass Mixing and Wind-Induced Upwelling Along the Coast of Sumatra, Indonesia

    Energy Technology Data Exchange (ETDEWEB)

    Guilderson, T P; Grumet, N S; Abram, N J; Beck, J W; Dunbar, R B; Gagan, M K; Hantoro, W S; Suwargadi, B W

    2004-02-06

    Radiocarbon ({sup 14}C) in the skeletal aragonite of annually banded corals track radiocarbon concentrations in dissolved inorganic carbon (DIC) in surface seawater. As a result of nuclear weapons testing in the 1950s, oceanic uptake of excess {sup 14}C in the atmosphere has increased the contrast between surface and deep ocean {sup 14}C concentrations. We present accelerator mass spectrometric (AMS) measurements of radiocarbon isotope ({Delta}{sup 14}C) in Porites corals from the Mentawai Islands, Sumatra (0 S, 98 E) and Watamu, Kenya (3 S, 39 E) to document the temporal and spatial evolution of the {sup 14}C gradient in the tropical Indian Ocean. The rise in {Delta}{sup 14}C in the Sumatra coral, in response to the maximum in nuclear weapons testing, is delayed by 2-3 years relative to the rise in coral {Delta}{sup 14}C from the coast of Kenya. Kenya coral {Delta}{sup 14}C values rise quickly because surface waters are in prolonged contact with the atmosphere. In contrast, wind-induced upwelling and rapid mixing along the coast of Sumatra entrains {sup 14}C-depleted water from the subsurface, which dilutes the effect of the uptake of bomb-laden {sup 14}C by the surface-ocean. Bimonthly AMS {Delta}{sup 14}C measurements on the Mentawai coral reveal mainly interannual variability with minor seasonal variability. The interannual signal may be a response to changes in the Walker circulation, the development of easterly wind anomalies, shoaling of the eastern thermocline, and upwelling of {sup 14}C-depleted water along the coast of Sumatra. Singular spectrum analysis of the Sumatra coral {Delta}{sup 14}C record reveals a significant 3-year periodicity. The results lend support to the concept that ocean atmosphere interactions between the Pacific and Indian Oceans operate in concert with the El Ni{tilde n}o-Southern Oscillation (ENSO).

  7. Stable isotopes, Sr/Ca, and Mg/Ca in biogenic carbonates from Petaluma Marsh, northern California, USA

    Energy Technology Data Exchange (ETDEWEB)

    Ingram, B.L.; De Deckker, P.; Chivas, A.R.; Conrad, M.E.; Byrne, A.R.

    2004-10-19

    Stable isotope ({sup 18}O/{sup 16}O and {sup 13}C/{sup 12}C) and minor-element compositions (Sr/Ca and Mg/Ca ratios) of ostracodes and gastropods separated from marsh sediments from San Francisco Bay, Northern California, were used to reconstruct paleoenvironmental changes in Petaluma Marsh over the past 700 yr. The value of {delta}{sup 18}O in the marsh carbonates reflects changes in freshwater inflow, evaporation, and temperature. Mg/Ca and Sr/Ca in ostracode calcite reflect changes in both freshwater inflow and temperature, although primarily reflect temperature changes in the salinity range of about 10-35 {per_thousand}. Ostracode {delta}{sup 18}O values show a gradual increase by 5 {per_thousand} between 500 yr BR and the present, probably reflecting rising sea level and increased evaporation in the marsh. Superimposed on this trend are higher frequency Mg/Ca and {delta}{sup 18}O variations (3-4 {per_thousand}), probably reflecting changes in freshwater inflow and evaporation. A period of low Mg/Ca occurred between about 100-300 cal yr BP, suggesting wetter and cooler conditions during the Little Ice Age. Higher Mg/Ca ratios occurred 600-700 cal yr BP, indicating drier and warmer conditions during the end of the Medieval Warm Period. Both ostracode and gastropod {delta}{sup 13}C values decrease up-core, reflecting decomposition of marsh vegetation, which changes from C{sub 4} ({delta}{sup 13}C {approx} -12{per_thousand}) to CAM ({delta}{sup 13}C = -26 {per_thousand})-type vegetation over time.

  8. Stable carbon and oxygen isotope investigation in historical lime mortar and plaster - Results from field and experimental study

    Energy Technology Data Exchange (ETDEWEB)

    Kosednar-Legenstein, B. [Institute of Applied Geosciences, Graz University of Technology, Rechbauerstrasse 12, A-8010 Graz (Austria); Dietzel, M. [Institute of Applied Geosciences, Graz University of Technology, Rechbauerstrasse 12, A-8010 Graz (Austria)], E-mail: martin.dietzel@tugraz.at; Leis, A. [Institute of Water Resources Management, Hydrogeology and Geophysics, Joanneum Research, Elisabethstrasse 16/II, A-8010 Graz (Austria); Stingl, K. [Institute of Applied Geosciences, Graz University of Technology, Rechbauerstrasse 12, A-8010 Graz (Austria)

    2008-08-15

    Lime mortar and plaster were sampled from Roman, medieval and early modern buildings in Styria. The historical lime mortar and plaster consist of calcite formed in the matrix during setting and various aggregates. The stable C and O isotopic composition of the calcite matrix was analyzed to get knowledge about the environmental conditions during calcite formation. The {delta}{sup 13}C{sub matrix} and {delta}{sup 18}O{sub matrix} values range from -31 to 0 per mille and -26 to -3 per mille (VPDB), respectively. Obviously, such a range of isotope values does not represent the local natural limestone assumed to be used for producing the mortar and plaster. In an ideal case, the calcite matrix in lime mortar and plaster is isotopically lighter in the exterior vs. the interior mortar layer according to the relationship {delta}{sup 18}O{sub matrix} = 0.61 . {delta}{sup 13}C{sub matrix} - 3.3 (VPDB). Calcite precipitation by uptake of gaseous CO{sub 2} into alkaline Ca(OH){sub 2} solutions shows a similar relationship, {delta}{sup 18}O{sub calcite} = 0.67 . {delta}{sup 13}C{sub calcite} - 6.4 (VPDB). Both relationships indicate that the {sup 13}C/{sup 12}C and {sup 18}O/{sup 16}O values of the calcite reflect the setting behaviour of the lime mortar and plaster. Initially, CO{sub 2} from the atmosphere is fixed as calcite, which is accompanied by kinetic isotope fractionation mostly due to the hydroxylation of CO{sub 2} ({delta}{sup 13}C{sub matrix} {approx} -25 per mille and {delta}{sup 18}O{sub matrix} {approx} -20 per mille ). As calcite formation continued the remaining gaseous CO{sub 2} is subsequently enriched in {sup 13}C and {sup 18}O causing later formed calcite to be isotopically heavier along the setting path in the matrix. Deviations from such an ideal isotopic behaviour may be due to the evolution of H{sub 2}O, e.g. evaporation, the source of CO{sub 2}, e.g. from biogenic origin, relicts of the natural limestone, and secondary effects, such as

  9. Stable isotopes and mercury in a model estuarine fish: Multibasin comparisons with water quality, community structure, and available prey base

    Energy Technology Data Exchange (ETDEWEB)

    Adams, Douglas H., E-mail: Doug.Adams@MyFWC.com; Paperno, Richard

    2012-01-01

    Stable-isotope ratios ({delta}{sup 13}C and {delta}{sup 15}N) and mercury in a model predator, and associated prey community assessments were used to make inferences regarding food web relationships and how these relationships are influenced by habitat variability and anthropogenic factors. Although interconnected, the three major basins of the Indian River Lagoon system on the Atlantic coast of Florida comprise noticeably different available habitat types with spatially distinct faunal communities and available prey for spotted seatrout, Cynoscion nebulosus, a model predatory fish species. Water quality, degree of urbanization, human population density, and levels of nitrogen enrichment clearly differ between these representative estuarine basins. The differences can influence feeding ecology and therefore result in different mercury concentrations and different stable-isotope signatures of spotted seatrout between basins. Mercury concentrations in spotted seatrout were greatest in Mosquito Lagoon (ML) and least in the Indian River Lagoon proper (IRL), although concentrations were low for all basins. Spotted seatrout from IRL were carbon-depleted and nitrogen-enriched compared with those from the other basins; this suggests either that the fish's primary source of carbon in IRL is an algae- or phytoplankton-based food web or that the pathway through the food web is shorter there. The {delta}{sup 15}N values of IRL spotted seatrout were greater than those in the Banana River Lagoon or ML, suggesting slightly different trophic positioning of fish in these basins. The greater {delta}{sup 15}N values in IRL spotted seatrout may also reflect the greater human population density and resultant anthropogenic inputs (e.g., observed higher total nitrogen levels) in IRL compared with the other more pristine basins examined. Understanding species' responses to broad-scale habitat heterogeneity in estuaries and knowing basin-specific differences in stable isotopes

  10. First Detection of Nitrogen from NO{sub x} in Tree Rings

    Energy Technology Data Exchange (ETDEWEB)

    Saurer, M.; Cherubini, P. [WSL Birmensdorf (Switzerland); Ammann, M.; Siegwolf, R.T.W

    2004-03-01

    Nitrogen isotope analysis ({delta}{sup 15}N) of tree rings may be useful for evaluating the temporal development of the nitrogen (N) deposition in forests and for studying the long-term effects of N accumulation in ecosystems. We investigated three sites across a pollution gradient with differing distances (20 m, 150 m, 1000 m) from a motorway in Switzerland. The {delta}{sup 15}N values in tree rings of Picea abies (spruce) increased by up to 0.79% after the construction of the motorway (1965) at the most polluted site, reflecting the uptake of isotopically heavy NO{sub x} from car exhausts. (author)

  11. Novel /sup 125/I radioimmunoassay for the analysis of. delta. /sup 9/-tetrahydrocannabinol and its metabolites in human body fluids

    Energy Technology Data Exchange (ETDEWEB)

    Law, B.; Mason, P.A.; Moffat, A.C.; King, L.J.

    A cannabinoid radioimmunoassay (RIA) that detects some of the major ..delta../sup 9/-THC metabolites is developed and evaluated for use in forensic science. It incorporates a novel /sup 125/I radiotracer, is sensitive, reliable, relatively quick, and simple to use. The RIA uses a commercially available antiserum and detects a number of cannabinoid metabolites, including ..delta../sup 9/-THC-11-oic acid and its glucuronide conjugate in biological fluids. The method was successfully applied to the analysis of blood and urine samples submitted for forensic analysis.

  12. Carbon-13 in the world ocean during the last interglaciation and the penultimate glacial maximum: reevaluation of the possible biosphere response to the earth's climatic changes

    Energy Technology Data Exchange (ETDEWEB)

    Duplessy, J.C.; Shackleton, N.J.

    1984-01-01

    A reconstruction of the geographic distribution of carbon-13 in benthic foraminifera that lived during the Last Interglacial period and the Penultimate glaciation provides a global budget of the oceanic delta/sup 13/C during these climatic extremes. During the penultimate glacial to interglacial transition, the mean delta/sup 13/C change of the total CO/sub 2/ dissolved in the ocean was 0.3 per thousand, about half the estimate of Shackleton (1977). This change is equivalent to a transfer of about 4 x 10/sup 17/g of carbon from the biosphere to the ocean.

  13. On the isotopic composition of precipitation; Sur la composition isotopique des precipitations

    Energy Technology Data Exchange (ETDEWEB)

    Gonfiantini, R. [Paris-11 Univ., 91 - Orsay (France). Laboratoire d`Hydrologie et de Geochimie Isotopique

    1998-12-31

    The paper discusses some aspects of the isotopic composition (tritium and stable isotopes) of global precipitation which is being monitored since the late fifties through the network established by the International Atomic Energy Agency. Three quarters of the tritium formed during the atmospheric thermonuclear tests were released in the biennium 1961-1962. The successive five years of the test moratorium provide a unique information on the tritium transfer rate from the stratosphere to the troposphere. The tritium concentration decreased steadily, and the decrease rate appears to be greater at high latitude. This fact can possibly be explained by precipitation recycling by evapotranspiration, which is more important at low latitudes, and tritium concentration ratio between two successive years, is close to 0.68 {+-} 0.02, with the exception of the year 1965, when the tritium content dropped to 0.50 {+-} 0.02 with respect to the previous year. At latitudes between 30 and 60 deg C, the correlations between {delta}{sup 2}H and {delta}{sup 18}O show almost identical slopes in winter and summer precipitation, but different intercepts. The correlations are: {delta}{sup 2}H (8.36{+-}0.13) {delta}{sup 18}O+(14.2{+-}4.2) for January and {delta}{sup 2}H 8.33{+-}0.013) {delta}{sup 18}O+(8.2{+-}3.9) for July. This reflects a different seasonal deuterium excess (defined as d {delta}{sup 2}H - 8{delta}{sup 18}O), which has a mean value of 10.7{+-} 0.6 %0 in July, and a higher average value of 10.7 {+-} 0.6%0 in January and 5.8{+-} 0.5%0 in July, and a higher average value in stations with prevailing winter rains. Also, the slope becomes about 8 when summer and winter precipitation are considered all together. The altitude effect on the isotopic composition of precipitation on Mount Cameroon is re-examined. The model which best fits the data is based on the adiabatic condensation of the atmospheric vapour with a liquid/vapor ratio increasing from 0.15 at sea level to 0.45 at 4

  14. Isotopic imaging of refractory inclusions in meteorites with the NanoSIMS 50L

    Energy Technology Data Exchange (ETDEWEB)

    Ito, Motoo [Robert M. Walker Laboratory for Space Science, ARES, NASA Johnson Space Center, 2101 NASA Parkway, Houston, TX 77573 (United States)], E-mail: motoo.ito-1@nasa.gov; Messenger, Scott [Robert M. Walker Laboratory for Space Science, ARES, NASA Johnson Space Center, 2101 NASA Parkway, Houston, TX 77573 (United States)], E-mail: scott.r.messenger@nasa.gov

    2008-12-15

    Oxygen isotopic micro-distributions within and among silicate and oxide minerals in a meteorite were measured with the JSC NanoSIMS 50L by isotopic imaging. High precision isotopic images with micrometer-scale resolution revealed detailed O isotope distributions within CAI minerals. Small-scale heterogeneous distributions of O isotopes constrain the history of isotopic exchange mechanisms in the CAI during and since its formation in the early solar system. We describe the development O isotopic imaging of insulating minerals with high precision of {+-}6 and 3 per mille for {delta}{sup 17}O and {delta}{sup 18}O, respectively.

  15. Ecological factors differentially affect mercury levels in two species of sympatric marine birds of the North Pacific

    Energy Technology Data Exchange (ETDEWEB)

    Hipfner, J.M., E-mail: mark.hipfner@ec.gc.ca [Environment Canada, Pacific Wildlife Research Centre, RR 1 5421 Robertson Road, Delta, BC, V4K 3N2 (Canada); Hobson, K.A., E-mail: keith.hobson@ec.gc.ca [Environment Canada, 11 Innovation Blvd., Saskatoon, SK, S7N 3H5 (Canada); Elliott, J.E., E-mail: john.elliot@ec.gc.ca [Environment Canada, Pacific Wildlife Research Centre, RR 1 5421 Robertson Road, Delta, BC, V4K 3N2 (Canada)

    2011-03-01

    In 2003 and 2004, we measured mercury concentrations and {delta}{sup 15}N and {delta}{sup 13}C values in the whole blood of adults of two species of seabirds, Cassin's auklet (Ptychoramphus aleuticus) and rhinoceros auklet (Cerorhinca monocerata), during their prelaying, incubation, and provisioning periods. We also collected whole blood from the offspring of both seabirds. Among prey items, {delta}{sup 15}N values were higher in fish than in crustaceans, while {delta}{sup 13}C did not vary systematically between prey types. Mercury concentrations in prey showed little relationship with either stable isotope. In the zooplanktivorous Cassin's auklet, year, reproductive stage, and {delta}{sup 15}N and {delta}{sup 13}C stable isotope values explained only 14% of the variation in mercury concentrations in adult blood, and none of these variables had a statistically significant effect. In contrast, these same variables explained 41% of the variation in mercury levels in the more piscivorous rhinoceros auklet, and all but {delta}{sup 15}N values had statistically significant effects. Mercury concentrations in adult rhinoceros auklets were higher in 2003 than in 2004; higher prior to laying than during the incubation or provisioning periods; and increased with {delta}{sup 13}C values - but in just one of two years. In both species, mercury concentrations were substantially higher in adults than in nestlings. Our results accord with previous studies in showing that mercury concentrations can vary among years, species and age classes, while the marked variation with reproductive stage is noteworthy because it is so rarely considered. Our results may help to explain the disparate conclusions of previous studies: while many factors influence mercury concentrations in marine predators, they apparently do so in a manner that defies easy characterization. We believe that there is a need for more studies that consider a range of physiological, ecological and behavioral

  16. Environmental isotope studies on groundwater problems in the Thar Desert, India

    Energy Technology Data Exchange (ETDEWEB)

    Nair, A.R.; Navada, S.V.; Rao, S.M. [Bhabha Atomic Research Centre, Trombay, Mumbai (India). Isotope Division

    1997-10-01

    One of the groundwater problems encountered in arid areas like the Thar Desert in Rajasthan is to know whether the shallow groundwater is being actively recharged. Environmental isotopes particularly tritium are very useful in providing evidence of recent recharge. In the Barmer area, the shallow groundwaters have tritium levels generally in the range 3-6 TU showing modern recharge. Most of the recharge possibly occurs by direct infiltration of precipitation. Indirect recharge through wadis (river channels) could sometimes be an important mechanism of groundwater recharge. Environmental isotope study in Jalore area showed that the shallow groundwaters near the Sukri river course had {delta}{sup 2}H and {delta}{sup 18}O are depleted compared to present day precipitation but not as depleted as the present day Himalayan rivers. Carbon-24 values of some of these groundwaters are in the range of 54-58 pMC showing that they possibly represent old river with headwater connection outside the desert. In the Thar, the deep groundwaters which sometimes form the bulk of water supply are generally paleowaters as sown by environmental {delta}{sup 2}H, {delta}{sup 18}O, {sup 3}H and {sup 14}C. For example in the Barmer area, deep groundwaters (depth > 150m) have depleted {delta}{sup 2}H and {delta}{sup 18} O compared to the shallow groundwaters and present day precipitation. They have negligible {sup 3}H and {sup 14}C model ages ranging from 4000 to 9500 BP. Hence the isotope data of the deep groundwaters indicate they are paleowaters recharged during humid periods in the Holocene. Over-exploitation of deep groundwaters could lead to mixing of shallow and deep groundwaters or influx of waters from adjoining aquifers. In the Bikaner area similar {delta}{sup 2}H and {delta}{sup 18}O of the shallow and deep wells and young waters encountered in some of the deep wells indicated mixing between the two aquifers due to heavy exploitation of groundwaters in the area. In a limestone belt

  17. NCBI nr-aa BLAST: CBRC-EEUR-01-0952 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-EEUR-01-0952 pdb|1CI4|A Chain A, The Crystal Structure Of Human Barrier-To-Autointegration... Factor (Baf) pdb|1CI4|B Chain B, The Crystal Structure Of Human Barrier-To-Autointegration Factor (Baf) 1CI4 3e-07 52% ...

  18. Domain Modeling: NP_037474.1 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_037474.1 chr19 Structure of an acetylated Rsc4 tandem bromodomain Histone Chimer...a p2r0sa_ chr19/NP_037474.1/NP_037474.1_apo_34-223.pdb p2r10a_ chr19/NP_037474.1/NP_037474.1_holo_34-223.pdb

  19. NCBI nr-aa BLAST: CBRC-CFAM-23-0009 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-CFAM-23-0009 pdb|1Z2B|B Chain B, Tubulin-Colchicine-Vinblastine: Stathmin-Like... Domain Complex pdb|1Z2B|D Chain D, Tubulin-Colchicine-Vinblastine: Stathmin-Like Domain Complex 1Z2B 1e-64 91% ...

  20. NCBI nr-aa BLAST: CBRC-MMUR-01-1301 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available ex With A Trapped Dead-Box Helicase Bound To Rna pdb|3EX7|C Chain C, The Crystal Structure Of Ejc In Its Transition State... pdb|3EX7|H Chain H, The Crystal Structure Of Ejc In Its Transition State 2HYI 0.0 93% ...

  1. NCBI nr-aa BLAST: CBRC-MLUC-01-0143 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available ex With A Trapped Dead-Box Helicase Bound To Rna pdb|3EX7|C Chain C, The Crystal Structure Of Ejc In Its Transition State... pdb|3EX7|H Chain H, The Crystal Structure Of Ejc In Its Transition State 2HYI 1e-127 94% ...

  2. NCBI nr-aa BLAST: CBRC-MMUR-01-0234 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available ex With A Trapped Dead-Box Helicase Bound To Rna pdb|3EX7|C Chain C, The Crystal Structure Of Ejc In Its Transition State... pdb|3EX7|H Chain H, The Crystal Structure Of Ejc In Its Transition State 2HYI 0.0 92% ...

  3. NCBI nr-aa BLAST: CBRC-MMUR-01-1260 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available ex With A Trapped Dead-Box Helicase Bound To Rna pdb|3EX7|C Chain C, The Crystal Structure Of Ejc In Its Transition State... pdb|3EX7|H Chain H, The Crystal Structure Of Ejc In Its Transition State 2HYI 0.0 93% ...

  4. Data of evolutionary structure change: 1BFOE-1MCEA [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available 1BFOE-1MCEA 1BFO 1MCE E A DIKMTQSPSFLSASVGDRVTLNCKASQ---NIDKYLNWY.../pdbChain> 1MCEA YYCSSYEGSDN EEEEE E 1MCE A 1MCEA 2 1MCE A 1MCEA...pdbChain>A 1MCEA CQVTH---EGSTV

  5. NCBI nr-aa BLAST: CBRC-MEUG-01-1177 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MEUG-01-1177 pdb|2VYA|A Chain A, Crystal Structure Of Fatty Acid Amide Hydrolase Conjugated... With The Drug-Like Inhibitor Pf-750 pdb|2VYA|B Chain B, Crystal Structure Of Fatty Acid Amide Hydrolase Conjugated With The Drug-Like Inhibitor Pf-750 2VYA 2e-26 79% ...

  6. Data of evolutionary structure change: 1AQ7A-2FODA [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available 1AQ7A-2FODA 1AQ7 2FOD A A IVGGYTCGANTVPYQVSLNSG-----YHFCGGSLINSQW...pdbChain>A 2FODA SLQYRSGSSWAHTCG 2FOD A 2FODA PLHCLVNGQYAVHG 2FOD A 2FODA...pdbChain> 2FODA TRTNG-QLAQT -

  7. Domain Modeling: NP_003151.2 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_003151.2 chr19 STRUCTURE OF AURORA B KINASE IN COMPLEX WITH ZM447439 p2bfxa_ chr19/NP_003151....2/NP_003151.2_apo_2-271.pdb p2vrxb_ chr19/NP_003151.2/NP_003151.2_holo_2-271.pdb blast 15L,16G,

  8. Domain Modeling: NP_037361.1 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_037361.1 chr12 WDR5 AND UNMODIFIED HISTONE H3 COMPLEX AT 2.25 ANGSTROM p2gnqa_ chr12/NP_037361....1/NP_037361.1_apo_603-900.pdb p2co0c_ chr12/NP_037361.1/NP_037361.1_holo_603-900.pdb blast 60

  9. Domain Modeling: NP_001997.5 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_001997.5 chr4 Snow Flea Antifreeze Protein Quasi-racemate p2pnea_ chr4/NP_001997.5/NP_001997.5..._apo_27-110.pdb p3boga_ chr4/NP_001997.5/NP_001997.5_holo_27-110.pdb swppa 33P,34G,36A,60A,61G

  10. Domain Modeling: NP_003521.2 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_003521.2 chr6 Crystal structure of human nucleosome core particle d2arog1 chr6/NP_003521.2/NP_003521....2_apo_38-136.pdb c2cv5e_ chr6/NP_003521.2/NP_003521.2_holo_38-136.pdb blast 38K,40H,41R

  11. Domain Modeling: NP_036421.2 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_036421.2 chr19 Crystal structure of Keap1 complexed with Prothymosin alpha d1u6dx_ chr19/NP_036421....2/NP_036421.2_apo_324-613.pdb c2z32a_ chr19/NP_036421.2/NP_036421.2_holo_324-613.pdb blas

  12. Domain Modeling: NP_116761.2 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_116761.2 chr18 EF-hand modules in multidomain proteins d1eg3a1 chr18/NP_116761.2/NP_116761....2_apo_9-142.pdb d1eg4a1 chr18/NP_116761.2/NP_116761.2_holo_9-142.pdb psi-blast 1 ...

  13. Domain Modeling: NP_002211.1 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_002211.1 chr15 Snow Flea Antifreeze Protein Quasi-racemate p2pnea_ chr15/NP_002211.1/NP_002211....1_apo_63-142.pdb p3boga_ chr15/NP_002211.1/NP_002211.1_holo_63-142.pdb swppa 69G,70L,72R,93P,

  14. Data of evolutionary structure change: 1DCLA-2A6JA [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available SKQSN-NKYAA >EEE - EEEE> ATOM 12.../pdbID> A 2A6JA DQDSKDSTYSM ...> EEE> ATOM 4583 CA ASP A 165 -0.337 -1.853 43.598 1...ture>EEEE -- EEE> ATOM 1462 CA CYS A 1...pdbID> A 2A6JA CEATHKTSTSPI

  15. NCBI nr-aa BLAST: CBRC-OPRI-01-1400 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-OPRI-01-1400 pdb|3D2F|B Chain B, Crystal Structure Of A Complex Of Sse1p And H...sp70 pdb|3D2F|D Chain D, Crystal Structure Of A Complex Of Sse1p And Hsp70 3D2F 1e-171 94% ...

  16. NCBI nr-aa BLAST: CBRC-OLAT-23-0001 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-OLAT-23-0001 pdb|2P0A|A Chain A, The Crystal Structure Of Human Synapsin Iii (Syn3) In Complex... With Amppnp pdb|2P0A|B Chain B, The Crystal Structure Of Human Synapsin Iii (Syn3) In Complex With Amppnp 2P0A 1e-06 60% ...

  17. NCBI nr-aa BLAST: CBRC-DDIS-02-0170 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-DDIS-02-0170 pdb|2JC6|A Chain A, Crystal Structure Of Human Calmodulin-Depende...nt Protein Kinase 1d pdb|2JC6|C Chain C, Crystal Structure Of Human Calmodulin-Dependent Protein Kinase 1d 2JC6 9e-44 41% ...

  18. Data of evolutionary structure change: 1LA6B-1C7BA [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available -YDDIG >GGG --HHHHH> ATOM 1233 C...pdbChain> 1C7BA WGKVGAHAGEYG >HHHHGGGHHHHH...pdbChain> 1LA6B QRYFI-----MSNAN >GGG ----- HH.../entryIDChain> KTYFPHFDLSHGSAQ >GGG HH> > ATOM 1430 CA GLN B 39 8.656 -4.420 -18.548 1.00 34.33

  19. Domain Modeling: NP_002932.1 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_002932.1 chr3 DROSOPHILA ROBO IG1-2 (MONOCLINIC FORM) p2vrad_ chr3/NP_002932.1/NP_002932....1_apo_68-258.pdb p2vrab_ chr3/NP_002932.1/NP_002932.1_holo_68-258.pdb blast 81K,131R,132I,133V,134H

  20. Domain Modeling: NP_001009882.1 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_001009882.1 chr1 Crystal structure of human myristoyl-CoA:protein N-myristoyltra...nsferase. d1rxta_ chr1/NP_001009882.1/NP_001009882.1_apo_91-233.pdb c1rxtc_ chr1/NP_001009882.1/NP_001009882.1_holo_91-233.pdb forte 197E CMO 1 ...

  1. Domain Modeling: NP_694962.1 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_694962.1 chr17 Crystal structure of Skp1-Skp2-Cks1 in complex with a p27 peptide... c1fqva_ chr17/NP_694962.1/NP_694962.1_apo_14-353.pdb c2astb_ chr17/NP_694962.1/NP_694962.1_holo_14-353.pdb

  2. Domain Modeling: NP_002537.3 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_002537.3 chr8 Crystal structure of the human BTLA-HVEM complex c1jmab_ chr8/NP_002537.3/NP_002537....3_apo_32-123.pdb c2aw2b_ chr8/NP_002537.3/NP_002537.3_holo_32-123.pdb blast 95Q,96E NAG 1 ...

  3. 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

  4. Domain Modeling: NP_065857.1 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_065857.1 chr14 Structural basis of dynamic glycine receptor clustering c2fu3a_ chr14/NP_065857....1/NP_065857.1_apo_351-769.pdb c1t3eb_ chr14/NP_065857.1/NP_065857.1_holo_351-769.pdb blast 35

  5. Domain Modeling: NP_001018067.1 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_001018067.1 chr11 HUMAN NOTCH-1 EGFS 11-13 c1toza_ chr11/NP_001018067.1/NP_001018067....1_apo_32-142.pdb c2vj3a_ chr11/NP_001018067.1/NP_001018067.1_holo_32-142.pdb psi-blast 212R,213D,214C,2

  6. Domain Modeling: NP_002742.3 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_002742.3 chr22 Protein kinases, catalytic subunit d2onla1 chr22/NP_002742.3/NP_002742....3_apo_4-351.pdb d1leza_ chr22/NP_002742.3/NP_002742.3_holo_4-351.pdb blast 110G,111A,115N,116I,118K,11

  7. Domain Modeling: NP_945352.1 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_945352.1 chr9 Snow Flea Antifreeze Protein Quasi-racemate p2pnea_ chr9/NP_945352.1/NP_945352....1_apo_14-116.pdb p3boga_ chr9/NP_945352.1/NP_945352.1_holo_14-116.pdb swppa 20A,21H,23R,30L,44P

  8. Data of evolutionary structure change: 1QRZD-2IOTA [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available 1QRZD-2IOTA 1QRZ 2IOT D A FDCGKPQVEPKKCPGRVVGGCVAHPHSWPWQVSLRTRF-.../pdbChain> 2IOTA LQYRSGSSWAHTC EEEEE ...01373291016 tion> -0.07999999821186066 0.7400000095367432 0.6669999957...6743 -0.14800000190734863 0.2770000100135803 tion> .../pdbID> A 2IOTA HGVTS

  9. NCBI nr-aa BLAST: CBRC-MEUG-01-1177 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MEUG-01-1177 pdb|2WAP|A Chain A, 3d-Crystal Structure Of Humanized-Rat Fatty A...cid Amide Hydrolase (Faah) Conjugated With The Drug-Like Urea Inhibitor Pf-3845 pdb|2WAP|B Chain B, 3d-Crystal Structure Of Humanized

  10. Houtman Abrolhos Isotope (delta 18O, delta 13C) Data for 1795 to 1994

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — DESCRIPTION: VARIABLES AND UNITS: Column #1: core depth in mm Column #2: delta C-13 vs V-PDB Column #3: delta O-18 vs V-PDB Column #4: assigned date in years A.D....

  11. NCBI nr-aa BLAST: CBRC-CINT-01-0166 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-CINT-01-0166 pdb|1PNF|A Chain A, Pngase F Complex With Di-N-Acetylchitobiose p...db|1PNG|A Chain A, Crystal Structure Of Peptide-N(4)-(N-Acetyl-Beta-D- Glucosaminyl) Asparagine Amidase At 2.2 Angstroms Resolution 1PNF 1e-07 25% ...

  12. NCBI nr-aa BLAST: CBRC-OPRI-01-0218 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available neurons protein 2 pdb|3HAJ|A Chain A, Crystal Structure Of Human Pacsin2 F-Bar Domain (P212121 Lattice) pdb...|3HAJ|B Chain B, Crystal Structure Of Human Pacsin2 F-Bar Domain (P212121 Lattice

  13. NCBI nr-aa BLAST: CBRC-MLUC-01-0889 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available neurons protein 2 pdb|3HAJ|A Chain A, Crystal Structure Of Human Pacsin2 F-Bar Domain (P212121 Lattice) pdb...|3HAJ|B Chain B, Crystal Structure Of Human Pacsin2 F-Bar Domain (P212121 Lattice

  14. NCBI nr-aa BLAST: CBRC-PHAM-01-1678 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available neurons protein 2 pdb|3HAJ|A Chain A, Crystal Structure Of Human Pacsin2 F-Bar Domain (P212121 Lattice) pdb...|3HAJ|B Chain B, Crystal Structure Of Human Pacsin2 F-Bar Domain (P212121 Lattice

  15. 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

  16. Domain Modeling: NP_112562.3 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_112562.3 chr17 Src kinase in complex with a quinazoline inhibitor c1fmka_ chr17/NP_112562.3/NP_112562.3..._apo_71-521.pdb c2h8ha_ chr17/NP_112562.3/NP_112562.3_holo_71-521.pdb psi-blast 244F,

  17. NCBI nr-aa BLAST: CBRC-PHAM-01-1519 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-PHAM-01-1519 pdb|2JL6|J Chain J, Insights Into Translational Termination From ...The Structure Of Rf2 Bound To The Ribosome (Part 2 Of 4). This File Contains The 50s Subunit. pdb|2JL8|J Chain J, Insight

  18. Gene : CBRC-PHAM-01-1519 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-PHAM-01-1519 Novel UN D UNKNOWN VGLX_EHV1V 2e-06 30% pdb|2JL6|J Chain J, Insight...Contains The 50s Subunit. pdb|2JL8|J Chain J, Insights Into Translational Termination From The Structure Of

  19. NCBI nr-aa BLAST: CBRC-TTRU-01-0296 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-TTRU-01-0296 pdb|2JL6|J Chain J, Insights Into Translational Termination From ...The Structure Of Rf2 Bound To The Ribosome (Part 2 Of 4). This File Contains The 50s Subunit. pdb|2JL8|J Chain J, Insight

  20. Domain Modeling: NP_938207.2 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_938207.2 chr17 Src kinase in complex with a quinazoline inhibitor c1fmka_ chr17/NP_938207.2/NP_938207....2_apo_71-521.pdb c2h8ha_ chr17/NP_938207.2/NP_938207.2_holo_71-521.pdb psi-blast 244F,

  1. Domain Modeling: NP_001073591.1 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_001073591.1 chr20 Prion-like d1qlza_ chr20/NP_001073591.1/NP_001073591.1_apo_125...-228.pdb d1i4ma_ chr20/NP_001073591.1/NP_001073591.1_holo_125-228.pdb blast 140H,141F,147D,151R,177H,181N 12

  2. 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 ...

  3. 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

  4. OXYGEN ISOTOPIC COMPOSITIONS OF THE ALLENDE TYPE C CAIs: EVIDENCE FOR ISOTOPIC EXCHANGE DURING NEBULAR MELTING AND ASTEROIDAL THERMAL METAMORPHISM

    Energy Technology Data Exchange (ETDEWEB)

    Krot, A N; Chaussidon, M; Yurimoto, H; Sakamoto, N; Nagashima, K; Hutcheon, I D; MacPherson, G J

    2008-02-21

    Based on the mineralogy and petrography, coarse-grained, igneous, anorthite-rich (Type C) calcium-aluminum-rich inclusions (CAIs) in the CV3 carbonaceous chondrite Allende have been recently divided into three groups: (i) CAIs with melilite and Al,Ti-diopside of massive and lacy textures (coarse grains with numerous rounded inclusions of anorthite) in a fine-grained anorthite groundmass (6-1-72, 100, 160), (ii) CAI CG5 with massive melilite, Al,Ti-diopside and anorthite, and (iii) CAIs associated with chondrule material: either containing chondrule fragments in their peripheries (ABC, TS26) or surrounded by chondrule-like, igneous rims (93) (Krot et al., 2007a,b). Here, we report in situ oxygen isotopic measurements of primary (melilite, spinel, Al,Ti-diopside, anorthite) and secondary (grossular, monticellite, forsterite) minerals in these CAIs. Spinel ({Delta}{sup 17}O = -25{per_thousand} to -20{per_thousand}), massive and lacy Al,Ti-diopside ({Delta}{sup 17}O = -20{per_thousand} to -5{per_thousand}) and fine-grained anorthite ({Delta}{sup 17}O = -15{per_thousand} to -2{per_thousand}) in 100, 160 and 6-1-72 are {sup 16}O-enriched relative spinel and coarse-grained Al,Ti-diopside and anorthite in ABC, 93 and TS26 ({Delta}{sup 17}O ranges from -20{per_thousand} to -15{per_thousand}, from -15{per_thousand} to -5{per_thousand}, and from -5{per_thousand} to 0{per_thousand}, respectively). In 6-1-72, massive and lacy Al,Ti-diopside grains are {sup 16}O-depleted ({Delta}{sup 17}O {approx} -13{per_thousand}) relative to spinel ({Delta}{sup 17}O = -23{per_thousand}). Melilite is the most {sup 16}O-depleted mineral in all Allende Type C CAIs. In CAI 100, melilite and secondary grossular, monticellite and forsterite (minerals replacing melilite) are similarly {sup 16}O-depleted, whereas grossular in CAI 160 is {sup 16}O-enriched ({Delta}{sup 17}O = -10{per_thousand} to -6{per_thousand}) relative to melilite ({Delta}{sup 17}O = -5{per_thousand} to -3{per_thousand}). We infer

  5. EST Table: AV404143 [KAIKOcDNA[Archive

    Lifescience Database Archive (English)

    Full Text Available AV404143 pg--0524 11/12/09 n.h 10/09/28 100 %/131 aa pdb|3FZB|A Chain A, Crystal Structure... Of The Tail Terminator Protein From Phage Lambda (Gpu-Wt) pdb|3FZB|B Chain B, Crystal Structure Of T...he Tail Terminator Protein From Phage Lambda (Gpu-Wt) pdb|3FZB|C Chain C, Crystal Structure Of The Tail Term...inator Protein From Phage Lambda (Gpu-Wt) pdb|3FZB|D Chain D, Crystal Structure O...f The Tail Terminator Protein From Phage Lambda (Gpu-Wt) pdb|3FZB|E Chain E, Crystal Structure Of The Tail T

  6. Natural and anthropogenic nitrogen uptake by bloom-forming macroalgae

    Energy Technology Data Exchange (ETDEWEB)

    Thornber, Carol S. [Department of Biological Sciences, 100 Flagg Road, University of Rhode Island, Kingston, RI 02881 (United States)], E-mail: thornber@uri.edu; DiMilla, Peter; Nixon, Scott W. [Graduate School of Oceanography, University of Rhode Island, South Ferry Road, Narragansett, RI 02881 (United States); McKinney, Richard A. [US Environmental Protection Agency, Atlantic Ecology Division, 27 Tarzwell Drive, Narragansett, RI 02882 (United States)

    2008-02-15

    The frequency and duration of macroalgal blooms have increased in many coastal waters over the past several decades. We used field surveys and laboratory culturing experiments to examine the nitrogen content and {delta}{sup 15}N values of Ulva and Gracilaria, two bloom-forming algal genera in Narragansett Bay, RI (USA). The northern end of this bay is densely populated with large sewage treatment plant nitrogen inputs; the southern end is more lightly populated and opens to the Atlantic Ocean. Field-collected Ulva varied in {delta}{sup 15}N among sites, but with two exceptions had {delta}{sup 15}N above 10 per mille , reflecting a significant component of heavy anthropogenic N. This variation was not correlated with a north-south gradient. Both Ulva and Gracilaria cultured in water from across Narragansett Bay also had high signals ({delta}{sup 15}N = {approx}14-17 per mille and 8-12 per mille , respectively). These results indicate that inputs of anthropogenic N can have far-reaching impacts throughout estuaries.

  7. Complex Modified Korteweg--DeVries equation, a non-integrable evolution equation

    Energy Technology Data Exchange (ETDEWEB)

    Karney, C.F.F.; Sen, A.; Chu, F.Y.F.

    1978-06-01

    The two-dimensional steady-state propagation of electrostatic waves is governed by delta v/delta tau + delta/sup 3/v/delta xi/sup 3/ + delta((absolute value of v)/sup 2/v)/delta xi = 0, the Complex Modified Korteweg-DeVries equation. The properties of this equation are studied.

  8. Detection of low momentum protons with the new HERMES recoil detector

    Energy Technology Data Exchange (ETDEWEB)

    Vilardi, Ignazio

    2008-10-15

    In this theis the recoil detector for the HERMES experiment at HERA is described. It consists of a silicon strip detector, a scintillating fiber tracker, and a photon detector for the {delta}{sup +} background rejection, all surrounded by a superconducting 1 Tesla solenoid. Results of cosmic ray tests are presented. (HSI)

  9. A study of the carbon dynamics of Japanese grassland and forest using {sup 14}C and {sup 13}C

    Energy Technology Data Exchange (ETDEWEB)

    Katsuno, Kazumi, E-mail: katsuno@nenv.k.u-tokyo.ac.j [University of Tokyo, Department of Natural Environmental Studies, Graduate School of Frontier Sciences, 5-1-5, Kashiwanoha, Kashiwa-shi, Chiba 277-8561 (Japan); Miyairi, Yosuke [University of Tokyo, Department of Nuclear Engineering and Management, School of Engineering, 2-11-16 Yayoi, Bunkyo-ku, Tokyo 113-0032 (Japan); Tamura, Kenji [University of Tsukuba, Graduate School of Life and Environmental Sciences, 1-1-1 Tennnodai, Tsukuba-shi, Ibaraki 305-8577 (Japan); Matsuzaki, Hiroyuki [University of Tokyo, Department of Nuclear Engineering and Management, School of Engineering, 2-11-16 Yayoi, Bunkyo-ku, Tokyo 113-0032 (Japan); Fukuda, Kenji [University of Tokyo, Department of Natural Environmental Studies, Graduate School of Frontier Sciences, 5-1-5, Kashiwanoha, Kashiwa-shi, Chiba 277-8561 (Japan)

    2010-04-15

    We quantified the carbon contents of grassland and forest soil using conventional methods and studied the changes in their dynamics by measuring delta{sup 13}C and DELTA{sup 14}C. Soil samples were taken from a neighboring Miscanthus sinensis grassland and Pinus densiflora forest in central Japan. Both had been maintained as grassland until the 1960s, when the latter was abandoned and became a pine forest by natural succession. The soil carbon content of the forest was much lower than that of the grassland, implying that the soil carbon decreased as the grassland became forest. The delta{sup 13}C values were very similar in the grassland and forest, at approximately -20 per mille , suggesting that M. sinensis (a C4 plant) contributed to carbon storage, whereas there was little carbon accumulation from P. densiflora (a C3 plant) in forest soil. The DELTA{sup 14}C values and calculated soil carbon mean residence time (MRT) showed that the soil carbon in the upper A horizon was older, and that in the lower A horizon was younger in forest than in grassland. From these results, we conclude that young, fast-MRT soil carbon is decomposed in the upper A horizon, and old, stable soil carbon was decomposed in the lower A horizon after the pine invasion.

  10. Stable isotope ratios of the atmospheric CH{sub 4}, CO{sub 2} and N{sub 2}O in Tokai-mura

    Energy Technology Data Exchange (ETDEWEB)

    Porntepkasemsan, Boonsom; Andoh, Mariko A.; Amano, Hikaru [Japan Atomic Energy Research Inst., Tokai, Ibaraki (Japan). Tokai Research Establishment

    2000-11-01

    This report presents the results and interpretation of stable isotope ratios of the atmospheric CH{sub 4}, CO{sub 2} and N{sub 2}O from a variety of sources in Tokai-mura. The seasonal changes of {delta}{sup 13}CH{sub 4}, {delta}{sup 13}CO{sub 2} and {delta}{sup 15}N{sub 2}O were determined under in-situ conditions in four sampling sites and one control site. Such measurements are expected to provide a useful means of estimating the transport mechanisms of the three trace gases in the environment. These isotopic signatures were analyzed by Isotope Ratio Mass Spectrometer (IRMS, Micromass Isoprime). Our data showed the significant seasonal fluctuation in the Hosoura rice paddy during the entire growing season in 1999. Possible causes for the variation are postulated. Additional measurements on soil properties and on organic {delta}{sup 13}C in rice plant are suggested. Cited outstanding original papers are summarized in the references. (author)

  11. Weathering of the black limestone of historical monuments (Ljubljana, Slovenia): Oxygen and sulfur isotope composition of sulfate salts

    Energy Technology Data Exchange (ETDEWEB)

    Kramar, Sabina, E-mail: sabina.kramar@rescen.si [Institute for the Protection of Cultural Heritage of Slovenia, Conservation Centre, Restoration Centre, Poljanska 40, 1000 Ljubljana (Slovenia); Mirtic, Breda [University of Ljubljana, Faculty of Natural Sciences and Engineering, Department of Geology, Askerceva 12, 1000 Ljubljana (Slovenia); Knoeller, Kay [UFZ Helmholtz-Centre for Environmental Research, Department of Isotope Hydrology, Theodor-Lieser-Str. 4, 06120 Halle (Germany); Rogan-Smuc, Nastja [University of Ljubljana, Faculty of Natural Sciences and Engineering, Department of Geology, Askerceva 12, 1000 Ljubljana (Slovenia)

    2011-09-15

    Highlights: > Weathering of the black limestone on historical monuments. > Oxygen and sulfur isotope composition of sulfate salts (outdoors and indoors). > A data exhibit more scattered {delta}{sup 34}S values with respect to {delta}{sup 18}O values. - Abstract: The black limestone widely used in Slovenian monuments, particularly in the baroque architecture, is deteriorating extensively due to salt crystallization. Samples of soluble salts from two important historical monuments (in Ljubljana, Slovenia) were investigated in terms of their mineral and isotopic (S and O) compositions. Results revealed the presence of gypsum and soluble salts of the MgSO{sub 4}.nH{sub 2}O series, such as starkeyite (MgSO{sub 4}.4H{sub 2}O), pentahydrite (MgSO{sub 4}.5H{sub 2}O) and hexahydrite (MgSO{sub 4}.6H{sub 2}O). Whereas black crusts and subflorescences consisted of gypsum, efflorescences appeared to be an assemblage of gypsum and MgSO{sub 4} hydrates. Sample {delta}{sup 18}O{sub sulfate} values varied from -1.9 per mille to +5.5 per mille vs. V-SMOW and {delta}{sup 34}S{sub sulfate} values from -19.8 per mille to +3.2 per mille vs. V-CDT. The respective isotopic composition of analysed outdoor and indoor monument samples indicated different sources of contamination.

  12. Some petrologic and oxygen isotopic relationships in the amulet mine, noranda, quebec, and their bearing on the origin of archean massive sulfide deposits

    Energy Technology Data Exchange (ETDEWEB)

    Beaty, D.W.; Taylor, H.P. Jr.

    A concentrically zoned alteration pipe is present at the Amulet ''A'' Cu-Zn mine in the Archean Abitibi greenstone belt. The pipe consists of a central core zone of so-called ''dalmatianite'' surrounded by a zone of biotite-bearing grid-fracture alteration. Study of the dalmatianite indicates that these rocks experienced two episodes of recrystallization. Whole-rock /delta//sup 18/O values decrease from about 6 to 10 in most of the Abitibi belt to 5 to 7 in the country rocks surrounding the ore deposit, to values as low as 3.6 in the core of the dalmatianite zone. This oxygen isotopic zoning must have been produced by the hydrothermal activity, because the dehydration reactions associated with contact metamorphism cannot have affected /delta//sup 18/O by more than 0.5 per mil. Assuming an alteration temperature of 300/degree/sub p/lus or minus/50/degree/C and a water/rock ratio greater than two, the hydrothermal fluid must have had /delta//sup 18/O .0.5/plus or minus/1.0. This indicates that the Amulet ore deposit formed from a hydrothermal fluid that had a /delta//sup 18/O value similar both to modern seawater and to the fluids which formed the Phanerozoic massive sulfide deposits of the Kuroko and Cyprus types. 51 refs.

  13. Volcanic rock-hosted gold and base-metal mineralization associated with neoproterozoic-early Paleozoic back-arc extension in the Carolina terrane, southern Appalachian Piedmont

    Energy Technology Data Exchange (ETDEWEB)

    Feiss, P.G. (Univ. of North Carolina, Chapel Hill (United States)); Vance, R.K. (Georgia Southern Univ., Statesboro (United States)); Wesolowski, D.J. (Oak Ridge National Lab., TN (United States))

    1993-05-01

    Volcanogenic mineral deposits in the Carolina terrane, southern Appalachian Piedmont, include Kuroko-type polymetallic massive sulfide deposits and disseminated gold-pyrite deposits associated with propylitic, silicic, argillic, and advanced argillic alteration. Host rocks are metavolcaniclastic and metaepiclastic rocks of a Neoproterozoic-Early Cambrian magmatic arc. The favorable gold horizon is the transition from a lower succession of andesitic and rhyolitic pyroelastic rocks with basal mafic lavas to an upper sequence of epiclastic sedimentary units and minor lava and ash flows. Kuroko-type deposits are associated with mafic to bimodal volcanic rocks in the upper sequence. Whole-rock oxygen isotope analyses indicate that gold mineralization is associated with a transition from hydrothermal systems dominated by isotopically relatively light ([delta][sup 18]O = -6% to -10%) waters, typical of high-latitude subaerial systems, to seawater ([delta][sup 18]O = 0%). Plots of [delta][sup 18]O vs. SiO[sub 2] of the host rocks show a compositional gap associated with mineralization at the subaerial to submarine transition. Values of [delta][sup 18]O for the hydrothermal waters, lithostratigraphic analyses, and tectonic models of the Carolina terrane demonstrate that mineralization coincided with extension in a rifted arc. 34 refs., 3 figs.

  14. Response of stable carbon isotope in epilithic mosses to atmospheric nitrogen deposition

    Energy Technology Data Exchange (ETDEWEB)

    Liu Xueyan, E-mail: liuxueyan@vip.skleg.c [State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, Guiyang 550002 (China); Xiao Huayun; Liu Congqiang [State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, Guiyang 550002 (China); Li Youyi; Xiao Hongwei; Wang Yanli [State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, Guiyang 550002 (China); Graduate University of Chinese Academy of Sciences, Yuquanlu, Beijing 100049 (China)

    2010-06-15

    Epilithic mosses are characterized by insulation from substratum N and hence meet their N demand only by deposited N. This study investigated tissue C, total Chl and delta{sup 13}C of epilithic mosses along 2 transects across Guiyang urban (SW China), aiming at testing their responses to N deposition. Tissue C and total Chl decreased from the urban to rural, but delta{sup 13}C{sub moss} became less negative. With measurements of atmospheric CO{sub 2} and delta{sup 13}CO{sub 2}, elevated N deposition was inferred as a primary factor for changes in moss C and isotopic signatures. Correlations between total Chl, tissue C and N signals indicated a nutritional effect on C fixation of epilithic mosses, but the response of delta{sup 13}C{sub moss} to N deposition could not be clearly differentiated from effects of other factors. Collective evidences suggest that C signals of epilithic mosses are useful proxies for N deposition but further works on physiological mechanisms are still needed. - Photosynthetic {sup 13}C discrimination of bryophytes might increase with elevated N deposition.

  15. Proto-neutron stars with delta-resonances using the Zimanyi-Moszkowski model

    Energy Technology Data Exchange (ETDEWEB)

    Gomes, Luzinete Vilanova da Silva [Secretaria de Educacao, Cultura e Desportos do Estado de Roraima (SECD), RR (Brazil); Oliveira, Jose Carlos Teixeira de [Centro Federal de Educacao Tecnologica (CEFET-RJ), Rio de Janeiro, RJ (Brazil); Duarte, Sergio Barbosa [Centro Brasileiro de Pesquisas Fisicas (CBPF), Rio de Janeiro, RJ (Brazil)

    2011-07-01

    Full text: In the present work we obtained the equation of state to be used to study the structure of proto-neutron stars. To this end, we adopted the model of Zimanyi-Moszkowski in the mean field approximation. In this model the equation of state consists of the octet of baryons of spin 1/2 (n, p, {Lambda}{sup 0}, {Sigma}{sup -}, {Sigma}{sup 0}, {Sigma}{sup +}, {Xi}{sup -}, {Xi}{sup 0}) and of the baryonic resonances of spin 3/2, represented by the delta matter ({Delta}{sup -}, {Delta}{sup 0}, {Delta}{sup +}, {Delta}{sup +}+ and by {Omega}{sup -}, in the baryonic sector. In the leptonic sector we consider the electrons, the muons and the trapped neutrinos. Thus, we studied the effects of the corresponding neutrinos on the equation of state during the initial formation of a neutron star. We discuss the structure of the proto-neutron stars including the delta resonances in their composition, and compared the results at the cooling phase induced by escape of neutrinos. From the equation of state obtained with this model we solve numerically the equation TOV (Tolman-Oppenheimer-Volkoff) and so we obtained the values of the maximum mass, before and after cooling. (author)

  16. Stellar delta matter with delta-meson coupling constants constrained by QCD sum rule

    Energy Technology Data Exchange (ETDEWEB)

    Silva, Antonio Ferreira da [Secretaria de Educacao, Cultura e Desportos do Estado de Roraima (SECD/RR), Boa Vista, RR (Brazil); Oliveira, Jose Carlos Teixeira de [Universidade Federal de Roraima (UFRR), Boa Vista, RR (Brazil); Rodrigues, Hilario [Centro Federal de Educacao Tecnologica (CEFET-RJ), Rio de Janeiro, RJ (Brazil); Duarte, Sergio Barbosa [Centro Brasileiro de Pesquisas Fisicas (CBPF), Rio de Janeiro, RJ (Brazil); Chiapparini, Marcelo [Universidade do Estado do Rio de Janeiro (UERJ), RJ (Brazil)

    2010-07-01

    The considerable presence of delta-resonances (30% of baryonic population) in the dense phase of relativistic heavy ion collisions leads to a great interest in the study of the delta matter formation in the deep interior of compact stars. In the present work we determine the equation of state and the population of baryons and leptons and discuss the effects of the baryon-meson coupling constants to the formation of delta matter in the stellar medium. We use the non-linear Walecka model consisting of the octet of baryons of spin 1=2 (n, p, {Lambda}{sup 0}, {Sigma}{sup -}, {Sigma}{sup 0}, {Sigma}{sup +}, {Xi}{sup -}, {Xi}{sup 0}) and baryonic resonances of spin 3=2, represented by the delta resonances ({Delta}{sup -}, ({Delta}{sup 0}, ({Delta}{sup +}, ({Delta}{sup ++}) and {Omega}{sup -}, in the baryonic sector. In the leptonic sector we consider the electrons and muons. The coupling constants between the hyperons {Lambda}, {Sigma}, and {Xi} and the mesons {omega} and {rho} are fixed by using SU(6) symmetry, while the hyperons-{sigma} coupling constants are constrained by the consistence of the hypernuclear potential in the nuclear matter with hypernuclear data. In addition, we use the finite density QCD sum rule to determine the possible values of delta-meson coupling constants. (author)

  17. Isotope compositions of dissolved lithium in the rivers Jinshajiang, Lancangjiang, and Nujiang: Implications for weathering in Qinghai-Tibet Plateau

    Energy Technology Data Exchange (ETDEWEB)

    Liu Congqiang, E-mail: liucongqiang@vip.skleg.cn [State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, No. 46, Guanshui Rd., Guiyang 550002 (China); Zhao Zhiqi; Wang Qilian; Gao Bo [State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, No. 46, Guanshui Rd., Guiyang 550002 (China)

    2011-06-15

    The Li isotope geochemistry of the Jinshajiang (upper reach of the Changjiang), Lancangjiang (Meckong) and the Nujiang (Salween) rivers have been studied to better understanding the weathering of continental crust. The three rivers show different water geochemistry, the Jinshajiang followed by the Lancangjiang contains much solute from dissolution of evaporites; the Jinshajiang has the highest average Li content and {delta}{sup 7}Li values. The relatively low {delta}{sup 7}Li values (+4.74{approx}+12.9 per mille) of the river waters, compared to those of large rivers in the world, probably reflect less weathering intensity in this arid and cold region. The Jinshajiang water has relatively high and constant {delta}{sup 7}Li values, and is considered to be affected by evaporite dissolution and the high {delta}{sup 7}Li values indicating that precipitation of salt minerals might have resulted in enrichment of {sup 7}Li in the remaining water. It is thought that H{sub 2}SO{sub 4} has been involved in crustal weathering in the region, especially in the Nujiang basin.

  18. Isotopic data of pore water extracted from unsaturated-zone cores at Yucca Mountain, Nevada

    Energy Technology Data Exchange (ETDEWEB)

    Yang, I.C.

    1997-12-01

    Isotopic compositions of unsaturated-zone (UZ) ground water ({delta}{sup 18}O, {delta}D, {delta}{sup 13}C and {sup 14}C) at Yucca Mountain, Nevada, the site of a potential permanent national nuclear waste repository, can be used to infer the origins of water, residence times of the water, water flux, climatic and evaporative history of water, flow paths and velocities. These data can also be used as indicators of transport properties or water-rock interaction. The lack of long-term direct measurements of infiltration requires proxy indicators of water movement through the unsaturated zone to extend the record into the past. This report will discuss {delta}D and {delta}{sup 18}O data obtained from pore water, along with the {delta}{sup 13}C and {sup 14}C data of gas and water obtained from four boreholes dry-drilled through all UZ lithologic units to infer the existence of nonvertical flowpaths through the mountain and residence times of pore water.

  19. Mercury and flooding cycles in the Tapajos river basin, Brazilian Amazon: The role of periphyton of a floating macrophyte (Paspalum repens)

    Energy Technology Data Exchange (ETDEWEB)

    Coelho-Souza, Sergio A., E-mail: sacs@biof.ufrj.br [Lab. Tracadores Wolfgang C. Pfeiffer, SL 049, Instituto de Biofisica Carlos Chagas Filho/UFRJ, Bloco G, Centro de Ciencias e Saude, Ilha do Fundao, Rio de Janeiro, RJ, CEP 21949-902 (Brazil); Guimaraes, Jean R.D.; Miranda, Marcio R. [Lab. Tracadores Wolfgang C. Pfeiffer, SL 049, Instituto de Biofisica Carlos Chagas Filho/UFRJ, Bloco G, Centro de Ciencias e Saude, Ilha do Fundao, Rio de Janeiro, RJ, CEP 21949-902 (Brazil); Poirier, Hugo [Chaire de Reserche en Environment, Universite du Quebec a Montreal (UQaM), CP 8888, Montreal, H3C 3P8 (Canada); Mauro, Jane B.N. [Lab. Tracadores Wolfgang C. Pfeiffer, SL 049, Instituto de Biofisica Carlos Chagas Filho/UFRJ, Bloco G, Centro de Ciencias e Saude, Ilha do Fundao, Rio de Janeiro, RJ, CEP 21949-902 (Brazil); Lucotte, Marc [Chaire de Reserche en Environment, Universite du Quebec a Montreal (UQaM), CP 8888, Montreal, H3C 3P8 (Canada); Mergler, Donna [CINBIOSE, UQaM, CP 8888, succ. Centre-ville, Montreal, H3C 3P8 (Canada)

    2011-06-15

    Methylmercury (MeHg) increases mercury (Hg) toxicity and is biomagnified in the trophic chain contaminating riverine Amazon populations. Freshwater macrophyte roots are a main site of Hg methylation in different Brazilian environments. Paspalum repens periphyton was sampled in four floodplain lakes during the dry, rainy and wet seasons for measurement of total Hg (THg), MeHg, Hg methylation potentials, %C, %N, {delta}{sup 13}C, {delta}{sup 15}N and bacterial heterotrophic production as {sup 3}H-leucine incorporation rate. THg concentration varied from 67 to 198 ng/g and the potential of Me{sup 203}Hg formation was expressive (1-23%) showing that periphyton is an important matrix both in the accumulation of Hg and in MeHg production. The concentration of MeHg varied from 1 to 6 ng/g DW and was positively correlated with Me{sup 203}Hg formation. Though methylmercury formation is mainly a bacterial process, no significant correlation was observed between the methylation potentials and bacterial production. The multiple regressions analyses suggested a negative correlation between THg and %C and %N and between methylation potential and {delta}{sup 13}C. The discriminant analysis showed a significant difference in periphyton {delta}{sup 15}N, {delta}{sup 13}C and THg between seasons, where the rainy season presented higher {delta}{sup 15}N and the wet period lighter {delta}{sup 13}C, lower THg values and higher Me{sup 203}Hg formation. This exploratory study indicates that the flooding cycle could influence the periphyton composition, mercury accumulation and methylmercury production. - Research highlights: {yields} During rainy season mercury (Hg{sup 2+}) is carried out from terrestrial to aquatic systems by runoff. {yields} Macrophyte roots accumulates Hg{sup 2+} from suspended particulate matter (SPM). {yields} Hg methylation increases during the wet season. {yields} Flooded forest is a source of labile organic carbon and bioavailable Hg. {yields} Macrophytes

  20. Rapid, storm-induced changes in the natural abundance of sup 15 N in a planktonic ecosystem, Chesapeake Bay, USA

    Energy Technology Data Exchange (ETDEWEB)

    Montoya, J.P.; McCarthy, J.J. (Harvard Univ., Cambridge, MA (United States)); Horrigan, S.G. (State Univ. of New York, Stony Brook (United States))

    1991-12-01

    Samples of dissolved inorganic nitrogen (DIN), particulate nitrogen (PN), and two species of zooplankton were collected during two north-south transects of the Chesapeake Bay in the autumn of 1984 (27-28 September and 3-5 October). During the first transect, the natural abundance of {sup 15}N ({delta} {sup 15}N) in the major dissolved and planktonic pools of nitrogen suggested that the {delta}{sup 15}N of PN was largely determined by isotopic fractionation during uptake of NH{sub 4}{sup +} by phytoplankton. Averaged over the transect as a whole, the {delta}{sup 15}N of the herbivorous calanoid copepod Acartia tonsa was 4.1% higher than that of the PN, while the {delta}{sup 15}N of the carnivorous ctenophore Mnemiopsis leidyi was 6.4% higher than that of the PN. In the interval between the two transects, storm-induced mixing of the water column resulted in the injection of NH{sub 4}{sup +} into the surface layer of the bay. In combination with ancillary physical, chemical, and biological data, these changes in {delta}{sup 15}N provided estimates of the isotopic fractionation factor for NH{sub 4}{sup +} uptake by phytoplankton ({alpha} = 1.0065-1.0080) as well as the turnover time of nitrogen in Acartia tonsa (6.0-9.6 days). Despite the changes in {delta}{sup 15}N observed during this cruise, the relative distribution of {sup 15}N between trophic levels was preserved: during the second transect, the difference in {delta}{sup 15}N between Acartia tonsa and PN was 3.6%, and the difference in {delta}{sup 15}N between Mnemiopsis leidyi and PN was 7.3%. These results demonstrate that the natural abundance of {sup 15}N can change dramatically on a time scale of days, and that time-series studies of the natural abundance of {sup 15}N can be a useful complement to studies using tracer additions of {sup 15}N to document nitrogen transformations in planktonic ecosystems.

  1. Mothball withdrawal encephalopathy: case report and review of paradichlorobenzene neurotoxicity.

    Science.gov (United States)

    Cheong, Raymond; Wilson, Robin K; Cortese, Irene C M; Newman-Toker, David E

    2006-12-01

    Paradichlorobenzene (PDB) is a common household deodorant and pesticide found in room deodorizers, toilet bowl fresheners, and some mothballs. Although human exposure to the compound is generally limited and harmless, PDB in larger doses can produce neurotoxic effects, including a chemical "high" similar to that seen with inhalants such as toluene. Although rare, frank addiction to PDB has been reported, and, in such cases, has been associated with gait ataxia, tremor, dysarthria, limb weakness, and bradyphrenia, in various combinations. In such cases, the adverse neurologic consequences have been presumed to result from a direct toxic effect of this small, organic molecule. We report a case of chronic mothball ingestion where profound encephalopathy with cognitive, pyramidal, extrapyramidal, and cerebellar features appears to have been largely the result of PDB withdrawal, rather than direct toxicity. This case raises important questions about the mechanism of PDB neurotoxicity and possible treatment options for PDB-addicted patients. We propose that in cases with clear clinical deterioration after abstinence, readministration and gradual taper of PDB might be considered a therapeutic option.

  2. Timely deposition of macromolecular structures is necessary for peer review

    Energy Technology Data Exchange (ETDEWEB)

    Joosten, Robbie P. [Netherlands Cancer Institute, Plesmanlaan 121, 1066 CX Amsterdam (Netherlands); Soueidan, Hayssam; Wessels, Lodewyk F. A. [Netherlands Cancer Institute, Plesmanlaan 121, 1066 CX, Amsterdam (Netherlands); Perrakis, Anastassis, E-mail: a.perrakis@nki.nl [Netherlands Cancer Institute, Plesmanlaan 121, 1066 CX Amsterdam (Netherlands)

    2013-12-01

    Deposition of crystallographic structures should be concurrent with or prior to manuscript submission for peer review, enabling validation and increasing reliability of the PDB. Most of the macromolecular structures in the Protein Data Bank (PDB), which are used daily by thousands of educators and scientists alike, are determined by X-ray crystallography. It was examined whether the crystallographic models and data were deposited to the PDB at the same time as the publications that describe them were submitted for peer review. This condition is necessary to ensure pre-publication validation and the quality of the PDB public archive. It was found that a significant proportion of PDB entries were submitted to the PDB after peer review of the corresponding publication started, and many were only submitted after peer review had ended. It is argued that clear description of journal policies and effective policing is important for pre-publication validation, which is key in ensuring the quality of the PDB and of peer-reviewed literature.

  3. An approach to creating a more realistic working model from a protein data bank entry

    Science.gov (United States)

    Brandon, Christopher J.; Martin, Benjamin P.; McGee, Kelly J.; Stewart, James J. P.; Braun-Sand, Sonja B.

    2015-01-01

    An accurate model of three-dimensional protein structure is important in a variety of fields such as structure-based drug design and mechanistic studies of enzymatic reactions. While the entries in the Protein Data Bank (http://www.pdb.org) provide valuable information about protein structures, a small fraction of the PDB structures were found to contain anomalies not reported in the PDB file. The semiempirical PM7 method in MOPAC2012 was used for identifying anomalously short hydrogen bonds, C–H···O/C–H···N interactions, non-bonding close contacts, and unrealistic covalent bond lengths in recently published Protein Data Bank files. It was also used to generate new structures with these faults removed. When the semiempirical models were compared to those of PDB_REDO (http://www.cmbi.ru.nl/pdb_redo/), the clashscores, as defined by MolProbity (http://molprobity.biochem.duke.edu/), were better in about 50 % of the structures. The semiempirical models also had a lower root-mean-square-deviation value in nearly all cases than those from PDB_REDO, indicative of a better conservation of the tertiary structure. Finally, the semiempirical models were found to have lower clashscores than the initial PDB file in all but one case. Because this approach maintains as much of the original tertiary structure as possible while improving anomalous interactions, it should be useful to theoreticians, experimentalists, and crystallographers investigating the structure and function of proteins. PMID:25605595

  4. ZNF687 Mutations in Severe Paget Disease of Bone Associated with Giant Cell Tumor.

    Science.gov (United States)

    Divisato, Giuseppina; Formicola, Daniela; Esposito, Teresa; Merlotti, Daniela; Pazzaglia, Laura; Del Fattore, Andrea; Siris, Ethel; Orcel, Philippe; Brown, Jacques P; Nuti, Ranuccio; Strazzullo, Pasquale; Benassi, Maria Serena; Cancela, M Leonor; Michou, Laetitia; Rendina, Domenico; Gennari, Luigi; Gianfrancesco, Fernando

    2016-02-04

    Paget disease of bone (PDB) is a skeletal disorder characterized by focal abnormalities of bone remodeling, which result in enlarged and deformed bones in one or more regions of the skeleton. In some cases, the pagetic tissue undergoes neoplastic transformation, resulting in osteosarcoma and, less frequently, in giant cell tumor of bone (GCT). We performed whole-exome sequencing in a large family with 14 PDB-affected members, four of whom developed GCT at multiple pagetic skeletal sites, and we identified the c.2810C>G (p.Pro937Arg) missense mutation in the zinc finger protein 687 gene (ZNF687). The mutation precisely co-segregated with the clinical phenotype in all affected family members. The sequencing of seven unrelated individuals with GCT associated with PDB (GCT/PDB) identified the same mutation in all individuals, unravelling a founder effect. ZNF687 is highly expressed during osteoclastogenesis and osteoblastogenesis and is dramatically upregulated in the tumor tissue of individuals with GCT/PDB. Interestingly, our preliminary findings showed that ZNF687, indicated as a target gene of the NFkB transcription factor by ChIP-seq analysis, is also upregulated in the peripheral blood of PDB-affected individuals with (n = 5) or without (n = 6) mutations in SQSTM1, encouraging additional studies to investigate its potential role as a biomarker of PDB risk.

  5. Reversal by arterial hypercapnia of phorbol ester-induced cerebrovascular constriction in piglets

    Energy Technology Data Exchange (ETDEWEB)

    Busija, D.W.; Smith, T.L.; Jing Chen (Bowman Gray School of Medicine, Winston-Salem, NC (United States))

    1991-03-11

    Phorbol 12,13 Dibutyrate (PDB), an activator of protein kinase C, causes pronounced and sustained constriction of piglet pial arterioles. The authors investigated whether a physiological stimulus, namely arterial hypercapnia, could still dilate pial arterioles in the presence of PDB. A closed cranial window was implanted over the parietal cortex of piglets, 1-5 days of age, and diameter of one arteriole determined by intravital microscopy. Diameter was determined during baseline conditions, after topical application of 10{sup {minus}6}M(n = 2) or 10{sup {minus}5}M(n = 4) PDB, and during arterial hypercapnia induced by inhalation of 10% CO{sub 2} air. PDB was flushed out from under the window prior to the latter two measurements. Arteriolar diameter was 130 {plus minus} 14 um (n = 6) during baseline, and decreased to 82 {plus minus} 13 um after PDB application. However, during arterial hypercapnia, diameter increased to 153 {plus minus} 14 um. Following hypercapnia, diameter returned to values seen in the presence of PDB alone. The authors conclude that arterial hypercapnia is able to counteract the effects of PDB, possibly by activating a more potent intracellular mechanism or by interfering with protein kinase C related events involved in smooth muscle contraction.

  6. Reconstruction of palaeoenvironmental change in a late Miocene peatland, as deduced from distribution patterns of lipid biomarkers and the carbon isotopic composition of individual n-alkanes

    Energy Technology Data Exchange (ETDEWEB)

    Johnny Briggs; David Large [University of Nottingham, Nottingham (United Kingdom). School of Chemical, Environmental and Mining Engineering

    2007-07-01

    In order to comprehend the processes of peatland evolution, and to make projections concerning the long-term response of the peatland carbon reservoir to environmental change, we consider thick lignite deposits formed over periods of 1 my. To explore the long-term response of peatland to changing climate, we have investigated the reaction of peatland plant communities to changes in the exogenic carbon cycle on timescales exceeding 100 ky. This was achieved by examining variations in bulk {delta}{sup 13}C, biomarker distributions, and compound specific {delta}{sup 13}C compositions of plant derived n-alkanes, from orbitally tuned early Miocene lignite. 21 samples were analysed from the Morwell 1B lignite, Gippsland Basin, Australia. These samples encompassed 27.8 m of lignite, thought to correspond to the time interval of 22.29 - 22.68 Ma. Prior to analysis by GC-IR-MS, the n-alkanes were purified using urea adduction. Analysis of the relative distributions of n-alkanes and aliphatic Terpenoid biomarkers was undertaken by GC-MS. The distributions of Terpenoid biomarkers indicated that no correlation exists between bulk {delta}{sup 13}C and the relative contribution of angiosperm to gymnosperm type vegetation. The n-alkane distributions demonstrated a link between bulk {delta}{sup 13}C and aquatic macrophytes, (greatest contributor to the C{sub 29} homologue in peat forming vegetation is terrestrial plants, whereas the C{sub 25} homologue is a proxy for aquatic macrophytes). This suggests that after accounting for atmospheric {delta}{sup 13}C, bulk carbon isotopes carry a signature for the hydrological conditions of plant growth. 22 refs., 4 figs.

  7. Lower than expected mercury concentration in piscivorous African sharptooth catfish Clarias gariepinus (Burchell)

    Energy Technology Data Exchange (ETDEWEB)

    Desta, Zerihun [Norwegian University of Life Sciences, Department of Ecology and Natural Resource Management, P.O. Box 5003, N-1432, As (Norway) and Awassa University, Faculty of Natural Sciences, Department of Applied Biology, P.O. Box 5, Awassa (Ethiopia)]. E-mail: zerihun.desta@gmail.com; Borgstrom, Reidar [Norwegian University of Life Sciences, Department of Ecology and Natural Resource Management, P.O. Box 5003, N-1432, As (Norway); Rosseland, Bjorn Olav [Norwegian University of Life Sciences, Department of Ecology and Natural Resource Management, P.O. Box 5003, N-1432, As (Norway); Dadebo, Elias [Awassa University, Faculty of Natural Sciences, Department of Applied Biology, P.O. Box 5, Awassa (Ethiopia)

    2007-04-15

    The concentrations of total mercury (THg), stable isotopes of nitrogen ({delta}{sup 15}N) and carbon ({delta}{sup 13}C), and the diet of the African sharptooth catfish Clarias gariepinus in Lake Awassa, Ethiopia, were studied from January 2003 to February 2004. Values of the {delta}{sup 15}N were used as an index of trophic position in four length groups and compared to actual stomach contents. The diet of C. gariepinus within the length range of 201-600 mm L {sub T} mainly consisted of the small barb Barbus paludinosus, aquatic insects, and mollusks. The proportion of fish prey in the diet was 60% by volume, irrespective of fish size. The differences in {delta}{sup 15}N values of individuals within and between length classes were less than 3 per mille , and were not significantly related to total length, showing the similarity in trophic niche of the different sizes, which corresponded to recorded stomach contents. Mercury concentrations were in the range of 0.002-0.154 mg kg{sup -1} ww, and had no significant relationship to total length. Hence, even large specimens of C. gariepinus have Hg values below the WHO threshold of 0.2 mg kg{sup -1} ww. The slope of the regression line between log [Hg] and {delta}{sup 15}N was small, 0.06, indicating the absence of trophic shifts and biomagnification of Hg in larger specimens in our samples. The low Hg concentrations in C. gariepinus compared to the Hg concentrations in other piscivorous fish species in Lake Awassa, such as Barbus intermedius and B. paludinosus, may be due to its dependence on invertebrate preys at small size, diet switching towards low Hg prey fish at larger size, and growth biodilution owing to higher growth rate.

  8. Spatial distribution of bottlenose dolphins (Tursiops truncatus) inferred from stable isotopes and priority organic pollutants

    Energy Technology Data Exchange (ETDEWEB)

    Wilson, Rachel Marie, E-mail: ryounge@ocean.fsu.edu [Department of EOAS-Oceanography, Florida State University, 117 North Woodward Avenue, Tallahassee, Florida, 32306 (United States); Kucklick, John R. [National Institute of Standards and Technology, Hollings Marine Laboratory, Charleston, 331 Fort Johnson Road, Charleston, South Carolina 29412 (United States); Balmer, Brian C.; Wells, Randall S. [Chicago Zoological Society c/o Mote Marine Laboratory, 1600 Ken Thompson Parkway Sarasota, FL, 34236 (United States); Chanton, Jeffrey P. [Department of EOAS-Oceanography, Florida State University, 117 North Woodward Avenue, Tallahassee, Florida, 32306 (United States); Nowacek, Douglas P. [Nicholas School of the Environment and Pratt School of Engineering, Duke University - Marine Laboratory, 135 Duke Marine Lab Rd., Beaufort, NC 28516 (United States)

    2012-05-15

    Differences in priority organic pollutants (POPs), analyzed by gas chromatography-mass spectrometry, and stable isotope ratios ({delta}{sup 13}C, {delta}{sup 34}S, and {delta}{sup 15}N; analyzed by isotope ratio-mass spectrometry), divide 77 bottlenose dolphins (Tursiops truncatus) from the Florida Gulf Coast into three distinct groups. POP levels reflect human population and historical contamination along the coast. In the least disturbed site, concentrations of {Sigma}POP in male dolphins were 18,000 ng g{sup -1} {+-} 6000 (95% confidence interval here and throughout); in the intermediate bay, males had {Sigma}POP concentrations of 19,000 ng g{sup -1} {+-} 10,000. St Andrews Bay was home to dolphins with the highest {Sigma}POP concentrations: 44,000 ng g{sup -1} {+-} 10,300. {delta}{sup 34}S and {delta}{sup 15}N, differed significantly between St. George Sound dolphins and those frequenting each of the other two bays, but not between St. Andrews and St. Joseph Bays. {Sigma}POP concentrations were statistically higher in dolphins frequenting St. Andrews Bay, but were not significantly different between dolphins occupying St. Joseph Bay and St. George Sound. Thus, using either POP or isotope values alone, we would only be able to identify two dolphin groups, but when POP and isotope data are viewed cumulatively, the results clearly define three distinct communities occupying this region. - Highlights: Black-Right-Pointing-Pointer We compare isotopes and POP levels in dolphins occupying three embayments. Black-Right-Pointing-Pointer POP levels varied significantly among two embayments separated by < 50 km. Black-Right-Pointing-Pointer Differentiation correlated with historical contamination from a SuperFund site. Black-Right-Pointing-Pointer Cumulatively, isotopes and POP levels indicate 3 distinct dolphin communities. Black-Right-Pointing-Pointer This data provides the first assessment of dolphin POP contamination in the region.

  9. EST Table: FS761276 [KAIKOcDNA[Archive

    Lifescience Database Archive (English)

    Full Text Available Calmodulin Bound To A Calcineurin Peptide: A New Way Of Making An Old Binding Mode pdb|2F2O|B Chain B, Struc...ture Of Calmodulin Bound To A Calcineurin Peptide: A New Way Of Making An Old Binding Mode pdb|2F2P|A Chain ...A, Structure Of Calmodulin Bound To A Calcineurin Peptide: A New Way Of Making An... Old Binding Mode pdb|2F2P|B Chain B, Structure Of Calmodulin Bound To A Calcineurin Peptide: A New Way Of Making

  10. EST Table: FS894763 [KAIKOcDNA[Archive

    Lifescience Database Archive (English)

    Full Text Available FS894763 E_FL_ftes_16A22_R_0 10/09/28 91 %/139 aa pdb|3C7T|A Chain A, Crystal Structure Of The Ecdyson...ain B, Crystal Structure Of The Ecdysone Phosphate Phosphatase, Eppase, From Bombix Mori In Complex With Tun...gstate pdb|3C7T|C Chain C, Crystal Structure Of The Ecdysone Phosphate Phosphatas...e, Eppase, From Bombix Mori In Complex With Tungstate pdb|3C7T|D Chain D, Crystal Structure Of The Ecdysone

  11. Main: 1BE2 [RPSD[Archive

    Lifescience Database Archive (English)

    Full Text Available me=Ltp1; Synonyms=Papi; Hordeum Vulgare Molecule: Lipid Transfer Protein; Chain: Null; Synonym: Ltp Lipid Tr...ansport M.H.Lerche, F.M.Poulsen M.H.Lerche, F.M.Poulsen Two Different Binding Modes Of Palmitate In The Homologous Mai...R; T05947; T05947.|PDB; 1BE2; NMR; @=27-117.|PDB; 1JTB; NMR; @=27-117.|PDB; 1LIP; NMR; @=27-117.|InterPro; IPR003612; AAI....|InterPro; IPR000528; Plant_LTP.|Pfam; PF00234; Tryp_alpha_amyl; 1.|PRINTS; PR00382; LIPIDTRNSFER.|SMART; SM00499; AAI

  12. NCBI nr-aa BLAST: CBRC-MMUR-01-1260 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MMUR-01-1260 pdb|2J0Q|A Chain A, The Crystal Structure Of The Exon Junction Complex... At 3.2 A Resolution pdb|2J0Q|B Chain B, The Crystal Structure Of The Exon Junction Complex At 3.2 A Re...solution pdb|2J0S|A Chain A, The Crystal Structure Of The Exon Junction Complex At 2.2 A Resolution 2J0Q 0.0 93% ...

  13. NCBI nr-aa BLAST: CBRC-MLUC-01-0143 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MLUC-01-0143 pdb|2J0Q|A Chain A, The Crystal Structure Of The Exon Junction Complex... At 3.2 A Resolution pdb|2J0Q|B Chain B, The Crystal Structure Of The Exon Junction Complex At 3.2 A Re...solution pdb|2J0S|A Chain A, The Crystal Structure Of The Exon Junction Complex At 2.2 A Resolution 2J0Q 1e-127 94% ...

  14. NCBI nr-aa BLAST: CBRC-MMUR-01-1235 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MMUR-01-1235 pdb|2J0Q|A Chain A, The Crystal Structure Of The Exon Junction Complex... At 3.2 A Resolution pdb|2J0Q|B Chain B, The Crystal Structure Of The Exon Junction Complex At 3.2 A Re...solution pdb|2J0S|A Chain A, The Crystal Structure Of The Exon Junction Complex At 2.2 A Resolution 2J0Q 0.0 94% ...

  15. NCBI nr-aa BLAST: CBRC-MMUR-01-0234 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MMUR-01-0234 pdb|2J0Q|A Chain A, The Crystal Structure Of The Exon Junction Complex At 3.2 A Resolution... pdb|2J0Q|B Chain B, The Crystal Structure Of The Exon Junction Complex At 3.2 A Resolution... pdb|2J0S|A Chain A, The Crystal Structure Of The Exon Junction Complex At 2.2 A Resolution 2J0Q 0.0 92% ...

  16. NCBI nr-aa BLAST: CBRC-MMUR-01-1301 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MMUR-01-1301 pdb|2J0Q|A Chain A, The Crystal Structure Of The Exon Junction Complex At 3.2 A Resolution... pdb|2J0Q|B Chain B, The Crystal Structure Of The Exon Junction Complex At 3.2 A Resolution... pdb|2J0S|A Chain A, The Crystal Structure Of The Exon Junction Complex At 2.2 A Resolution 2J0Q 0.0 93% ...

  17. NCBI nr-aa BLAST: CBRC-MLUC-01-0257 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-MLUC-01-0257 pdb|1WGC|A Chain A, 2.2 Angstroms Resolution Structure Analysis Of Two Refined N-Acetyl...gstroms Resolution Structure Analysis Of Two Refined N-Acetylneuraminyllactose-Wheat Germ Agglutinin Isolect...in Complexes pdb|7WGA|A Chain A, 2.2 Angstroms Resolution Structure Analysis Of Two Refined N-Acetyl...roms Resolution Structure Analysis Of Two Refined N-Acetylneuraminyllactose-Wheat Germ Agglutinin Isolectin ...l Structure Of Wheat Germ Agglutinin In Complex With N-Acetyl-D-Glucosamine pdb|2UVO|B Chain B, High Resolut

  18. How well are protein structures annotated in secondary databases?

    Science.gov (United States)

    Rother, Kristian; Michalsky, Elke; Leser, Ulf

    2005-09-01

    We investigated to what extent Protein Data Bank (PDB) entries are annotated with second-party information based on existing cross-references between PDB and 15 other databases. We report 2 interesting findings. First, there is a clear "annotation gap" for structures less than 7 years old for secondary databases that are manually curated. Second, the examined databases overlap with each other quite well, dividing the PDB into 2 well-annotated thirds and one poorly annotated third. Both observations should be taken into account in any study depending on the selection of protein structures by their annotation.

  19. Main: 1FSI [RPSD[Archive

    Lifescience Database Archive (English)

    Full Text Available 1FSI シロイヌナズナ Arabidopsis Arabidopsis thaliana (L.) Heynh. Cyclic Phosphodiesterase ...Orderedlocusnames=At4g18930; Orfnames=F13c5.100, F13c5_100; Arabidopsis Thaliana Molecule: Cyclic Phosphodie...R; T05030; T05030.|PDB; 1FSI; X-ray; A/B/C=1-181.|PDB; 1JH6; X-ray; A/B=1-181.|PDB; 1JH7; X-ray; A=1-181.|In...EFTGPRFVPHVTVAVSAYLTADEAKKMFESACDGLKAYTATVDRVSTGTFFFQCVFLLLQTTPEVMEAGEHCKNHFNCSTTTPYMPHLSLLYAELTEEEKKNAQEKAYTLDSSLDGLSFRLNRLALCKTDTEDKTLETWETVAVCNLNP arabi_1FSI.jpg ...

  20. Automatic Identification of Antibodies in the Protein Data Bank

    Institute of Scientific and Technical Information of China (English)

    LI Xun; WANG Renxiao

    2009-01-01

    An automatic method has been developed for identifying antibody entries in the protein data bank (PDB). Our method, called KIAb (Keyword-based Identification of Antibodies), parses PDB-format files to search for particular keywords relevant to antibodies, and makes judgment accordingly. Our method identified 780 entries as antibodies on the entire PDB. Among them, 767 entries were confirmed by manual inspection, indicating a high success rate of 98.3%. Our method recovered basically all of the entries compiled in the Summary of Antibody Crystal Structures (SACS) database. It also identified a number of entries missed by SACS. Our method thus provides a more com-plete mining of antibody entries in PDB with a very low false positive rate.

  1. Sequence Classification - TMBETA-GENOME | LSDB Archive [Life Science Database Archive metadata

    Lifescience Database Archive (English)

    Full Text Available helical proteins which have > 70% sequence identity and 80% coverage with that deposited in PDB. Exclude gl...obular and transmembrane helical proteins which have > 80% sequence identity with

  2. Gene : CBRC-MMUR-01-0234 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available e Crystal Structure Of Ejc In Its Transition State pdb|3EX7|H Chain H, The Crysta...l Structure Of Ejc In Its Transition State 0.0 92% MATSGSTQKKLLKEADMSTVEFETSEEVDVTPTFDSMGLREDLLRGIYAYGFENPSA

  3. Gene : CBRC-MMUR-01-1301 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available e Crystal Structure Of Ejc In Its Transition State pdb|3EX7|H Chain H, The Crysta...l Structure Of Ejc In Its Transition State 0.0 93% MTTSGSARKRLLKEADMSTVEFETSEEVDVTPTFDSMGLREDLLRGIYAYGFENPSA

  4. Gene : CBRC-MMUR-01-1260 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available e Crystal Structure Of Ejc In Its Transition State pdb|3EX7|H Chain H, The Crysta...l Structure Of Ejc In Its Transition State 0.0 93% MSDRSSLGYQIRCPGTPSTRTAPGSSWEGFLMNHLCFVTMTTSGSARKRLLKEADMS

  5. Gene : CBRC-MMUR-01-1235 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available e Crystal Structure Of Ejc In Its Transition State pdb|3EX7|H Chain H, The Crysta...l Structure Of Ejc In Its Transition State 0.0 94% MSERSSLGCQIRCPGTPSTRTAPGSSWEGFLMNHLCFVTMATSGSARKRLLKEADMT

  6. NCBI nr-aa BLAST: CBRC-PHAM-01-0774 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available mplex With Ala- Ala-Phe-Chloromethylketone pdb|2QXG|B Chain B, Crystal Structure Of Human Kallikrein 7 In Co...mplex With Ala- Ala-Phe-Chloromethylketone pdb|2QXH|A Chain A, Crystal Structure Of Human Kallikrein 7 In Co...mplex With Suc- Ala-Ala-Pro-Phe-Chloromethylketone pdb|2QXI|A Chain A, High Resol...ution Structure Of Human Kallikrein 7 In Complex With Suc-Ala-Ala-Pro-Phe-Chloromethylketone pdb|2QXJ|A Chai...n A, Crystal Structure Of Human Kallikrein 7 In Complex With Suc- Ala-Ala-Pro-Phe-Chloromethylketone And Copper 2QXG 2e-12 89% ...

  7. Data of evolutionary structure change: 1ELCA-2ZEBC [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available 1ELCA-2ZEBC 1ELC 2ZEB A C VVGGTEAQRNSWPSQISLQYRSGSSWAHTCGGTLIRQNW...---DQLLPVSRIIVHPQFY--TAQIGADIALLELEEPVKVSSHVHTVTLPPASETFPPGMPCWVTGWGDVDNDERLPPPFPLKQVKVPIMENHICDAKYHLGAYTGDDVRIVRDDMLCA...pdbChain>A 1ELCA GQLAQ--TLQQA 1ELCA NLNQNNGTEQYVG EEEE 1ELC A 1ELCA

  8. Banana Musa tissue culture plants enhanced by endophytic fungi

    African Journals Online (AJOL)

    Mo

    In vivo screenhouse experiments using tissue culture plants revealed that the endophytic strain ... some of these strains against both C. sordidus eggs and vermiform R. similis stages ... A 5 µl drop of spore suspension or sterile PDB was added.

  9. Data of evolutionary structure change: 1DTGA-1DTZA [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available 1DTGA-1DTZA 1DTG 1DTZ A A ---KTVRWCAVSEHEATKCQSFRDHMKSVIPSDGPSVAC...VAVVRKANDKITWNSLRGKKSCHTAVDRTAGWNIPMGPLFKDTDSCRFDEFFSQSCAPGSDPRSKLCALCAGNEEGQLKCVPNSSERLYGYTGAFRCLAENVGDVAFV...pdbID>1DTG A 1DTGA CQLCP-----GCGCS 1 1DTG A 1DTGA... VAL CA 417 1DTG A 1DTGA

  10. Bioaugmentation of biological contact oxidation reactor (BCOR) with phenol-degrading bacteria for coal gasification wastewater (CGW) treatment.

    Science.gov (United States)

    Fang, Fang; Han, Hongjun; Zhao, Qian; Xu, Chunyan; Zhang, Linghan

    2013-12-01

    This study was conducted to evaluate the performance of the biological contact oxidation reactor (BCOR) treating coal gasification wastewater (CGW) after augmented with phenol degrading bacteria (PDB). The PDB were isolated with phenol, 4-methyl phenol, 3,5-dimethyl phenol and resorcinol as carbon resources. Much of the refractory phenolic compounds were converted into easily-biodegradable compounds in spite of low TOC removal. The bioaugmentation with PDB significantly enhanced the removal of COD, total phenols (TP) and NH3-N, with efficiencies from 58% to 78%, 66% to 80%, and 5% to 25%, respectively. In addition, the augmented BCOR exhibited strong recovery capability in TP and COD removal while recovery of NH3-N removal needed longer time. Microbial community analysis revealed that the PDB presented as dominant populations in the bacteria consortia, which in turn determined the overall performance of the system.

  11. 76 FR 12318 - Submission for OMB Review; Comment Request

    Science.gov (United States)

    2011-03-07

    .... All information will be collected electronically. Type of Request: Reinstatement, with change, of an... back up into an eight- cluster segmentation scheme based on the PDB. The sample source for in...

  12. Data of evolutionary structure change: 1B06A-2GDSB [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available 1B06A-2GDSB 1B06 2GDS A B VIQLKRYEFPQLPYKVDALEPYISKDIIDVHYNGHHKGYVNGANSLLDRL-EKLIKGD...NLQIMTVENH-FMNHIAELPVILIVDEFEHAYYLQYKNKRGDYLNAWWNVVNWDDAEKRLQKYLNK -----KHSLPDLPYDYGALEPHINAQIM...QLHHSKNHAAYVNNLNVTEEKYQEALAKGD-------VTAQIALQPALKFNGGGHINHSIFWTNLSP--NGGGEPKGELLE...264 2GDS B 2GD...el> 1 2GDSpdbI

  13. Data of evolutionary structure change: 1BK9A-2QOGD [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available 1BK9A-2QOGD 1BK9 2QOG A D SLIQFETLIMKVAKKSGMFWYSNYGCYCGWGGQGRPQDA...TDRCCFVHDCCYGKVTGCDPKMDVYSFSEENGDIVCGGDDPCKKEICECDRAAAICFRDNLTLYNDKKYWAFGAKNCPQEESEPC SLLQFNKMI.../pdbChain> 2QOGD LSTYK-NEYMF

  14. Data of evolutionary structure change: 1ASEA-1AKCA [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available 1ASEA-1AKCA 1ASE 1AKC A A --MFENITAAPADPILGLADLFRADERPGKINLGIGVYK...KMNLGVGAYRDDNGKPYVLNCVRKAEAMIAAKKMDKEYLPIAGLADFTRASAELALGENSEAFKSGRYVTVQGISGTGSLRVGANFLQRFFKFSRDVYLPKPSWGNHT...pdbID> A 1ASEA LAKNT-SVKRV A 1ASEA GFARG-LEEDA

  15. Data of evolutionary structure change: 1J3FA-1RSEA [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available 1J3FA-1RSEA 1J3F 1RSE A A MVLSEGEWQLVLHVWAKVEADVAGHGQDILIRLFKSHPE...TLEKFDRFKHLKTEAEMKASEDLKKHGVTVLTGLGAILKKKGHHEAELKPLAQSHAT--KIPIKYLEFISEAIIHVLHSRHPGDFGADAQGAMNKALELFRKDIAAKY...pdbChain>A 1RSEA QDHATKHKIPIK

  16. Data of evolutionary structure change: 1CMWA-5KTQA [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available 1CMWA-5KTQA 1CMW 5KTQ A A PKGRVLLVDGHHLAYRTFHALKGLTTSRGEPVQAVYGFA...DRERLRAFLERLEFGSLLHEFGLLESPALEEAPWPPPEGAFVGFVLSRKEPMWADLLALAAARGGRVHRAPEPYKALRDLK...SPKALE---------------------------------------------------------------------------------------EAPWPPPEGAFVGFVLSRKEPMW...ine> ALA CA 267 1CMW A 1CMW...17 ASP CA 189 GLN CA 246 1CMWpdb

  17. Data of evolutionary structure change: 1CRQA-2FFQA [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available 1CRQA-2FFQA 1CRQ 2FFQ A A MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDP-TIED...SYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS...AKTRQGVEDAFYTLVREIRQH KFKLVFL--GEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYI... 0 1CRQ A 1CRQA...CA 530 SER CA 634 2FFQ Apdb

  18. Data of evolutionary structure change: 1DLQA-2AZQA [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available 1DLQA-2AZQA 1DLQ 2AZQ A A VKIFNTQDVQDFLRVASGLEQEGGNPRVKQIIHRVLSDL...YKAIEDLNITSDEYWAGVAYLNQLGANQEAGLLSPGLGFDHYLDMRMDAEDAALGIENATPRTIEGPLYVAGAPESVGYARMDDGSDPNGHTLILHGTIFDADGKPLP...REGLVVDAVEHTDPEAIKANDVE-GPFAEMVFDLKLTRLVDGVDNQVVDRPRLAV-- VKISHTADIQA...0 1DLQ A 1DLQA .../pdbID> A 2AZQA DRGVQGERFAE

  19. Data of evolutionary structure change: 1DCTA-6MHTA [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available /pdbID> A 1DCTA DDFIFHYESLN ...1DCTA-6MHTA 1DCT 6MHT A A -----------MNLISLFSGAGGLDLGFQKAGFRIICAN...HHHHHH - HHHHHHHHHH HHHHHHHHHHHHHHHH 0 1DCT... A 1DCTA KELNI-NYLPP ure>EGG - ure>

  20. Data of evolutionary structure change: 1AKIA-2MEIA [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available 1AKIA-2MEIA 1AKI 2MEI A A KVFGRCELAAAMKRHGLDNYRGYSLGNWVCAAKFESNFN...ERCELARTLKRLGMDGYRGISLANWMCLAKWESGYNTRATNYNAGDRSTDYGIFQYNSRYWCNDGKTPGAVNACHLSCSALLQDNIADAVACAKRVVRDPQGIRAWVA...pdbChain>A 1AKIA TNRNT-DGSTD 2MEI A 2MEIA

  1. Data of evolutionary structure change: 1AKIA-1LHIA [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available 1AKIA-1LHIA 1AKI 1LHI A A KVFGRCELAAAMKRHGLDNYRGYSLGNWVCAAKFESNFN...ERCELARTLKRLGMDGYRGISLANWMCLAKWESGYNTRATNYNAGDRSTDYGIFQINSRYWCNDGKTGGAVNACHLSCSALLQDNIADAVACAKRVVRDPQGIRAWVA...pdbChain>A 1AKIA TNRNT-DGSTD 1LHI A 1LHIA

  2. Data of evolutionary structure change: 1DXIA-4XIAB [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available 1DXIA-4XIAB 1DXI 4XIA A B MSFQPTPEDRFTFGLWTVGWQGRDPFGDATRPALDPVET...AKDVRDALDRMKEAFDLLGEYVTAQGYDLRFAIEPKPNEPRGDILLPTVGHALAFIERLERPELYGVNPEVGHEQMAGLNFPHGIAQALWAGKLFHIDLNGQSGIKYD...SEYDGSKDLAAALDRMREGVDTAAGYIKDKGYNLRIALEPKPNEPRGDIFLPTVGHGLAFIEQLEHGDIVGLNPETGHEQMAGLNFTHGIA...dex>0 1DXI A 1DXIA LEU CA 130 ALA CA 114 4XIA <pdb

  3. Data of evolutionary structure change: 1AKIA-1OUIA [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available 1AKIA-1OUIA 1AKI 1OUI A A KVFGRCELAAAMKRHGLDNYRGYSLGNWVCAAKFESNFN...ERCELARTLKRLGMDGYRGISLANWMCLAKWESGYNTRATNYNAGDRSTDYGIFQINSRYWCNDGKTPGAVNACHLSCSALLQDNIADAAACAKRVVRDPQGIRAWVA...pdbChain>A 1AKIA TNRNT-DGSTD 1OUI A 1OUIA

  4. Data of evolutionary structure change: 1DXIA-5XIAB [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available 1DXIA-5XIAB 1DXI 5XIA A B MSFQPTPEDRFTFGLWTVGWQGRDPFGDATRPALDPVET...AKDVRDALDRMKEAFDLLGEYVTAQGYDLRFAIEPKPNEPRGDILLPTVGHALAFIERLERPELYGVNPEVGHEQMAGLNFPHGIAQALWAGKLFHIDLNGQSGIKYD...SEYDGSKDLAAALDRMREGVDTAAGYIKDKGYNLRIALEPKPNEPRGDIFLPTVGHGLAFIEQLEHGDIVGLNPETGHEQMAGLNFTHGIA...ID> 0 1DXI A 1DXIA ALA CA 113 LEU CA 143 5XIApdbI

  5. The RCSB Protein Data Bank: redesigned web site and web services.

    Science.gov (United States)

    Rose, Peter W; Beran, Bojan; Bi, Chunxiao; Bluhm, Wolfgang F; Dimitropoulos, Dimitris; Goodsell, David S; Prlic, Andreas; Quesada, Martha; Quinn, Gregory B; Westbrook, John D; Young, Jasmine; Yukich, Benjamin; Zardecki, Christine; Berman, Helen M; Bourne, Philip E

    2011-01-01

    The RCSB Protein Data Bank (RCSB PDB) web site (http://www.pdb.org) has been redesigned to increase usability and to cater to a larger and more diverse user base. This article describes key enhancements and new features that fall into the following categories: (i) query and analysis tools for chemical structure searching, query refinement, tabulation and export of query results; (ii) web site customization and new structure alerts; (iii) pair-wise and representative protein structure alignments; (iv) visualization of large assemblies; (v) integration of structural data with the open access literature and binding affinity data; and (vi) web services and web widgets to facilitate integration of PDB data and tools with other resources. These improvements enable a range of new possibilities to analyze and understand structure data. The next generation of the RCSB PDB web site, as described here, provides a rich resource for research and education.

  6. Data of evolutionary structure change: 1CLMA-1QX5T [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available 1CLMA-1QX5T 1CLM 1QX5 A T --LTEEQIAEFKEAFALFDKDGDGTITTKELGTVMRSLG...QNPTEAELQDMINEVDADGNGTIDFPEFLSLMARKMKEQ-DSEEELIEAFKVFDRDGNGLISAAELRHVMTNLGEKLTDDEVDEMIREADIDGDGHINYEEFVRMMVS.../pdbID> A 1CLMA KMKEQ-DSEEE 1CLM A 1CLMA EAFKVFDRD

  7. Data of evolutionary structure change: 1CLMA-4ICBA [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available 1CLMA-4ICBA 1CLM 4ICB A A -LTEEQIAEFKEAFALFDKDGD--GTITTKELGTVMRSL...GQNPTEAELQDMINEVDADGNGTIDFPEFLSLMARKMKEQDSEEELIEAFKVFDRDGNGLISAAELRHVMTNLGEKLTDDEVDEMIREADIDGDGHINYEEF---VRM.../index> 1CLM A 1CLMA 1CLM Apdb

  8. Data of evolutionary structure change: 1BMFB-2HLDA [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available 1BMFB-2HLDA 1BMF 2HLD B A DLEETGRVLSIGDGIARVHGLRNVQAEEMVEFSSGLKGM...GIRPAINVGLSVSRVGSAAQTRAMKQVAGTMKLELAQYREVAAFAQFGSDLDAATQQLLSRGVRLTELLKQGQYSPMAIEEQVAVIYAGVRGYLDKLEPSKITKFENA...ndex> 2HLD A 2HLDA A...pdbID> B 1BMFB AQFGSDLDA

  9. Identification of a Major Locus for Paget's Disease on Chromosome 10p13 in Families of British Descent

    National Research Council Canada - National Science Library

    Lucas, Gavin JA; Riches, Phillip L; Hocking, Lynne J; Cundy, Tim; Nicholson, Geoff C; Walsh, John P; Ralston, Stuart H

    2008-01-01

    .... A major susceptibility locus for PDB was identified on chromosome 10p13 by a genome‐wide linkage scan in families of British descent, which accounted for the vast majority of cases not caused by SQSTM1 mutations. Introduction...

  10. Data of evolutionary structure change: 1EQEA-2EQLA [Confc[Archive

    Lifescience Database Archive (English)

    Full Text Available 1EQEA-2EQLA 1EQE 2EQL A A 1>KVFERCELARTLKRLGMDGYRGISLANWMCLAKWESGYN...pdbChain>A 2EQLA uence>CKDNK-RSSSN...E A 1EQEA ...TRATNYNAGDRSTDYGIFQINSRYWCNDGKTPGAVNACHLSCSALLQDNIADAVACAKRVVRDPQGIRAWVAWRNRCQNRNVRQYVQGCGV 2>KVF...SKCELAHKLKAQEMDGFGGYSLANWVCMAEYESNFNTRAFNGKNANGSSDYGLFQLNNKWWCKDNK-RSSSNACNIMCSKLLDENIDDDISCAKRVVRDPKGMSAWKAWVKHCKDKDLSEYLASCNL

  11. Cl-37 in the Dead Sea system - preliminary results

    Energy Technology Data Exchange (ETDEWEB)

    Stiller, M.; Nissenbaum, A. [Weizmann Institute of Science, 76100 Rehovot (Israel); Kaufmann, R.S. [Department of Geology, Northern Illinois University, DeKalb, IL (United States); Long, A. [Department of Geosciences, University of Arizona, Tucson, AR (United States)

    1998-11-01

    This study presents the first set of {delta}{sup 37}Cl measurements in the Dead Sea environment. {delta}{sup 37}Cl values for the meromictic (long term stratified) Dead Sea water column prior to its complete overturn in 1979 were -0.47per thousand SMOC for the UWM (Upper Water Mass) and +0.55per thousand SMOC for the LWM (Lower Water Mass). The {delta}{sup 37}Cl values for the pre-overturn Dead Sea cannot be explained by the prevailing model on the evolution of the Dead Sea during the last few centuries and require corroboration by more measurements. The 1979 overturn wiped out almost completely the isotopic differences between the UWM and LWM. Even so, Cl isotope data could be used to decipher physical processes related to the overturn such as incomplete homogenization of the deep water mass. Inputs into the lake, comprising freshwaters (springs and the Jordan River) and saline springs gave a range of -0.37per thousand to +1.0per thousand with the freshwater sources being more enriched in {delta}{sup 37}Cl. Based on the {delta}{sup 37}Cl measurements of the End-Brine (the effluent from Dead Sea evaporation ponds) and of recent Dead Sea halite, the Cl isotopic composition of the originating brines have been estimated. They gave a narrow isotopic spread, +0.01per thousand and +0.07per thousand and fall within the same range with Dead Sea pore water (+0.13per thousand) and with the post-overturn Dead Sea (-0.03per thousand and +0.16per thousand). Rock salt from Mount Sdom gave a value of -0.59per thousand indicating its formation at the last stages of halite deposition from evaporating sea water. The hypersaline En Ashlag spring gave a depleted {delta}{sup 37}Cl value of -0.32per thousand, corresponding to a residual brine formed in the very latest stages (including bishofite deposition) of seawater evaporation. (Copyright (c) 1998 Elsevier Science B.V., Amsterdam. All rights reserved.)

  12. 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

  13. 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 ...

  14. Domain Modeling: NP_001018146.1 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_001018146.1 chr17 Nucleoside diphosphate kinase, NDK d2cwka1 chr17/NP_001018146.1/NP_001018146....1_apo_3-114.pdb d2dyaa1 chr17/NP_001018146.1/NP_001018146.1_holo_3-114.pdb forte 12K,52Y,55L,58R,60F,64L,67Y,92G,94T,105R ADP,_MG 1 ...

  15. Domain Modeling: NP_004136.2 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_004136.2 chr19 Viral proteases d1kxfa_ chr19/NP_004136.2/NP_004136.2_apo_1996-21...55.pdb d1wyka_ chr19/NP_004136.2/NP_004136.2_holo_1996-2155.pdb swppa 2002S,2003A,2004S,2026L,2027P,2029P,2070I,2074P,2141S,2145T DIO,FOR 1 ...

  16. A SQSTM1/p62 mutation linked to Paget’s disease increases the osteoclastogenic potential of the bone microenvironment

    Science.gov (United States)

    Hiruma, Yuko; Kurihara, Noriyoshi; Subler, Mark A.; Zhou, Hua; Boykin, Christina S.; Zhang, Heju; Ishizuka, Seiichi; Dempster, David W.; Roodman, G. David; Windle, Jolene J.

    2008-01-01

    Paget’s disease of bone (PDB) is the second most common bone disease and is characterized by focal bone lesions which contain large numbers of abnormal osteoclasts (OCLs) and very active normal osteoblasts in a highly osteoclastogenic marrow microenvironment. The etiology of PDB is not well understood and both environmental and genetic causes have been implicated in its pathogenesis. Mutations in the SQSTM1/p62 gene have been identified in up to 30% of Paget’s patients. To determine if p62 mutation is sufficient to induce PDB, we generated mice harboring a mutation causing a P-to-L (proline-to-leucine) substitution at residue 394 (the murine equivalent of human p62P392L, the most common PDB-associated mutation). Bone marrow cultures from p62P394L mice formed increased numbers of OCLs in response to receptor activator of NF-κB ligand (RANKL), tumor necrosis factor α (TNF-α) or 1α,25-(OH)2D3, similar to PDB patients. However, purified p62P394L OCL precursors depleted of stromal cells were no longer hyper-responsive to 1α,25-(OH)2D3, suggesting effects of the p62P394L mutation on the marrow microenvironment in addition to direct effects on OCLs. Co-cultures of purified p62P394L stromal cells with either wild-type (WT) or p62P394L OCL precursors formed more OCLs than co-cultures containing WT stromal cells due to increased RANKL production by the mutant stromal cells. However, despite the enhanced osteoclastogenic potential of both OCL precursors and marrow stromal cells, the p62P394L mice had histologically normal bones. These results indicate that this PDB-associated p62 mutation is not sufficient to induce PDB and suggest that additional factors acting together with p62 mutation are necessary for the development of PDB in vivo. PMID:18765443

  17. Domain Modeling: NP_115754.2 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_115754.2 chr8 Crystal structure of an 8 repeat consensus TPR superhelix (trigona...l crystal form) p2hyza_ chr8/NP_115754.2/NP_115754.2_apo_4-171.pdb p2fo7a_ chr8/NP_115754.2/NP_115754.2_holo_4-171.pdb psi-blast 381K,382F,383K,431S,432G,443H _CD 1 ...

  18. Domain Modeling: NP_005254.2 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_005254.2 chr1 Viral proteases d1kxfa_ chr1/NP_005254.2/NP_005254.2_apo_106-244.p...db d1wyka_ chr1/NP_005254.2/NP_005254.2_holo_106-244.pdb swppa 112A,113Q,114P,132L,133R,137Q,176G DIO,FOR 1 ...

  19. Domain Modeling: NP_005064.1 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_005064.1 chr13 LacY-like proton/sugar symporter c2cfqa_ chr13/NP_005064.1/NP_005064....1_apo_9-698.pdb d1pv7a_ chr13/NP_005064.1/NP_005064.1_holo_9-698.pdb swppa 24F,30Y,34R,140K,294W,297F,298D,588Y,590L,591L,595E,623L TDG 1 ...

  20. Main: 1HU9 [RPSD[Archive

    Lifescience Database Archive (English)

    Full Text Available 1HU9 大豆 Soybean Glycine max (L.) Merrill Seed Lipoxygenase-3 Name=Lox1.3; Synonyms=...2; CAA31664.1; ALT_SEQ.|EMBL; U50081; AAB41272.1; -.|PDB; 1HU9; X-ray; A=1-857.|PDB; 1IK3; X-ray; A=1-857.|P...WTSDTRALEAFKRFGNKLAQIENKLSERNNDEKLRNRCGPVQMPYTLLLPSSKEGLTFRGIPNSISI soybean_1HU9.jpg ...

  1. EST Table: AV404106 [KAIKOcDNA[Archive

    Lifescience Database Archive (English)

    Full Text Available aa pdb|2ZAK|A Chain A, Orthorhombic Crystal Structure Of Precursor E. Coli Isoaspartyl PeptidaseL-Asparaginase (Ecaiii) With Active...r E. Coli Isoaspartyl PeptidaseL-Asparaginase (Ecaiii) With Active- Site T179a Mu...tation pdb|3C17|A Chain A, Hexagonal Crystal Structure Of Precursor E. Coli Isoaspartyl PeptidaseL-Asparaginase (Ecaiii) With Active.... Coli Isoaspartyl PeptidaseL-Asparaginase (Ecaiii) With Active- Site T179a Mutat

  2. Main: 3SC2 [RPSD[Archive

    Lifescience Database Archive (English)

    Full Text Available 3SC2 小麦 Bread Wheat Triticum aestivum Serine Carboxypeptidase Ii Chains A And B Nam... 1WHS; X-ray; A=6-260, B=266-418.|PDB; 1WHT; X-ray; A=5-260, B=266-418.|PDB; 3SC2; X-ray; A=1-259, B=266-417...WHDAPRSMLPIYRELIAAGLRIWVFSGDTDAVVPLTATRYSIGALGLPTTTSWYPWYDDQEVGGWSQVYKGLTLVSVRGAGHEVPLHRPRQALVLFQYFLQGKPMPGQTKNAT wheat_3SC2.jpg ...

  3. Domain Modeling: NP_003881.2 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_003881.2 chr19 HUMAN NOTCH-1 EGFS 11-13 c1toza_ chr19/NP_003881.2/NP_003881.2_ap...o_1708-1820.pdb c2vj3a_ chr19/NP_003881.2/NP_003881.2_holo_1708-1820.pdb psi-blast 4161V,4162L,4163T,4177A,4

  4. 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,

  5. Domain Modeling: NP_001401.2 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_001401.2 chr19 HUMAN NOTCH-1 EGFS 11-13 c1toza_ chr19/NP_001401.2/NP_001401.2_ap...o_510-623.pdb c2vj3a_ chr19/NP_001401.2/NP_001401.2_holo_510-623.pdb psi-blast 2580D,2581L,2582F,2583V,2599C

  6. Domain Modeling: NP_003881.2 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_003881.2 chr19 HUMAN NOTCH-1 EGFS 11-13 c1toza_ chr19/NP_003881.2/NP_003881.2_apo_4992-5111....pdb c2vj3a_ chr19/NP_003881.2/NP_003881.2_holo_4992-5111.pdb psi-blast 4161V,4162L,4163T,4177A,4

  7. Domain Modeling: NP_001074911.1 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_001074911.1 chr19 EXTRACELLULAR REGION OF THE HUMAN RECEPTOR NKP46 c1p6fa_ chr19/NP_001074911....1/NP_001074911.1_apo_218-419.pdb c1olla_ chr19/NP_001074911.1/NP_001074911.1_holo_218-419.pdb blast 256Y,257K,258E,259G,292Q,293Y,294R,296Y EDO 1 ...

  8. Early onset Paget's disease of bone caused by a novel mutation (78dup27) of the TNFRSF11A gene in a Chinese family

    Institute of Scientific and Technical Information of China (English)

    Yao-hua KE; Hua YUE; Jin-wei HE; Yu-juan LIU; Zhen-lin ZHANG

    2009-01-01

    Aim: A previous study showed that individuals of Japanese descent affected by early onset familial Paget's disease of bone (PDB) car-ried a 27-bp duplication at position 75 (75dup27) in the TNFRSF11A gene encoding RANK. Here we report the identification of a novel mutation (78dup27) in exon 1 of TNFRSF11A in a Chinese family with early onset PDB. Methods: We conducted clinical and genetic studies in a non-consanguineous Chinese family with early onset PDB. The entire coding region of TNFRSF11A was amplified and directly sequenced directly.Results: A novel 27-bp duplication in exon 1 (78dup27) in TNFRSF11A was found in four affected individuals and one asymptomatic individual. Although this duplication was the same length as the previously identified mutation (27 bp, from bases 78 to 104), in our patients the nine duplicated amino acids in the RANK signal peptide were LLLLCALLA. The phenotypes of affected individuals in this family overlapped with both early onset PDB and classic PDB, but several distinguishing features were found in our patients. The key difference between our familial PDB and the Japanese early onset PDB was the age of onset, which in most of our patients was during their late 20s (except for the propositus' niece). Another notable difference was that the propositus' son (24 years old), who carried the 78dup27 mutation, had no clinical symptoms or bone abnormalities, except for increased serum ALP, OC and CTX.Conclusion: Our findings may provide a better understanding of the clinical features of early onset PDB and support the notion of a hot spot for mutations in exon 1 of the TNFRSF11A gene.

  9. Main: 2WGC [RPSD[Archive

    Lifescience Database Archive (English)

    Full Text Available 2WGC 小麦 Bread Wheat Triticum aestivum Agglutinin Isolectin 2 Precursor Triticum Aes...58.1; -.|PIR; S09624; AEWT2.|PDB; 2WGC; X-ray; A/B=28-198.|PDB; 9WGA; X-ray; A/B=28-198.|InterPro; IPR001002...2; 4. Length: 213 AA, Molecular weight: 21356 Da MRKMMSTMALTLGAAVFLAFAAATAQAQRCGEQGSNMECPNNLCCSQYGYCGMGGDYCGKGC...QNGACWTSKRCGSQAGGATCPNNHCCSQYGHCGFGAEYCGAGCQGGPCRADIKCGSQSGGKLCPNNLCCSQWGFCGLGSEFCGGGCQSGACSTDKPCGKDAGGRVCTNNYCCSKWGSCGIGPGYCGAGCQSGGCDAVFAGAITANSTLLAE wheat_2WGC.jpg ...

  10. Domain Modeling: NP_004081.1 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_004081.1 chr17 Dual specificity phosphatase-like d1vhrb_ chr17/NP_004081.1/NP_004081....1_apo_8-185.pdb d1j4xa_ chr17/NP_004081.1/NP_004081.1_holo_8-185.pdb blast 13N,23Y,25L,26P,27S,28Q,29P,

  11. Domain Modeling: NP_056141.2 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_056141.2 chr1 Viral proteases d1kxfa_ chr1/NP_056141.2/NP_056141.2_apo_915-1070....pdb d1wyka_ chr1/NP_056141.2/NP_056141.2_holo_915-1070.pdb swppa 920R,921K,922T,923A,941V,942I,944Q,985V,989T,1056V,1060T DIO,FOR 1 ...

  12. Domain Modeling: NP_775901.3 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_775901.3 chr18 THE CRYSTAL STRUCTURE OF BETA-CATENIN ARMADILLO REPEAT COMPLEXED ...WITH A PHOSPHORYLATED APC 20MER REPEAT. d1g3ja_ chr18/NP_775901.3/NP_775901.3_apo_1615-2171.pdb c1v18a_ chr18/NP_775901.3/NP_775901.3_holo_1615-2171.pdb psi-blast 1 ...

  13. 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 ...

  14. 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 ...

  15. Domain Modeling: NP_996991.1 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_996991.1 chr1 HUMAN NOTCH-1 EGFS 11-13 c1toza_ chr1/NP_996991.1/NP_996991.1_apo_...458-590.pdb c2vj3a_ chr1/NP_996991.1/NP_996991.1_holo_458-590.pdb psi-blast 776Q,777C,778L,792T,793G,794M,79

  16. 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 ...

  17. Main: 1AVX [RPSD[Archive

    Lifescience Database Archive (English)

    Full Text Available 1AVX 大豆 Soybean Glycine max (L.) Merrill Trypsin Inhibitors A/C Precursor Name=Kti3...W; X-ray; B=25-201.|PDB; 1AVX; X-ray; B=25-201.|PDB; 1BA7; X-ray; A/B=25-205.|InterPro; IPR011065; Kunitz_li...GTIISSPYRIRFIAEGHPLSLKFDSFAVIMLCVGIPTEWSVVEDLPEGPAVKIGENKDAMDGWFRLERVSDDEFNNYKLVFCPQQAEDDKCGDIGISIDHDDGTRRLVVSKNKPLVVQFQKLDKESLAKKNHGLSRSE soybean_1AVX.jpg ...

  18. Improved detection of DNA-binding proteins via compression technology on PSSM information.

    Science.gov (United States)

    Wang, Yubo; Ding, Yijie; Guo, Fei; Wei, Leyi; Tang, Jijun

    2017-01-01

    Since the importance of DNA-binding proteins in multiple biomolecular functions has been recognized, an increasing number of researchers are attempting to identify DNA-binding proteins. In recent years, the machine learning methods have become more and more compelling in the case of protein sequence data soaring, because of their favorable speed and accuracy. In this paper, we extract three features from the protein sequence, namely NMBAC (Normalized Moreau-Broto Autocorrelation), PSSM-DWT (Position-specific scoring matrix-Discrete Wavelet Transform), and PSSM-DCT (Position-specific scoring matrix-Discrete Cosine Transform). We also employ feature selection algorithm on these feature vectors. Then, these features are fed into the training SVM (support vector machine) model as classifier to predict DNA-binding proteins. Our method applys three datasets, namely PDB1075, PDB594 and PDB186, to evaluate the performance of our approach. The PDB1075 and PDB594 datasets are employed for Jackknife test and the PDB186 dataset is used for the independent test. Our method achieves the best accuracy in the Jacknife test, from 79.20% to 86.23% and 80.5% to 86.20% on PDB1075 and PDB594 datasets, respectively. In the independent test, the accuracy of our method comes to 76.3%. The performance of independent test also shows that our method has a certain ability to be effectively used for DNA-binding protein prediction. The data and source code are at https://doi.org/10.6084/m9.figshare.5104084.

  19. NCBI nr-aa BLAST: CBRC-BTAU-01-2820 [SEVENS

    Lifescience Database Archive (English)

    Full Text Available CBRC-BTAU-01-2820 pdb|1B3U|A Chain A, Crystal Structure Of Constant Regulatory Doma...in Of Human Pp2a, Pr65alpha pdb|1B3U|B Chain B, Crystal Structure Of Constant Regulatory Domain Of Human Pp2a, Pr65alpha 1B3U 0.0 79% ...

  20. Giant Cell Tumor Developing in Paget’s Disease of Bone: A Case Report with Review of Literature

    Science.gov (United States)

    Verma, Vivek; Puri, Ajay; Shah, Sanket; Rekhi, Bharat; Gulia, Ashish

    2016-01-01

    Introduction: Paget’s disease of bone (PDB) is a disease of elderly characterized by disorganized bone remodeling. Development of secondary neoplasm in PDB is a known but rare phenomenon. Development of giant cell tumor in PDB (GCT-PDB) is extremely rare, and little is known about its etiopathogenesis and management. We present a case report of such a development with a review of the literature and the role of various new modalities of treatment available in the management of this rare condition. Case Report: A 40-year-old gentleman presented with back pain and on evaluation was diagnosed as a case of polyostotic PDB. He was treated with intravenous bisphosphonates, calcium, and vitamin D supplements. After an asymptomatic period of 3-year, he presented with a gluteal mass involving ilium and sacrum which was confirmed as GCT on biopsy. Serial angioembolization was attempted but mass progressed, so surgery performed with excision and curettage of the lesion. He presented with a local recurrence 2 years later with a large soft tissue component. He was started on denosumab, RANKL inhibitor, with the aim to downstage the lesion. The patient showed a good response after 6 doses with reduction in soft tissue mass followed by which he underwent surgery with partial T-1 internal hemipelvectomy and curettage of sacrum. Currently, the patient is asymptomatic at a follow-up of 15 months. Conclusion: GCT-PDB is a rare phenomenon occurring mainly in polyostotic PDB and is associated with more severe manifestations of the disease. The management is challenging and requires multimodality management. Pharmacological agents include use of bisphosphonates and RANK ligand inhibitor - denosumab. Although surgery is the mainstay of treatment for GCT, other modalities of treatment such as RANK ligand inhibitors (denosumab), selective arterial embolization, or radiation therapy has to be used for inoperable cases or where surgery would be functionally too morbid, especially in cases

  1. Domain Modeling: NP_002252.2 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_002252.2 chr12 Structure of NKG2A/CD94 bound to HLA-E p3bdwb_ chr12/NP_002252.2/NP_002252....2_apo_111-225.pdb p3ciij_ chr12/NP_002252.2/NP_002252.2_holo_111-225.pdb blast 112R,113H,114C,115G

  2. Domain Modeling: NP_001078937.1 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_001078937.1 chr11 Viral proteases d1kxfa_ chr11/NP_001078937.1/NP_001078937.1_ap...o_114-258.pdb d1wyka_ chr11/NP_001078937.1/NP_001078937.1_holo_114-258.pdb swppa 119G,120Y,121P,122G,140Y,141R,145E,184D,188M,253R DIO,FOR 1 ...

  3. Domain Modeling: NP_001007257.1 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_001007257.1 chr1 Crystal Structure of the Kelch-Neh2 Complex d1u6dx_ chr1/NP_001007257.1/NP_001007257....1_apo_1-111.pdb d2flux_ chr1/NP_001007257.1/NP_001007257.1_holo_1-111.pdb forte 22R,23H,39E,41L,46D,77M,96E,97D,98G GLU,LEU,THR 1 ...

  4. Domain Modeling: NP_000292.1 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_000292.1 chr6 Eukaryotic proteases d1l4da_ chr6/NP_000292.1/NP_000292.1_apo_562-...810.pdb d1buia_ chr6/NP_000292.1/NP_000292.1_holo_562-810.pdb blast 606F,607C,622H,623C,754D,755S,756C,757Q,

  5. 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,

  6. Domain Modeling: NP_653302.2 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_653302.2 chr1 Crystal structure of leukemia inhibitory factor in complex with gp...130 c1bqub_ chr1/NP_653302.2/NP_653302.2_apo_120-308.pdb c1pvha_ chr1/NP_653302.2/NP_653302.2_holo_120-308.pdb blast 302R,303Y,304W IOD 1 ...

  7. Domain Modeling: NP_714542.1 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_714542.1 chr9 Insights into the Alkyl Peroxide Reduction Activity of Xanthomonas... campestris Bacterioferritin Comigratory Protein from the Trapped Intermediate/Ligand Complex Structures p3gkka_ chr9/NP_714542....1/NP_714542.1_apo_22-214.pdb p3gkma_ chr9/NP_714542.1/NP_714542.1_holo_22-214.pdb psi-bl

  8. Domain Modeling: NP_001073003.1 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_001073003.1 chr15 Crystal Structure of UP1 Complexed With d(TTAGGGTTAG(6-MI)G); ...A Human Telomeric Repeat Containing 6-methyl-8-(2-deoxy-beta-ribofuranosyl)isoxanthopteridine (6-MI) c1ha1a_ chr15/NP_001073003....1/NP_001073003.1_apo_230-439.pdb c1pgza_ chr15/NP_001073003.1/NP_001073003.1_holo_230-439.pdb psi-blast 1 ...

  9. Domain Modeling: NP_005553.2 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_005553.2 chr1 Crystal Structure of the Neurotrophin-3 and p75NTR Symmetrical Com...plex c1sg1x_ chr1/NP_005553.2/NP_005553.2_apo_2-158.pdb c3bukc_ chr1/NP_005553.2/NP_005553.2_holo_2-158.pdb swppa 21A NAG 1 ...

  10. Domain Modeling: NP_005413.2 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_005413.2 chr11 HUMAN NOTCH-1 EGFS 11-13 c1toza_ chr11/NP_005413.2/NP_005413.2_ap...o_336-440.pdb c2vj3a_ chr11/NP_005413.2/NP_005413.2_holo_336-440.pdb psi-blast 1532D,1533K,1534W,1535S,1536A

  11. Domain Modeling: NP_001833.1 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_001833.1 chr9 Crystal structure of Interleukin-23 c3d85d_ chr9/NP_001833.1/NP_001833....1_apo_39-294.pdb c3d87d_ chr9/NP_001833.1/NP_001833.1_holo_39-294.pdb blast 245R,246Y,247R,248P,249L,250I,275E,276Y,293W MAN,PO4 1 ...

  12. Domain Modeling: NP_056293.4 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_056293.4 chr20 Prion-like d1dx0a_ chr20/NP_056293.4/NP_056293.4_apo_101-190.pdb d1i4ma_ chr20/NP_056293....4/NP_056293.4_holo_101-190.pdb swppa 117S,118N,124L,128R,150K,154R _CD 1 ...

  13. 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

  14. Planar doped barrier devices for subharmonic mixers

    Science.gov (United States)

    Lee, T. H.; East, J. R.; Haddad, G. I.

    1991-01-01

    An overview is given of planar doped barrier (PDB) devices for subharmonic mixer applications. A simplified description is given of PDB characteristics along with a more complete numerical analysis of the current versus voltage characteristics of typical structures. The analysis points out the tradeoffs between the device structure and the resulting characteristics that are important for mixer performance. Preliminary low-frequency characterization results are given for the device structures, and a computer analysis of subharmonic mixer parameters and performance is presented.

  15. Gene expression profile in osteoclasts from patients with Paget's disease of bone.

    Science.gov (United States)

    Michou, Laetitia; Chamoux, Estelle; Couture, Julie; Morissette, Jean; Brown, Jacques P; Roux, Sophie

    2010-03-01

    Paget's disease of bone (PDB) is a common metabolic bone disorder with a significant genetic component. To date, only one gene associated with PDB has been identified, the p62-Sequestosome1 gene (SQSTM1), and more than 20 mutations of this gene have been reported in PDB, the most common being the P392L substitution. In order to search for differentially expressed genes in PDB, we investigated the relative gene expression profile of candidate genes in osteoclast (OCL) cultures from 12 PDB patients and six unmatched healthy controls with known genetic status regarding p62, including healthy carriers of the P392L mutation. We selected 48 OCL-expressed candidate genes that may be involved in relevant pathways of PDB pathogenesis, such as OCL signaling, survival, bone resorption activity, or adhesion. In OCL cultures derived from peripheral blood mononuclear cells, total RNA extraction was performed, followed by real-time PCR experiments. Relative quantification analysis utilized the qBase method where relative expression levels were normalized with respect to a set of reference primer pairs for three housekeeping genes. When compared to non-mutated healthy controls, OCL cultures from PDB patients displayed a significant down-regulation in genes involved in apoptosis (CASP3 and TNFRSF10A), in cell signaling (TNFRSF11A), in the OCL bone resorbing function (ACP5 and CTSK) and in the gene coding for Tau protein (MAPT) (all comparisons, pOCL, and highlight the role of altered apoptosis pathways in these cells. They also suggest that the SQSTM1 P392L mutation plays a role in PDB pathogenesis, even at early preclinical stages in healthy carriers of the P392L mutation.

  16. Domain Modeling: NP_066982.3 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_066982.3 chr4 Armadillo repeat d1g3ja_ chr4/NP_066982.3/NP_066982.3_apo_44-605.p...db d1th1b_ chr4/NP_066982.3/NP_066982.3_holo_44-605.pdb psi-blast 78K,83R,112R,116N,119Y,120D,121S,122H,125R

  17. 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 ...

  18. Domain Modeling: NP_000482.3 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_000482.3 chr1 TNF-like d1o91a_ chr1/NP_000482.3/NP_000482.3_apo_120-249.pdb d1o91c_ chr1/NP_000482.3.../NP_000482.3_holo_120-249.pdb blast 179N,181C,197F,228D,230N,231S 120Q,121K,122I,123A,12

  19. Domain Modeling: NP_060272.3 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_060272.3 chr7 Crystal structure of a protein phosphatase 2A (PP2A) holoenzyme. p2pf4d_ chr7/NP_060272.3.../NP_060272.3_apo_209-817.pdb p2iaea_ chr7/NP_060272.3/NP_060272.3_holo_209-817.pdb psi-blast 259P,260Q,298V MLL 1 ...

  20. Domain Modeling: NP_061982.3 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_061982.3 chr16 Structure of the retaining glycosyltransferase MshA:The first ste...p in mycothiol biosynthesis. Organism: Corynebacterium glutamicum : Complex with UDP and 1L-INS-1-P. p3c48b_ chr16/NP_061982.3.../NP_061982.3_apo_33-463.pdb p3c4vb_ chr16/NP_061982.3/NP_061982.3_holo_33-463.pdb psi-blas

  1. Domain Modeling: NP_009127.1 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_009127.1 chr19 Eukaryotic proteases d1brbe_ chr19/NP_009127.1/NP_009127.1_apo_33...-259.pdb d1co7e_ chr19/NP_009127.1/NP_009127.1_holo_33-259.pdb blast 85D,86H,87S,88L,89Q,90N,91K,92D,95E 73H,120D,210G,211D,212S _CA 1 ...

  2. Domain Modeling: NP_055027.1 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_055027.1 chr12 Homeodomain d2hoaa_ chr12/NP_055027.1/NP_055027.1_apo_233-294.pdb... d1ahdp_ chr12/NP_055027.1/NP_055027.1_holo_233-294.pdb blast 233R,234K,235K,236R,237C,239Y,255V,256Y,257I,2

  3. Domain Modeling: NP_115677.2 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_115677.2 chr19 WD40-repeat d2ovpb2 chr19/NP_115677.2/NP_115677.2_apo_71-410.pdb d2ovrb2 chr19/NP_115677....2/NP_115677.2_holo_71-410.pdb psi-blast 86L,88L,134V,136E,149L,175S,177D,193R,228W,2

  4. Domain Modeling: NP_066951.1 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_066951.1 chr11 Yeast RNAP II containing poly(A)-signal sequence in the active si...te p1nt9j_ chr11/NP_066951.1/NP_066951.1_apo_1-64.pdb p3h3vk_ chr11/NP_066951.1/NP_066951.1_holo_1-64.pdb blast 1 ...

  5. 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 ...

  6. Domain Modeling: NP_783641.1 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_783641.1 chr1 CR2-C3D COMPLEX STRUCTURE c1w2sb_ chr1/NP_783641.1/NP_783641.1_apo..._154-288.pdb c1ghqb_ chr1/NP_783641.1/NP_783641.1_holo_154-288.pdb blast 239I,240L,243D,244N,245R,252E,253V _ZN 1 ...

  7. Domain Modeling: NP_005431.1 [SAHG[Archive

    Lifescience Database Archive (English)

    Full Text Available NP_005431.1 chr17 G proteins c2rgnf_ chr17/NP_005431.1/NP_005431.1_apo_7-193.pdb d1kmqa_ chr17/NP_005431.1.../NP_005431.1_holo_7-193.pdb blast 14G,15D,16A,17E,18C,19G,20K,21T,22A,23L,32Y,33P,36Y

  8. The Lennard-Jones Potential Minimization Problem for Prion AGAAAAGA Amyloid Fibril Molecular Modeling

    CERN Document Server

    Zhang, Jiapu

    2011-01-01

    The simplified Lennard-Jones (LJ) potential minimization problem is minimize f(x)=4\\sum_{i=1}^N \\sum_{j=1,jpdb, 3nve.pdb, 3nvf.pdb, 3nvg.pdb and 3nvh.pdb of PDB bank are used for the successful molecular modeling.

  9. Construction of a novel coarse grain model for simulations of HIV capsid assembly to capture the backbone structure and inter-domain motions in solution

    Directory of Open Access Journals (Sweden)

    Xin Qiao

    2015-12-01

    Full Text Available We show the construction of a novel coarse grain model for simulations of HIV capsid assembly based on four structural models of HIV capsid proteins: isolated hexamer 3H47.pdb, tubular assembly 3J34.pdb, isolated pentamer 3P05.pdb and C-terminus dimer 2KOD.pdb. The data demonstrates the derivation of inter-domain motions from all atom Molecular Dynamics simulations and comparison with the motions derived from the analysis of solution NMR results defined in 2M8L.pdb. Snapshots from a representative Monte Carlo simulation with 128 dimeric subunit proteins based on 3J34.pdb are shown in addition to the quantitative analysis of its assembly pathway. Movies of the assembly process are compiled with snapshots of representative simulations of four structural models. The methods and data in this article were utilized in Qiao et al. (in press [1] to probe the mechanism of polymorphism and curvature control of HIV capsid assembly.

  10. SuperLigands – a database of ligand structures derived from the Protein Data Bank

    Directory of Open Access Journals (Sweden)

    Preissner Robert

    2005-05-01

    Full Text Available Abstract Background Currently, the PDB contains approximately 29,000 protein structures comprising over 70,000 experimentally determined three-dimensional structures of over 5,000 different low molecular weight compounds. Information about these PDB ligands can be very helpful in the field of molecular modelling and prediction, particularly for the prediction of protein binding sites and function. Description Here we present an Internet accessible database delivering PDB ligands in the MDL Mol file format which, in contrast to the PDB format, includes information about bond types. Structural similarity of the compounds can be detected by calculation of Tanimoto coefficients and by three-dimensional superposition. Topological similarity of PDB ligands to known drugs can be assessed via Tanimoto coefficients. Conclusion SuperLigands supplements the set of existing resources of information about small molecules bound to PDB structures. Allowing for three-dimensional comparison of the compounds as a novel feature, this database represents a valuable means of analysis and prediction in the field of biological and medical research.

  11. SuperLigands – a database of ligand structures derived from the Protein Data Bank

    Science.gov (United States)

    Michalsky, Elke; Dunkel, Mathias; Goede, Andrean; Preissner, Robert

    2005-01-01

    Background Currently, the PDB contains approximately 29,000 protein structures comprising over 70,000 experimentally determined three-dimensional structures of over 5,000 different low molecular weight compounds. Information about these PDB ligands can be very helpful in the field of molecular modelling and prediction, particularly for the prediction of protein binding sites and function. Description Here we present an Internet accessible database delivering PDB ligands in the MDL Mol file format which, in contrast to the PDB format, includes information about bond types. Structural similarity of the compounds can be detected by calculation of Tanimoto coefficients and by three-dimensional superposition. Topological similarity of PDB ligands to known drugs can be assessed via Tanimoto coefficients. Conclusion SuperLigands supplements the set of existing resources of information about small molecules bound to PDB structures. Allowing for three-dimensional comparison of the compounds as a novel feature, this database represents a valuable means of analysis and prediction in the field of biological and medical research. PMID:15943884

  12. Spatial and temporal variation of radiocarbon in tree rings - some preliminary results

    Energy Technology Data Exchange (ETDEWEB)

    Higham, T.F.G.; Hogg, A.G. [Waikato Univ., Hamilton (New Zealand); McCormac, F.G.; Baillie, M.G.L.; Brown, D. [Queens`s University, Belfast, (Ireland). School of Geosciences; Palmer, J.G.; Xiong, L. [Lincoln University, Canterbury (New Zealand). Department of Plant Science

    1997-12-31

    A number of researchers have identified a measurable difference between the {sup 14}C activities of tree rings of identical dendochronological age between the Northern and the Southern Hemispheres. It is also acknowledged that there is an urgent need for new high precision {Delta}{sup 14}C data from tree rings in both Hemispheres to help resolve the questions relating to the magnitude and cause of the locality and temporal dependence of the {Delta}{sup 14}C record, to provide a reliable Southern Hemisphere calibration curve and to throw light upon the 1986 and 1993 Calibration data set discrepancies. In this paper, the authors present the research design of a project to investigate these critical issues in radiocarbon age calibration and describe the preliminary results. Paper no. 30; Extended abstract; 12 refs.

  13. Fractionation of Boron Isotopes in Icelandic Hydrothermal Systems

    Energy Technology Data Exchange (ETDEWEB)

    Aggarwal, J.K.; Palmer, M.R.

    1995-01-01

    Boron isotope ratios have been determined in a variety of different geothermal waters from hydrothermal systems across Iceland. Isotope ratios from the high temperature meteoric water recharged systems reflect the isotope ratio of the host rocks without any apparent fractionation. Seawater recharged geothermal systems exhibit more positive {delta}{sup 11}B values than the meteoric water recharged geothermal systems. Water/rock ratios can be assessed from boron isotope ratios in the saline hydrothermal systems. Low temperature hydrothermal systems also exhibit more positive {delta}{sup 11}B than the high temperature systems, indicating fractionation of boron due to adsorption of the lighter isotope onto secondary minerals. Fractionation of boron in carbonate deposits may indicate the level of equilibrium attained within the systems.

  14. Symbiotic nitrogen fixation in an arid ecosystem measured by sup 15 N natural abundance

    Energy Technology Data Exchange (ETDEWEB)

    Johnson, G.V. (Univ. of New Mexico, Albuquerque (USA))

    1990-05-01

    Plants dependent on nitrogen fixation have an {sup 15}N abundance similar to the atmosphere, while non-nitrogen fixing plants usually are enriched in {sup 15}N and are similar to soil nitrogen values. The natural abundance of {sup 15}N in leaf tissues and soils was determined to evaluate symbiotic nitrogen fixation by several legumes and actinorhizal species in the Sevilleta Long-term Ecological Research area in central New Mexico. Comparison of {delta}{sup 15}N values for the legume Prosopis glandulosa (mesquite) to adjacent Atriplex canascens (fourwing saltbush) indicated that P. glandulosa obtained 66% of its nitrogen by fixation. The legume Hoffmanseggia jamesii was found to be utilizing soil nitrogen. The {delta}{sup 15}N values for the actinorhizal plants, Elaeagnus angustifolia and Cercocarpus montanus, while below values for soil nitrogen, did not differ from associated non-fixing plants.

  15. CO{sub 2}-recycling by plants: how reliable is the carbon isotope estimation?

    Energy Technology Data Exchange (ETDEWEB)

    Siegwolf, R.T.W.; Saurer, M. [Paul Scherrer Inst. (PSI), Villigen (Switzerland); Koerner, C. [Basel Univ., Basel (Switzerland)

    1997-06-01

    In the study of plant carbon relations, the amount of the respiratory losses from the soil was estimated, determining the gradient of the stable isotope {sup 13}C with increasing plant canopy height. According to the literature 8-26% of the CO{sub 2} released in the forests by soil and plant respiratory processes are reassimilated (recycled) by photosynthesis during the day. Our own measurements however, which we conducted in grass land showed diverging results from no indicating of carbon recycling, to a considerable {delta}{sup 13}C gradient suggesting a high carbon recycling rate. The role of other factors, such as air humidity and irradiation which influence the {delta}{sup 13}C in a canopy as well, are discussed. (author) 3 figs., 4 refs.

  16. {sup 15}N/{sup 14}N isotopic ratio and statistical analysis: an efficient way of linking seized Ecstasy tablets

    Energy Technology Data Exchange (ETDEWEB)

    Palhol, Fabien; Lamoureux, Catherine; Chabrillat, Martine; Naulet, Norbert

    2004-05-10

    In this study, the {sup 15}N/{sup 14}N isotopic ratios of 106 samples of 3,4-methylenedioxymethamphetamine (MDMA) extracted from Ecstasy tablets are presented. These ratios, measured using gas chromatography-combustion-isotope ratio mass spectrometry (GC-C-IRMS), show a large discrimination between samples with a range of {delta}{sup 15}N values between -17 and +19%o, depending on the precursors and the method used in clandestine laboratories. Thus, {delta}{sup 15}N values can be used in a statistical analysis carried out in order to link Ecstasy tablets prepared with the same precursors and synthetic pathway. The similarity index obtained after principal component analysis and hierarchical cluster analysis appears to be an efficient way to group tablets seized in different places.

  17. Solid state {sup 13}C NMR analysis of Brazilian cretaceous ambers

    Energy Technology Data Exchange (ETDEWEB)

    Pereira, Ricardo; Azevedo, Debora A., E-mail: ricardopereira@iq.ufrj.b, E-mail: debora@iq.ufrj.b [Universidade Federal do Rio de Janeiro (IQ/UFRJ), Rio de Janeiro, RJ (Brazil). Inst. de Quimica. Lab. de Geoquimica Organica Molecular e Ambiental; San Gil, Rosane A.S. [Universidade Federal do Rio de Janeiro (IQ/UFRJ), RJ (Brazil). Inst. de Quimica. Lab. de RMN de Solidos; Carvalho, Ismar S. [Universidade Federal do Rio de Janeiro (UFRJ), RJ (Brazil). Inst. de Geociencias. Dept. de Geologia; Fernandes, Antonio Carlos S. [Museu Nacional (MN/UFRJ), RJ (Brazil). Dept. de Geologia e Paleontologia

    2011-07-01

    {sup 13}C cross polarization with magic angle spinning nuclear magnetic resonance ({sup 13}C CPMAS NMR) spectra have been obtained for the first time to three Cretaceous amber samples from South America. The samples were dated to Lower Cretaceous and collected in sediments from the Amazonas, Araripe and Reconcavo basins, Brazil. All samples have very similar spectra, consistent with a common paleobotanical source. Some aspects of the spectra suggest a relationship between Brazilian ambers and Araucariaceae family, such as intense resonances at 38-39 ppm. All samples are constituted by polylabdane structure associated to Class Ib resins, constituted by polymers of labdanoid diterpenes. Finally, information concerning some structural changes during maturation, such as isomerization of {Delta}{sup 8(17)} and {Delta}{sup 12(13)} unsaturations, were obtained by {sup 13}C NMR analyses. The results concerning botanical affinities are in accordance with previous results obtained by gas chromatography-mass spectrometry (GC-MS). (author)

  18. Spatial and temporal variation of radiocarbon in tree rings - some preliminary results

    Energy Technology Data Exchange (ETDEWEB)

    Higham, T.F.G.; Hogg, A.G. [Waikato Univ., Hamilton (New Zealand); McCormac, F.G.; Baillie, M.G.L.; Brown, D. [Queens`s University, Belfast, (Ireland). School of Geosciences; Palmer, J.G.; Xiong, L. [Lincoln University, Canterbury (New Zealand). Department of Plant Science

    1997-12-31

    A number of researchers have identified a measurable difference between the {sup 14}C activities of tree rings of identical dendochronological age between the Northern and the Southern Hemispheres. It is also acknowledged that there is an urgent need for new high precision {Delta}{sup 14}C data from tree rings in both Hemispheres to help resolve the questions relating to the magnitude and cause of the locality and temporal dependence of the {Delta}{sup 14}C record, to provide a reliable Southern Hemisphere calibration curve and to throw light upon the 1986 and 1993 Calibration data set discrepancies. In this paper, the authors present the research design of a project to investigate these critical issues in radiocarbon age calibration and describe the preliminary results. Paper no. 30; Extended abstract; 12 refs.

  19. Mercury in parasitic nematodes and trematodes and their double-crested cormorant hosts: Bioaccumulation in the face of sequestration by nematodes

    Energy Technology Data Exchange (ETDEWEB)

    Robinson, Stacey A., E-mail: srobinsc@connect.carleton.ca [Department of Biology, Carleton University, 209 Nesbitt Bldg, 1125 Colonel By Drive, Ottawa, Ontario, K1S 5B6 (Canada); Forbes, Mark R., E-mail: mforbes6@gmail.com [Department of Biology, Carleton University, 209 Nesbitt Bldg, 1125 Colonel By Drive, Ottawa, Ontario, K1S 5B6 (Canada); Hebert, Craig E., E-mail: Craig.Hebert@ec.gc.ca [Environment Canada, National Wildlife Research Centre, Carleton University, 1125 Colonel By Drive, Ottawa, Ontario, K1A 0H3 (Canada)

    2010-10-15

    Endoparasites can alter their host's heavy metal concentrations by sequestering metals in their own tissues. Contracaecum spp. (a nematode), but not Drepanocephalus spathans (a trematode), were bioaccumulating mercury to concentrations 1.5 times above cormorant hosts. Nematodes did not have significantly greater stable nitrogen isotope values ({delta}{sup 15}N) than their hosts, which is contradictory to prey-predator trophic enrichment studies, but is in agreement with other endoparasite-host relationships. However, Contracaecum spp. {delta}{sup 13}C values were significantly greater than their hosts, which suggest that nematodes were consuming host tissues. Nematodes were accumulating and thus sequestering some of their cormorant hosts' body burden of methyl mercury; however, they were not dramatically reducing their hosts' accumulation of methyl mercury.

  20. Arsenic and other oxyanion-forming trace elements in an alluvial basin aquifer: Evaluating sources and mobilization by isotopic tracers (Sr, B, S, O, H, Ra)

    Energy Technology Data Exchange (ETDEWEB)

    Vinson, David S., E-mail: dsv3@duke.edu [Duke University, Division of Earth and Ocean Sciences, Box 90227, Durham, NC 27708 (United States); McIntosh, Jennifer C. [University of Arizona, Department of Hydrology and Water Resources, 1133 E. James E. Rogers Way, Tucson, AZ 85721 (United States); Dwyer, Gary S.; Vengosh, Avner [Duke University, Division of Earth and Ocean Sciences, Box 90227, Durham, NC 27708 (United States)

    2011-08-15

    Highlights: > Elevated natural As and F occur in the Willcox Basin aquifer of Arizona. > Oxyanion-forming elements are derived from volcanic-source aquifer sediments. > Sr isotopes trace sediment sources linked to oxyanion-forming trace elements. > {sup 87}Sr/{sup 86}Sr > 0.720 indicates Proterozoic crystalline-source sediment contributing low As. > Both sediment source and hydrogeochemical evolution (Ca/Na) affect As levels. - Abstract: The Willcox Basin is a hydrologically closed basin in semi-arid southeastern Arizona (USA) and, like many other alluvial basins in the southwestern USA, is characterized by oxic, near-neutral to slightly basic groundwater containing naturally elevated levels of oxyanion-forming trace elements such as As. This study evaluates the sources and mobilization of these oxyanionic trace elements of health significance by using several isotopic tracers of water-rock interaction and groundwater sources ({sup 87}Sr/{sup 86}Sr, {delta}{sup 34}S{sub SO4}, {delta}{sup 11}B, {delta}{sup 2}H, {delta}{sup 18}O, {sup 3}H). Values of {delta}{sup 2}H (-85 per mille to -64 per mille) and {delta}{sup 18}O (-11.8 per mille to -8.6 per mille) are consistent with precipitation and groundwater in adjacent alluvial basins, and low to non-detectable {sup 3}H activities further imply that modern recharge is slow in this semi-arid environment. Large variations in {sup 87}Sr/{sup 86}Sr ratios imply that groundwater has interacted with multiple sediment sources that constitute the basin-fill aquifer, including Tertiary felsic volcanic rocks, Paleozoic sedimentary rocks, and Proterozoic crystalline rocks. In general, low concentrations of oxyanion-forming trace elements and F{sup -} are associated with a group of waters exhibiting highly radiogenic values of {sup 87}Sr/{sup 86}Sr (0.72064-0.73336) consistent with waters in Proterozoic crystalline rocks in the mountain blocks (0.73247-0.75010). Generally higher As concentrations (2-29 {mu}g L{sup -1}), other