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| | ==Substrate and inhibitor complexes of ribose 5-phosphate isomerase from Vibrio vulnificus YJ016== | | ==Substrate and inhibitor complexes of ribose 5-phosphate isomerase from Vibrio vulnificus YJ016== |
| - | <StructureSection load='3enw' size='340' side='right' caption='[[3enw]], [[Resolution|resolution]] 2.00Å' scene=''> | + | <StructureSection load='3enw' size='340' side='right'caption='[[3enw]], [[Resolution|resolution]] 2.00Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[3enw]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_27562 Atcc 27562]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ENW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ENW FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[3enw]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Vibrio_vulnificus Vibrio vulnificus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ENW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3ENW FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=5RP:RIBULOSE-5-PHOSPHATE'>5RP</scene></td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3env|3env]]</td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=5RP:RIBULOSE-5-PHOSPHATE'>5RP</scene></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">rpiA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=672 ATCC 27562])</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=3enw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3enw OCA], [https://pdbe.org/3enw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3enw RCSB], [https://www.ebi.ac.uk/pdbsum/3enw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3enw ProSAT]</span></td></tr> |
| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribose-5-phosphate_isomerase Ribose-5-phosphate isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.6 5.3.1.6] </span></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=3enw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3enw OCA], [http://pdbe.org/3enw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3enw RCSB], [http://www.ebi.ac.uk/pdbsum/3enw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3enw ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/RPIA_VIBVY RPIA_VIBVY] |
| | == Evolutionary Conservation == | | == Evolutionary Conservation == |
| | [[Image:Consurf_key_small.gif|200px|right]] | | [[Image:Consurf_key_small.gif|200px|right]] |
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| | ==See Also== | | ==See Also== |
| | *[[Ribose-5-phosphate isomerase|Ribose-5-phosphate isomerase]] | | *[[Ribose-5-phosphate isomerase|Ribose-5-phosphate isomerase]] |
| | + | *[[Ribose-5-phosphate isomerase 3D structures|Ribose-5-phosphate isomerase 3D structures]] |
| | == References == | | == References == |
| | <references/> | | <references/> |
| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Atcc 27562]] | + | [[Category: Large Structures]] |
| - | [[Category: Ribose-5-phosphate isomerase]] | + | [[Category: Vibrio vulnificus]] |
| - | [[Category: Kim, T G]] | + | [[Category: Kim TG]] |
| - | [[Category: Kwon, T H]] | + | [[Category: Kwon TH]] |
| - | [[Category: Min, K]] | + | [[Category: Min K]] |
| - | [[Category: Arabinose 5-phosphate]]
| + | |
| - | [[Category: Isomerase]]
| + | |
| - | [[Category: Ribose 5-phosphate]]
| + | |
| Structural highlights
Function
RPIA_VIBVY
Evolutionary Conservation
Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.
Publication Abstract from PubMed
Ribose-5-phosphate isomerase A (RpiA) plays an important role in interconverting between ribose-5-phosphate (R5P) and ribulose-5-phosphate in the pentose phosphate pathway and the Calvin cycle. We have determined the crystal structures of the open form RpiA from Vibrio vulnificus YJ106 (VvRpiA) in complex with the R5P and the closed form with arabinose-5-phosphate (A5P) in parallel with the apo VvRpiA at 2.0 A resolution. VvRpiA is highly similar to Eschericihia coliRpiA, and the VvRpiA-R5P complex strongly resembles the E. coli RpiA-A5P complex. Interestingly, unlike the E. coli RpiA-A5P complex, the position of A5P in the VvRpiA-A5P complex reveals a different position than the R5P binding mode. VvRpiA-A5P has a sugar ring inside the binding pocket and a phosphate group outside the binding pocket: By contrast, the sugar ring of A5P interacts with the Asp4, Lys7, Ser30, Asp118, and Lys121 residues; the phosphate group of A5P interacts with two water molecules, W51 and W82.
Crystal structures of substrate and inhibitor complexes of ribose 5-phosphate isomerase A from Vibrio vulnificus YJ016.,Kim TG, Kwon TH, Min K, Dong MS, Park YI, Ban C Mol Cells. 2009 Jan;27(1):99-103. Epub 2009 Feb 5. PMID:19214439[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Kim TG, Kwon TH, Min K, Dong MS, Park YI, Ban C. Crystal structures of substrate and inhibitor complexes of ribose 5-phosphate isomerase A from Vibrio vulnificus YJ016. Mol Cells. 2009 Jan;27(1):99-103. Epub 2009 Feb 5. PMID:19214439 doi:10.1007/s10059-009-0010-6
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