OCA at 16:30, 18 October 2023

OCA — Wed, 18 Oct 2023 16:30:34 GMT

←Older revision		Revision as of 16:30, 18 October 2023
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	==O2-, PLP-dependent desaturase Plu4 intermediate-bound enzyme==		==O2-, PLP-dependent desaturase Plu4 intermediate-bound enzyme==
-	<StructureSection load='7rf9' size='340' side='right'caption='[[7rf9]]' scene=''>	+	<StructureSection load='7rf9' size='340' side='right'caption='[[7rf9]], [[Resolution\|resolution]] 1.93Å' 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=7RF9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7RF9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7rf9]] 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=7RF9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7RF9 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=7rf9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7rf9 OCA], [https://pdbe.org/7rf9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7rf9 RCSB], [https://www.ebi.ac.uk/pdbsum/7rf9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7rf9 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]] 1.926Å</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=AE3:2-(2-ETHOXYETHOXY)ETHANOL'>AE3</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=EJ1:(2E)-5-carbamimidamido-2-{[(Z)-{3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4(1H)-ylidene}methyl]imino}pentanoic+acid'>EJ1</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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=7rf9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7rf9 OCA], [https://pdbe.org/7rf9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7rf9 RCSB], [https://www.ebi.ac.uk/pdbsum/7rf9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7rf9 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 7rf9" 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]]

OCA at 05:33, 6 October 2021

OCA — Wed, 06 Oct 2021 05:33:43 GMT

←Older revision		Revision as of 05:33, 6 October 2021
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-	'''Unreleased structure'''

-	~~The entry~~ 7rf9 ~~is ON HOLD until Paper Publication~~	+	==O2-, PLP-dependent desaturase Plu4 intermediate-bound enzyme==
-		+	<StructureSection load='7rf9' size='340' side='right'caption='[[7rf9]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7RF9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7RF9 FirstGlance]. <br>
-	~~Description~~:	+	</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=7rf9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7rf9 OCA], [https://pdbe.org/7rf9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7rf9 RCSB], [https://www.ebi.ac.uk/pdbsum/7rf9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7rf9 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Hoffarth ER]]
		+	[[Category: Ryan KS]]

OCA at 05:06, 18 August 2021

OCA — Wed, 18 Aug 2021 05:06:15 GMT

←Older revision		Revision as of 05:06, 18 August 2021
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7rf9 is ON HOLD	+	The entry 7rf9 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "7rf9" [edit=sysop:move=sysop]

OCA — Wed, 21 Jul 2021 08:03:04 GMT

Protected "7rf9" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:03, 21 July 2021

OCA: New page: '''Unreleased structure''' The entry 7rf9 is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 21 Jul 2021 08:03:03 GMT

New page: '''Unreleased structure''' The entry 7rf9 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7rf9 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]

7rf9 - Revision history

OCA at 16:30, 18 October 2023

OCA at 05:33, 6 October 2021

OCA at 05:06, 18 August 2021

OCA: Protected "7rf9" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 7rf9 is ON HOLD Authors: Description: Category: Unreleased Structures