3q9t

From Proteopedia

(Difference between revisions)

Current revision

Crystal structure analysis of formate oxidase

Structural highlights

3q9t is a 3 chain structure with sequence from Aspergillus oryzae RIB40. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.24Å
Ligands:	, , , ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

Q2UD26_ASPOR

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^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Doubayashi D, Ootake T, Maeda Y, Oki M, Tokunaga Y, Sakurai A, Nagaosa Y, Mikami B, Uchida H. Formate Oxidase, an Enzyme of the Glucose-Methanol-Choline Oxidoreductase Family, Has a His-Arg Pair and 8-Formyl-FAD at the Catalytic Site. Biosci Biotechnol Biochem. 2011 Sep 7. PMID:21897046

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3q9t"

@@ Line 3: / Line 3: @@
 <StructureSection load='3q9t' size='340' side='right'caption='[[3q9t]], [[Resolution|resolution]] 2.24&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3q9t]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Aspor Aspor]. 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>
+<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='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>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.24&#8491;</td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">AO090012000349 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=510516 ASPOR])</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 ==
@@ Line 21: / Line 23: @@
 __TOC__
 </StructureSection>
-[[Category: Aspor]]
+[[Category: Aspergillus oryzae RIB40]]
 [[Category: Large Structures]]
-[[Category: Doubayashi, D]]
+[[Category: Doubayashi D]]
-[[Category: Maeda, Y]]
+[[Category: Maeda Y]]
-[[Category: Mikami, B]]
+[[Category: Mikami B]]
-[[Category: Nagaosa, Y]]
+[[Category: Nagaosa Y]]
-[[Category: Oki, M]]
+[[Category: Oki M]]
-[[Category: Ootake, T]]
+[[Category: Ootake T]]
-[[Category: Sakurai, A]]
+[[Category: Sakurai A]]
-[[Category: Tokunaga, Y]]
+[[Category: Tokunaga Y]]
-[[Category: Uchida, H]]
+[[Category: Uchida H]]
-[[Category: 8-formyl-fad]]
-[[Category: Formate oxidase]]
-[[Category: Glucose-methanol-choline oxidoreductase family]]
-[[Category: Oxidoreductase]]

3q9t

From Proteopedia

Current revision

Crystal structure analysis of formate oxidase

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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