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3kp9
From Proteopedia
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| - | {{STRUCTURE_3kp9| PDB=3kp9 | SCENE= }} | ||
| - | ===Structure of a bacterial homolog of vitamin K epoxide reductase=== | ||
| - | {{ABSTRACT_PUBMED_20110994}} | ||
| - | == | + | ==Structure of a bacterial homolog of vitamin K epoxide reductase== |
| - | [[3kp9]] is a 1 chain structure with sequence from [ | + | <StructureSection load='3kp9' size='340' side='right'caption='[[3kp9]], [[Resolution|resolution]] 3.60Å' scene=''> |
| + | == Structural highlights == | ||
| + | <table><tr><td colspan='2'>[[3kp9]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Cyanobacteria_bacterium_yellowstone_b' Cyanobacteria bacterium yellowstone b']. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KP9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3KP9 FirstGlance]. <br> | ||
| + | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HG:MERCURY+(II)+ION'>HG</scene>, <scene name='pdbligand=U10:UBIQUINONE-10'>U10</scene></td></tr> | ||
| + | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3kp8|3kp8]]</div></td></tr> | ||
| + | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">CYB_2278 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=321332 Cyanobacteria bacterium Yellowstone B'])</td></tr> | ||
| + | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Vitamin-K-epoxide_reductase_(warfarin-insensitive) Vitamin-K-epoxide reductase (warfarin-insensitive)], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.17.4.5 1.17.4.5] </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=3kp9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kp9 OCA], [https://pdbe.org/3kp9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3kp9 RCSB], [https://www.ebi.ac.uk/pdbsum/3kp9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3kp9 ProSAT]</span></td></tr> | ||
| + | </table> | ||
| + | == Evolutionary Conservation == | ||
| + | [[Image:Consurf_key_small.gif|200px|right]] | ||
| + | Check<jmol> | ||
| + | <jmolCheckbox> | ||
| + | <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/kp/3kp9_consurf.spt"</scriptWhenChecked> | ||
| + | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked> | ||
| + | <text>to colour the structure by Evolutionary Conservation</text> | ||
| + | </jmolCheckbox> | ||
| + | </jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3kp9 ConSurf]. | ||
| + | <div style="clear:both"></div> | ||
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
| + | Vitamin K epoxide reductase (VKOR) generates vitamin K hydroquinone to sustain gamma-carboxylation of many blood coagulation factors. Here, we report the 3.6 A crystal structure of a bacterial homologue of VKOR from Synechococcus sp. The structure shows VKOR in complex with its naturally fused redox partner, a thioredoxin-like domain, and corresponds to an arrested state of electron transfer. The catalytic core of VKOR is a four transmembrane helix bundle that surrounds a quinone, connected through an additional transmembrane segment with the periplasmic thioredoxin-like domain. We propose a pathway for how VKOR uses electrons from cysteines of newly synthesized proteins to reduce a quinone, a mechanism confirmed by in vitro reconstitution of vitamin K-dependent disulphide bridge formation. Our results have implications for the mechanism of the mammalian VKOR and explain how mutations can cause resistance to the VKOR inhibitor warfarin, the most commonly used oral anticoagulant. | ||
| - | + | Structure of a bacterial homologue of vitamin K epoxide reductase.,Li W, Schulman S, Dutton RJ, Boyd D, Beckwith J, Rapoport TA Nature. 2010 Jan 28;463(7280):507-12. PMID:20110994<ref>PMID:20110994</ref> | |
| - | <ref | + | |
| - | [[Category: | + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> |
| - | [[Category: Beckwith, J | + | </div> |
| - | [[Category: Boyd, D | + | <div class="pdbe-citations 3kp9" style="background-color:#fffaf0;"></div> |
| - | [[Category: Dutton, R J | + | == References == |
| - | [[Category: Li, W | + | <references/> |
| - | [[Category: Rapoport, T A | + | __TOC__ |
| - | [[Category: Schulman, S | + | </StructureSection> |
| + | [[Category: Cyanobacteria bacterium yellowstone b']] | ||
| + | [[Category: Large Structures]] | ||
| + | [[Category: Beckwith, J]] | ||
| + | [[Category: Boyd, D]] | ||
| + | [[Category: Dutton, R J]] | ||
| + | [[Category: Li, W]] | ||
| + | [[Category: Rapoport, T A]] | ||
| + | [[Category: Schulman, S]] | ||
[[Category: Blood coagulation]] | [[Category: Blood coagulation]] | ||
[[Category: Disulfide formation]] | [[Category: Disulfide formation]] | ||
[[Category: Oxidoreductase]] | [[Category: Oxidoreductase]] | ||
[[Category: Warfarin]] | [[Category: Warfarin]] | ||
Current revision
Structure of a bacterial homolog of vitamin K epoxide reductase
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