3rgw

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Current revision (12:23, 14 March 2024) (edit) (undo)
 
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<StructureSection load='3rgw' size='340' side='right'caption='[[3rgw]], [[Resolution|resolution]] 1.50&Aring;' scene=''>
<StructureSection load='3rgw' size='340' side='right'caption='[[3rgw]], [[Resolution|resolution]] 1.50&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[3rgw]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Ralstonia_eutropha Ralstonia eutropha]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RGW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3RGW FirstGlance]. <br>
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<table><tr><td colspan='2'>[[3rgw]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Cupriavidus_necator_H16 Cupriavidus necator H16]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RGW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3RGW FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=F3S:FE3-S4+CLUSTER'>F3S</scene>, <scene name='pdbligand=F4S:FE4-S3+CLUSTER'>F4S</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NFU:FORMYL[BIS(HYDROCYANATO-1KAPPAC)]IRONNICKEL(FE-NI)'>NFU</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.5&#8491;</td></tr>
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<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Hydrogenase_(acceptor) Hydrogenase (acceptor)], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.12.99.6 1.12.99.6] </span></td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=F3S:FE3-S4+CLUSTER'>F3S</scene>, <scene name='pdbligand=F4S:FE4-S3+CLUSTER'>F4S</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NFU:FORMYL[BIS(HYDROCYANATO-1KAPPAC)]IRONNICKEL(FE-NI)'>NFU</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</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=3rgw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rgw OCA], [https://pdbe.org/3rgw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3rgw RCSB], [https://www.ebi.ac.uk/pdbsum/3rgw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3rgw 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=3rgw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rgw OCA], [https://pdbe.org/3rgw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3rgw RCSB], [https://www.ebi.ac.uk/pdbsum/3rgw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3rgw ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
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[[https://www.uniprot.org/uniprot/MBHL_CUPNH MBHL_CUPNH]] This enzyme recycles the H(2) produced by nitrogenase to increase the production of ATP and to protect nitrogenase against inhibition or damage by O(2) under carbon- or phosphate-limited conditions. [[https://www.uniprot.org/uniprot/MBHS_CUPNH MBHS_CUPNH]] This enzyme recycles the H(2) produced by nitrogenase to increase the production of ATP and to protect nitrogenase against inhibition or damage by O(2) under carbon- or phosphate-limited conditions.
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[https://www.uniprot.org/uniprot/MBHL_CUPNH MBHL_CUPNH] This enzyme recycles the H(2) produced by nitrogenase to increase the production of ATP and to protect nitrogenase against inhibition or damage by O(2) under carbon- or phosphate-limited conditions.
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Hydrogenases are abundant enzymes that catalyse the reversible interconversion of H(2) into protons and electrons at high rates. Those hydrogenases maintaining their activity in the presence of O(2) are considered to be central to H(2)-based technologies, such as enzymatic fuel cells and for light-driven H(2) production. Despite comprehensive genetic, biochemical, electrochemical and spectroscopic investigations, the molecular background allowing a structural interpretation of how the catalytic centre is protected from irreversible inactivation by O(2) has remained unclear. Here we present the crystal structure of an O(2)-tolerant [NiFe]-hydrogenase from the aerobic H(2) oxidizer Ralstonia eutropha H16 at 1.5 A resolution. The heterodimeric enzyme consists of a large subunit harbouring the catalytic centre in the H(2)-reduced state and a small subunit containing an electron relay consisting of three different iron-sulphur clusters. The cluster proximal to the active site displays an unprecedented [4Fe-3S] structure and is coordinated by six cysteines. According to the current model, this cofactor operates as an electronic switch depending on the nature of the gas molecule approaching the active site. It serves as an electron acceptor in the course of H(2) oxidation and as an electron-delivering device upon O(2) attack at the active site. This dual function is supported by the capability of the novel iron-sulphur cluster to adopt three redox states at physiological redox potentials. The second structural feature is a network of extended water cavities that may act as a channel facilitating the removal of water produced at the [NiFe] active site. These discoveries will have an impact on the design of biological and chemical H(2)-converting catalysts that are capable of cycling H(2) in air.
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The crystal structure of an oxygen-tolerant hydrogenase uncovers a novel iron-sulphur centre.,Fritsch J, Scheerer P, Frielingsdorf S, Kroschinsky S, Friedrich B, Lenz O, Spahn CM Nature. 2011 Oct 16;479(7372):249-52. doi: 10.1038/nature10505. PMID:22002606<ref>PMID:22002606</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 3rgw" style="background-color:#fffaf0;"></div>
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== References ==
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<references/>
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Cupriavidus necator H16]]
[[Category: Large Structures]]
[[Category: Large Structures]]
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[[Category: Ralstonia eutropha]]
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[[Category: Friedrich B]]
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[[Category: Friedrich, B]]
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[[Category: Frielingsdorf S]]
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[[Category: Frielingsdorf, S]]
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[[Category: Fritsch J]]
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[[Category: Fritsch, J]]
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[[Category: Kroschinsky S]]
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[[Category: Kroschinsky, S]]
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[[Category: Lenz O]]
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[[Category: Lenz, O]]
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[[Category: Scheerer P]]
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[[Category: Scheerer, P]]
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[[Category: Spahn CMT]]
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[[Category: Spahn, C M.T]]
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[[Category: Aerobic hydrogen bacteria]]
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[[Category: Bimetallic]]
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[[Category: Dehydrogenase]]
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[[Category: Dihydrogen]]
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[[Category: High-resolution crystal structure]]
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[[Category: Hydrogen]]
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[[Category: Hydrogen catalysis]]
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[[Category: Iron]]
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[[Category: Iron-sulfur cluster]]
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[[Category: Knallgasbacteria]]
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[[Category: Membrane]]
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[[Category: Membrane-bound]]
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[[Category: Metalloenzyme]]
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[[Category: Metalloprotein catalytic center]]
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[[Category: Ni-fe active site]]
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[[Category: Nickel]]
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[[Category: Nickel-iron cofactor]]
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[[Category: Oxidoreductase]]
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[[Category: Oxidoreductase-oxidoreductase complex]]
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[[Category: Oxygen-tolerant hydrogenase]]
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[[Category: Proteobacteria]]
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[[Category: Reduced state]]
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[[Category: T-cluster]]
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Current revision

Crystal structure at 1.5 A resolution of an H2-reduced, O2-tolerant hydrogenase from Ralstonia eutropha unmasks a novel iron-sulfur cluster

PDB ID 3rgw

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Proteopedia Page Contributors and Editors (what is this?)

OCA

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