3q9t: Difference between revisions
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==Crystal structure analysis of formate oxidase== | |||
<StructureSection load='3q9t' size='340' side='right'caption='[[3q9t]], [[Resolution|resolution]] 2.24Å' scene=''> | |||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[3q9t]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Aspergillus_oryzae_RIB40 Aspergillus oryzae RIB40]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3Q9T OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3Q9T FirstGlance]. <br> | |||
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.24Å</td></tr> | |||
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=FAY:[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl+(2R,3S,4S)-5-(8-formyl-7-methyl-2,4-dioxo-3,4-dihydrobenzo[g]pteridin-10(2H)-yl)-2,3,4-trihydroxypentyl+dihydrogen+diphosphate'>FAY</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=MRD:(4R)-2-METHYLPENTANE-2,4-DIOL'>MRD</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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=3q9t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3q9t OCA], [https://pdbe.org/3q9t PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3q9t RCSB], [https://www.ebi.ac.uk/pdbsum/3q9t PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3q9t ProSAT]</span></td></tr> | |||
</table> | |||
== Function == | |||
[https://www.uniprot.org/uniprot/Q2UD26_ASPOR Q2UD26_ASPOR] | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
Formate oxidase of Aspergillus oryzae RIB40 contains an 8-replaced FAD with molecular mass of 799 as cofactor. The (1)H-NMR spectrum of the cofactor fraction obtained from the enzyme indicated that the 8-replaced FAD in the fraction was 8-formyl-FAD, present in open form and hemiacetal form. The oxidation-reduction potentials of the open and hemiacetal forms were estimated by cyclic voltammetry to be -47 and -177 mV vs. Normal Hydrogen Electrode respectively. The structure of the enzyme was constructed using diffraction data to 2.24 A resolution collected from a crystal of the enzyme. His(511) and Arg(554) were situated close to the pyrimidine part of the isoalloxazine ring of 8-formyl-FAD in open form. The enzyme had 8-formyl-FAD, the oxidation potential of which was approximately 160 mV more positive than that of FAD, and the His-Arg pair at the catalytic site, unlike the other enzymes belonging to the glucose-methanol-choline oxidoreductase family. | |||
Formate Oxidase, an Enzyme of the Glucose-Methanol-Choline Oxidoreductase Family, Has a His-Arg Pair and 8-Formyl-FAD at the Catalytic Site.,Doubayashi D, Ootake T, Maeda Y, Oki M, Tokunaga Y, Sakurai A, Nagaosa Y, Mikami B, Uchida H Biosci Biotechnol Biochem. 2011 Sep 7. PMID:21897046<ref>PMID:21897046</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
</div> | |||
<div class="pdbe-citations 3q9t" style="background-color:#fffaf0;"></div> | |||
== References == | |||
<references/> | |||
__TOC__ | |||
</StructureSection> | |||
[[Category: Aspergillus oryzae RIB40]] | |||
[[Category: Large Structures]] | |||
[[Category: Doubayashi D]] | |||
[[Category: Maeda Y]] | |||
[[Category: Mikami B]] | |||
[[Category: Nagaosa Y]] | |||
[[Category: Oki M]] | |||
[[Category: Ootake T]] | |||
[[Category: Sakurai A]] | |||
[[Category: Tokunaga Y]] | |||
[[Category: Uchida H]] | |||
Latest revision as of 17:11, 1 November 2023
Crystal structure analysis of formate oxidase
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