This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


4c3o

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Line 3: Line 3:
<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 17:24, 7 September 2022

Structure and function of an oxygen tolerant NiFe hydrogenase from Salmonella

PDB ID 4c3o

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/4c3o"
Personal tools