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| | ==Restrained CS-Rosetta Solution NMR Structure of Staphylococcus aureus protein SAV1430. Northeast Structural Genomics Target ZR18. Structure determination== | | ==Restrained CS-Rosetta Solution NMR Structure of Staphylococcus aureus protein SAV1430. Northeast Structural Genomics Target ZR18. Structure determination== |
| - | <StructureSection load='2m8w' size='340' side='right' caption='[[2m8w]], [[NMR_Ensembles_of_Models | 20 NMR models]]' scene=''> | + | <StructureSection load='2m8w' size='340' side='right'caption='[[2m8w]], [[NMR_Ensembles_of_Models | 20 NMR models]]' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[2m8w]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Staam Staam]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2M8W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2M8W FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[2m8w]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Staam Staam]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2M8W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2M8W FirstGlance]. <br> |
| - | </td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2m6q|2m6q]], [[1pqx|1pqx]]</td></tr> | + | </td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2m6q|2m6q]], [[1pqx|1pqx]]</div></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">SAV1430 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=158878 STAAM])</td></tr> | + | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">SAV1430 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=158878 STAAM])</td></tr> |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2m8w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2m8w OCA], [http://pdbe.org/2m8w PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2m8w RCSB], [http://www.ebi.ac.uk/pdbsum/2m8w PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2m8w ProSAT]</span></td></tr> | + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2m8w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2m8w OCA], [https://pdbe.org/2m8w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2m8w RCSB], [https://www.ebi.ac.uk/pdbsum/2m8w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2m8w ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| | + | [[Category: Large Structures]] |
| | [[Category: Staam]] | | [[Category: Staam]] |
| | [[Category: Aramini, J M]] | | [[Category: Aramini, J M]] |
| Structural highlights
Publication Abstract from PubMed
The heterogeneous array of software tools used in the process of protein NMR structure determination presents organizational challenges in the structure determination and validation processes, and creates a learning curve that limits the broader use of protein NMR in biology. These challenges, including accurate use of data in different data formats required by software carrying out similar tasks, continue to confound the efforts of novices and experts alike. These important issues need to be addressed robustly in order to standardize protein NMR structure determination and validation. PDBStat is a C/C++ computer program originally developed as a universal coordinate and protein NMR restraint converter. Its primary function is to provide a user-friendly tool for interconverting between protein coordinate and protein NMR restraint data formats. It also provides an integrated set of computational methods for protein NMR restraint analysis and structure quality assessment, relabeling of prochiral atoms with correct IUPAC names, as well as multiple methods for analysis of the consistency of atomic positions indicated by their convergence across a protein NMR ensemble. In this paper we provide a detailed description of the PDBStat software, and highlight some of its valuable computational capabilities. As an example, we demonstrate the use of the PDBStat restraint converter for restrained CS-Rosetta structure generation calculations, and compare the resulting protein NMR structure models with those generated from the same NMR restraint data using more traditional structure determination methods. These results demonstrate the value of a universal restraint converter in allowing the use of multiple structure generation methods with the same restraint data for consensus analysis of protein NMR structures and the underlying restraint data.
PDBStat: a universal restraint converter and restraint analysis software package for protein NMR.,Tejero R, Snyder D, Mao B, Aramini JM, Montelione GT J Biomol NMR. 2013 Jul 30. PMID:23897031[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Tejero R, Snyder D, Mao B, Aramini JM, Montelione GT. PDBStat: a universal restraint converter and restraint analysis software package for protein NMR. J Biomol NMR. 2013 Jul 30. PMID:23897031 doi:10.1007/s10858-013-9753-7
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