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7z5o
From Proteopedia
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| - | ==== | + | ==W-formate dehydrogenase from Desulfovibrio vulgaris - Dithionite reduced form== |
| - | <StructureSection load='7z5o' size='340' side='right'caption='[[7z5o]]' scene=''> | + | <StructureSection load='7z5o' size='340' side='right'caption='[[7z5o]], [[Resolution|resolution]] 1.53Å' scene=''> |
== Structural highlights == | == Structural highlights == | ||
| - | <table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[7z5o]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Desulfovibrio_vulgaris_str._Hildenborough Desulfovibrio vulgaris str. Hildenborough]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7Z5O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7Z5O FirstGlance]. <br> |
| - | </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=7z5o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7z5o OCA], [https://pdbe.org/7z5o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7z5o RCSB], [https://www.ebi.ac.uk/pdbsum/7z5o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7z5o ProSAT]</span></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]] 1.527Å</td></tr> |
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=H2S:HYDROSULFURIC+ACID'>H2S</scene>, <scene name='pdbligand=MGD:2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE+GUANOSINE+DINUCLEOTIDE'>MGD</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene>, <scene name='pdbligand=W:TUNGSTEN+ION'>W</scene></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=7z5o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7z5o OCA], [https://pdbe.org/7z5o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7z5o RCSB], [https://www.ebi.ac.uk/pdbsum/7z5o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7z5o ProSAT]</span></td></tr> | ||
</table> | </table> | ||
| + | == Function == | ||
| + | [https://www.uniprot.org/uniprot/Q72EJ1_DESVH Q72EJ1_DESVH] | ||
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
| + | Metal-dependent formate dehydrogenases are important enzymes due to their activity of CO2 reduction to formate. The tungsten-containing FdhAB formate dehydrogenase from Desulfovibrio vulgaris Hildenborough is a good example displaying high activity, simple composition, and a notable structural and catalytic robustness. Here, we report the first spectroscopic redox characterization of FdhAB metal centers by EPR. Titration with dithionite or formate leads to reduction of three [4Fe-4S](1+) clusters, and full reduction requires Ti(III)-citrate. The redox potentials of the four [4Fe-4S](1+) centers range between -250 and -530 mV. Two distinct W(V) signals were detected, WD(V) and WF(V), which differ in only the g2-value. This difference can be explained by small variations in the twist angle of the two pyranopterins, as determined through DFT calculations of model compounds. The redox potential of W(VI/V) was determined to be -370 mV when reduced by dithionite and -340 mV when reduced by formate. The crystal structure of dithionite-reduced FdhAB was determined at high resolution (1.5 A), revealing the same structural alterations as reported for the formate-reduced structure. These results corroborate a stable six-ligand W coordination in the catalytic intermediate W(V) state of FdhAB. | ||
| + | |||
| + | Spectroscopic and Structural Characterization of Reduced Desulfovibrio vulgaris Hildenborough W-FdhAB Reveals Stable Metal Coordination during Catalysis.,Oliveira AR, Mota C, Klymanska K, Biaso F, Romao MJ, Guigliarelli B, Pereira IC ACS Chem Biol. 2022 Jul 15;17(7):1901-1909. doi: 10.1021/acschembio.2c00336. Epub, 2022 Jun 29. PMID:35766974<ref>PMID:35766974</ref> | ||
| + | |||
| + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
| + | </div> | ||
| + | <div class="pdbe-citations 7z5o" style="background-color:#fffaf0;"></div> | ||
| + | |||
| + | ==See Also== | ||
| + | *[[Formate dehydrogenase 3D structures|Formate dehydrogenase 3D structures]] | ||
| + | == References == | ||
| + | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
| + | [[Category: Desulfovibrio vulgaris str. Hildenborough]] | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
| - | [[Category: | + | [[Category: Klymanska K]] |
| + | [[Category: Mota C]] | ||
| + | [[Category: Oliveira AR]] | ||
| + | [[Category: Pereira IC]] | ||
| + | [[Category: Romao MJ]] | ||
Current revision
W-formate dehydrogenase from Desulfovibrio vulgaris - Dithionite reduced form
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