7tsj
From Proteopedia
(Difference between revisions)
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==Xenon-bound structure of carbon monoxide dehydrogenase (CODH) from Desulfovibrio vulgaris== | ==Xenon-bound structure of carbon monoxide dehydrogenase (CODH) from Desulfovibrio vulgaris== | ||
| - | <StructureSection load='7tsj' size='340' side='right'caption='[[7tsj]]' scene=''> | + | <StructureSection load='7tsj' size='340' side='right'caption='[[7tsj]], [[Resolution|resolution]] 2.10Å' 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=7TSJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7TSJ FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[7tsj]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Desulfovibrio_vulgaris Desulfovibrio vulgaris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7TSJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7TSJ 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=7tsj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7tsj OCA], [https://pdbe.org/7tsj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7tsj RCSB], [https://www.ebi.ac.uk/pdbsum/7tsj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7tsj 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]] 2.1Å</td></tr> |
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CUV:Fe(4)-Ni(1)-S(4)+cluster,+oxidized'>CUV</scene>, <scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene>, <scene name='pdbligand=XE:XENON'>XE</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=7tsj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7tsj OCA], [https://pdbe.org/7tsj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7tsj RCSB], [https://www.ebi.ac.uk/pdbsum/7tsj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7tsj ProSAT]</span></td></tr> | ||
</table> | </table> | ||
| + | == Function == | ||
| + | [https://www.uniprot.org/uniprot/Q72A99_DESVH Q72A99_DESVH] | ||
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
| + | Carbon monoxide dehydrogenase (CODH) plays an important role in the processing of the onecarbon gases carbon monoxide and carbon dioxide. In CODH enzymes, these gases are channeled to and from the Ni-Fe-S active sites using hydrophobic cavities. In this work, we investigate these gas channels in a monofunctional CODH from Desulfovibrio vulgaris, which is unusual among CODHs for its oxygen-tolerance. By pressurizing D. vulgaris CODH protein crystals with xenon and solving the structure to 2.10 A resolution, we identify 12 xenon sites per CODH monomer, thereby elucidating hydrophobic gas channels. We find that D. vulgaris CODH has one gas channel that has not been experimentally validated previously in a CODH, and a second channel that is shared with Moorella thermoacetica carbon monoxide dehydrogenase/acetyl-CoA synthase (CODH/ACS). This experimental visualization of D. vulgaris CODH gas channels lays groundwork for further exploration of factors contributing to oxygen-tolerance in this CODH, as well as study of channels in other CODHs. We dedicate this publication to the memory of Dick Holm, whose early studies of the Ni-Fe-S clusters of CODH inspired us all. | ||
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| + | Visualizing the gas channel of a monofunctional carbon monoxide dehydrogenase.,Biester A, Dementin S, Drennan CL J Inorg Biochem. 2022 May;230:111774. doi: 10.1016/j.jinorgbio.2022.111774. Epub , 2022 Feb 23. PMID:35278753<ref>PMID:35278753</ref> | ||
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| + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
| + | </div> | ||
| + | <div class="pdbe-citations 7tsj" style="background-color:#fffaf0;"></div> | ||
| + | |||
| + | ==See Also== | ||
| + | *[[Carbon monoxide dehydrogenase 3D structures|Carbon monoxide dehydrogenase 3D structures]] | ||
| + | == References == | ||
| + | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
| + | [[Category: Desulfovibrio vulgaris]] | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
[[Category: Biester A]] | [[Category: Biester A]] | ||
[[Category: Drennan CL]] | [[Category: Drennan CL]] | ||
Current revision
Xenon-bound structure of carbon monoxide dehydrogenase (CODH) from Desulfovibrio vulgaris
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