7rgb
From Proteopedia
(Difference between revisions)
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==O2-, PLP-dependent desaturase Plu4 product-bound enzyme== | ==O2-, PLP-dependent desaturase Plu4 product-bound enzyme== | ||
| - | <StructureSection load='7rgb' size='340' side='right'caption='[[7rgb]]' scene=''> | + | <StructureSection load='7rgb' size='340' side='right'caption='[[7rgb]], [[Resolution|resolution]] 2.50Å' scene=''> |
== Structural highlights == | == Structural highlights == | ||
| - | <table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7RGB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7RGB FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[7rgb]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudoalteromonas_luteoviolacea Pseudoalteromonas luteoviolacea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7RGB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7RGB FirstGlance]. <br> |
| - | </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=7rgb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7rgb OCA], [https://pdbe.org/7rgb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7rgb RCSB], [https://www.ebi.ac.uk/pdbsum/7rgb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7rgb ProSAT]</span></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]] 2.5Å</td></tr> |
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=4VI:(2Z,4E)-5-carbamimidamido-2-iminopent-4-enoic+acid'>4VI</scene>, <scene name='pdbligand=BTB:2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>BTB</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=LLP:(2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5-(PHOSPHONOOXYMETHYL)PYRIDIN-4-YL]METHYLIDENEAMINO]HEXANOIC+ACID'>LLP</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=7rgb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7rgb OCA], [https://pdbe.org/7rgb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7rgb RCSB], [https://www.ebi.ac.uk/pdbsum/7rgb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7rgb ProSAT]</span></td></tr> | ||
</table> | </table> | ||
| + | == Function == | ||
| + | [https://www.uniprot.org/uniprot/A0A0C1MLE8_9GAMM A0A0C1MLE8_9GAMM] | ||
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
| + | The mechanism by which molecular oxygen is activated by the organic cofactor pyridoxal phosphate (PLP) for oxidation reactions remains poorly understood. Recent work has identified arginine oxidases that catalyze desaturation or hydroxylation reactions. Here, we investigate a desaturase from the Pseudoalteromonas luteoviolacea indolmycin pathway. Our work, combining X-ray crystallographic, biochemical, spectroscopic, and computational studies, supports a shared mechanism with arginine hydroxylases, involving two rounds of single-electron transfer to oxygen and superoxide rebound at the 4' carbon of the PLP cofactor. The precise positioning of a water molecule in the active site is proposed to control the final reaction outcome. This proposed mechanism provides a unified framework to understand how oxygen can be activated by PLP-dependent enzymes for oxidation of arginine and elucidates a shared mechanistic pathway and intertwined evolutionary history for arginine desaturases and hydroxylases. | ||
| + | |||
| + | A shared mechanistic pathway for pyridoxal phosphate-dependent arginine oxidases.,Hoffarth ER, Caddell Haatveit K, Kuatsjah E, MacNeil GA, Saroya S, Walsby CJ, Eltis LD, Houk KN, Garcia-Borras M, Ryan KS Proc Natl Acad Sci U S A. 2021 Oct 5;118(40). pii: 2012591118. doi:, 10.1073/pnas.2012591118. PMID:34580201<ref>PMID:34580201</ref> | ||
| + | |||
| + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
| + | </div> | ||
| + | <div class="pdbe-citations 7rgb" style="background-color:#fffaf0;"></div> | ||
| + | == References == | ||
| + | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
| + | [[Category: Pseudoalteromonas luteoviolacea]] | ||
[[Category: Hoffarth ER]] | [[Category: Hoffarth ER]] | ||
[[Category: Ryan KS]] | [[Category: Ryan KS]] | ||
Current revision
O2-, PLP-dependent desaturase Plu4 product-bound enzyme
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