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4uth

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==XenA - oxidized - Y183F variant==
==XenA - oxidized - Y183F variant==
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<StructureSection load='4uth' size='340' side='right' caption='[[4uth]], [[Resolution|resolution]] 1.25&Aring;' scene=''>
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<StructureSection load='4uth' size='340' side='right'caption='[[4uth]], [[Resolution|resolution]] 1.25&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[4uth]] is a 1 chain structure. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3n16 3n16]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UTH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4UTH FirstGlance]. <br>
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<table><tr><td colspan='2'>[[4uth]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3n16 3n16]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UTH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4UTH FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.25&#8491;</td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4uti|4uti]], [[4utj|4utj]], [[4utk|4utk]], [[4utl|4utl]], [[4utm|4utm]]</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=FMN:FLAVIN+MONONUCLEOTIDE'>FMN</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
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<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/NADPH_dehydrogenase NADPH dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.6.99.1 1.6.99.1] </span></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4uth FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uth OCA], [https://pdbe.org/4uth PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4uth RCSB], [https://www.ebi.ac.uk/pdbsum/4uth PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4uth ProSAT]</span></td></tr>
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<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=4uth FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uth OCA], [http://pdbe.org/4uth PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4uth RCSB], [http://www.ebi.ac.uk/pdbsum/4uth PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4uth ProSAT]</span></td></tr>
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</table>
</table>
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<div style="background-color:#fffaf0;">
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== Function ==
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== Publication Abstract from PubMed ==
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[https://www.uniprot.org/uniprot/Q3ZDM6_PSEPU Q3ZDM6_PSEPU]
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Xenobiotic reductase A (XenA) from Pseudomonas putida 86 catalyzes the NAD(P)H-dependent reduction of various alpha,beta-unsaturated carbonyl compounds and is a member of the old yellow enzyme family. The reaction of XenA follows a ping-pong mechanism, implying that its active site has to accommodate and correctly position the various substrates to be oxidized (NADH/NADPH) and to be reduced (different alpha,beta-unsaturated carbonyl compounds) to enable formal hydride transfers between the substrate and the isoalloxazine ring. The active site of XenA is lined by two tyrosine (Tyr27, Tyr183) and two tryptophan (Trp302, Trp358) residues, which were proposed to contribute to substrate binding. We analyzed the individual contributions of the four residues, using site-directed mutagenesis, steady-state and transient kinetics, redox potentiometry and crystal structure analysis. The Y183F substitution decreases the affinity of XenA for NADPH and reduces the rate of the oxidative half-reaction by two to three orders of magnitude, the latter being in agreement with its function as a proton donor in the oxidative half-reaction. Upon reduction of the flavin, Trp302 swings into the active site of XenA (in-conformation) and decreases the extent of the substrate-binding pocket. Its exchange against alanine induces substrate inhibition at elevated NADPH concentrations, indicating that the in-conformation of Trp302 helps to disfavor the nonproductive NADPH binding in the reduced state of XenA. Our analysis shows that while the principal catalytic mechanism of XenA, for example, type of proton donor, is analogous to that of other members of the old yellow enzyme family, its strategy to correctly position and accommodate different substrates is unprecedented.
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Determinants of Substrate Binding and Protonation in the Flavoenzyme Xenobiotic Reductase A.,Spiegelhauer O, Werther T, Mende S, Knauer SH, Dobbek H J Mol Biol. 2010 Sep 6. PMID:20826164<ref>PMID:20826164</ref>
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==See Also==
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*[[Flavin reductase|Flavin reductase]]
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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 4uth" 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: NADPH dehydrogenase]]
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[[Category: Large Structures]]
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[[Category: Dobbek, H]]
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[[Category: Pseudomonas putida]]
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[[Category: Werther, T]]
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[[Category: Dobbek H]]
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[[Category: Oxidoreductase]]
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[[Category: Werther T]]

Current revision

XenA - oxidized - Y183F variant

PDB ID 4uth

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