4c3o: Difference between revisions

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<StructureSection load='4c3o' size='340' side='right'caption='[[4c3o]], [[Resolution|resolution]] 3.20&Aring;' scene=''>
<StructureSection load='4c3o' size='340' side='right'caption='[[4c3o]], [[Resolution|resolution]] 3.20&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[4c3o]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Salty Salty]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4C3O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4C3O FirstGlance]. <br>
<table><tr><td colspan='2'>[[4c3o]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_Typhimurium_str._LT2 Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4C3O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4C3O FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <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>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <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>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ferredoxin_hydrogenase Ferredoxin hydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.12.7.2 1.12.7.2] </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=4c3o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4c3o OCA], [https://pdbe.org/4c3o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4c3o RCSB], [https://www.ebi.ac.uk/pdbsum/4c3o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4c3o ProSAT]</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=4c3o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4c3o OCA], [http://pdbe.org/4c3o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4c3o RCSB], [http://www.ebi.ac.uk/pdbsum/4c3o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4c3o ProSAT]</span></td></tr>
</table>
</table>
<div style="background-color:#fffaf0;">
== Function ==
== Publication Abstract from PubMed ==
[[https://www.uniprot.org/uniprot/Q8ZPH0_SALTY Q8ZPH0_SALTY]]
Salmonella enterica is an opportunistic pathogen that produces a [NiFe]-hydrogenase under aerobic conditions. Here, genetic engineering approaches were used to facilitate isolation of this enzyme, termed Hyd-5. The crystal structure was determined to a resolution of 3.2 A and the hydrogenase was observed to comprise associated large and small subunits. The structure indicated that residue H229 from the large subunit was close to the proximal [4Fe-3S] cluster in the small subunit. In addition, H229 was observed to lie close to a buried glutamic acid (E73), which is conserved in oxygen-tolerant hydrogenases. Residues H229 and E73 of the Hyd-5 large subunit were found to be important in both hydrogen oxidation activity and the oxygen tolerance mechanism. Substitution of H229 or E73 with alanine led to a loss in the ability of Hyd-5 to oxidise hydrogen in air. Furthermore, the H229A variant was found to have lost the overpotential requirement for activity that is always observed with oxygen-tolerant [NiFe]-hydrogenases. It is possible that H229 has a role in stabilising the super-oxidised form of the proximal cluster in the presence of oxygen, and it is proposed that E73 could play a supporting role in fine-tuning the chemistry of H229 to enable this function.
 
How the structure of the large subunit controls function in an oxygen-tolerant [NiFe]-hydrogenase.,Bowman L, Flanagan L, Fyfe PK, Parkin A, Hunter WN, Sargent F Biochem J. 2014 Jan 16. PMID:24428762<ref>PMID:24428762</ref>
 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 4c3o" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Ferredoxin hydrogenase]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Salty]]
[[Category: Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]]
[[Category: Bowman, L]]
[[Category: Bowman L]]
[[Category: Flanagan, L]]
[[Category: Flanagan L]]
[[Category: Fyfe, P K]]
[[Category: Fyfe PK]]
[[Category: Hunter, W N]]
[[Category: Hunter WN]]
[[Category: Parkin, A]]
[[Category: Parkin A]]
[[Category: Sargent, F]]
[[Category: Sargent F]]
[[Category: Hydrogen metabolism]]
[[Category: Nife hydrogenase]]
[[Category: Oxidoreductase]]

Revision as of 20:24, 7 September 2022

Structure and function of an oxygen tolerant NiFe hydrogenase from SalmonellaStructure and function of an oxygen tolerant NiFe hydrogenase from Salmonella

Structural highlights

4c3o is a 6 chain structure with sequence from Salmonella enterica subsp. enterica serovar Typhimurium str. LT2. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:, , , , , ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[Q8ZPH0_SALTY]

4c3o, resolution 3.20Å

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OCA
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