6byw - Revision history

OCA at 07:17, 28 February 2018

OCA — Wed, 28 Feb 2018 07:17:29 GMT

←Older revision		Revision as of 07:17, 28 February 2018
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	<StructureSection load='6byw' size='340' side='right' caption='[[6byw]], [[Resolution\|resolution]] 2.05Å' scene=''>		<StructureSection load='6byw' size='340' side='right' caption='[[6byw]], [[Resolution\|resolution]] 2.05Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6byw]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BYW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6BYW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6byw]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudoalteromonas_luteoviolacea_dsm_6061 Pseudoalteromonas luteoviolacea dsm 6061]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BYW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6BYW FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=TRQ:2-AMINO-3-(6,7-DIOXO-6,7-DIHYDRO-1H-INDOL-3-YL)-PROPIONIC+ACID'>TRQ</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=TRQ:2-AMINO-3-(6,7-DIOXO-6,7-DIHYDRO-1H-INDOL-3-YL)-PROPIONIC+ACID'>TRQ</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">N475_19905 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1365250 Pseudoalteromonas luteoviolacea DSM 6061])</td></tr>
	<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=6byw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6byw OCA], [http://pdbe.org/6byw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6byw RCSB], [http://www.ebi.ac.uk/pdbsum/6byw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6byw ProSAT]</span></td></tr>		<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=6byw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6byw OCA], [http://pdbe.org/6byw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6byw RCSB], [http://www.ebi.ac.uk/pdbsum/6byw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6byw ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Pseudoalteromonas luteoviolacea dsm 6061]]
	[[Category: Avalos, D]]		[[Category: Avalos, D]]
	[[Category: Yukl, E T]]		[[Category: Yukl, E T]]

OCA at 06:34, 15 February 2018

OCA — Thu, 15 Feb 2018 06:34:35 GMT

←Older revision		Revision as of 06:34, 15 February 2018
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-	'''Unreleased structure'''

-	~~The entry~~ 6byw is ~~ON HOLD until Paper~~ Publication	+	==Structure of GoxA from Pseudoalteromonas luteoviolacea==
		+	<StructureSection load='6byw' size='340' side='right' caption='[[6byw]], [[Resolution\|resolution]] 2.05Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6byw]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6BYW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6BYW FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=TRQ:2-AMINO-3-(6,7-DIOXO-6,7-DIHYDRO-1H-INDOL-3-YL)-PROPIONIC+ACID'>TRQ</scene></td></tr>
		+	<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=6byw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6byw OCA], [http://pdbe.org/6byw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6byw RCSB], [http://www.ebi.ac.uk/pdbsum/6byw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6byw ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Glycine oxidase from Pseudoalteromonas luteoviolacea (PlGoxA) is a cysteine tryptophylquinone (CTQ)-dependent enzyme. Sequence analysis and phylogenetic analysis place it in a newly designated subgroup (group IID) of a recently identified family of LodA-like proteins, which are predicted to possess CTQ. The crystal structure of PlGoxA reveals that it is a homotetramer. It possesses an N-terminal domain with no close structural homologues in the Protein Data Bank. The active site is quite small because of intersubunit interactions, which may account for the observed cooperativy toward glycine. Steady-state kinetic analysis yielded the following values: kcat = 6.0 +/- 0.2 s(-1), K0.5 = 187 +/- 18 muM, and h = 1.77 +/- 0.27. In contrast to other quinoprotein amine dehydrogenases and oxidases that exhibit anomalously large primary kinetic isotope effects on the rate of reduction of the quinone cofactor by the amine substrate, no significant primary kinetic isotope effect was observed for this reaction of PlGoxA. The absorbance spectrum of glycine-reduced PlGoxA exhibits features in the range of 400-650 nm that have not previously been seen in other quinoproteins. Thus, in addition to the unusual structural features of PlGoxA, the kinetic and chemical reaction mechanisms of the reductive half-reaction of PlGoxA appear to be distinct from those of other amine dehydrogenases and amine oxidases that use tryptophylquinone and tyrosylquinone cofactors.

-	~~Authors: Yukl~~, E~~.T.~~, Avalos, D.	+	Structure and Enzymatic Properties of an Unusual Cysteine Tryptophylquinone-Dependent Glycine Oxidase from Pseudoalteromonas luteoviolacea.,Andreo-Vidal A, Mamounis KJ, Sehanobish E, Avalos D, Campillo-Brocal JC, Sanchez-Amat A, Yukl ET, Davidson VL Biochemistry. 2018 Feb 6. doi: 10.1021/acs.biochem.8b00009. PMID:29381339<ref>PMID:29381339</ref>

-	~~Description: Structure~~ of ~~GoxA from Pseudoalteromonas luteoviolacea~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category: Unreleased Structures]]~~	+	</div>
-	~~[[Category~~: ~~Yukl, E.T]]~~	+	<div class="pdbe-citations 6byw" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Avalos, D]]		[[Category: Avalos, D]]
		+	[[Category: Yukl, E T]]
		+	[[Category: Cystein tryptophylquinone]]
		+	[[Category: Glycine oxidase]]
		+	[[Category: Unknown function]]

OCA at 05:40, 17 January 2018

OCA — Wed, 17 Jan 2018 05:40:57 GMT

←Older revision		Revision as of 05:40, 17 January 2018
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6byw is ON HOLD	+	The entry 6byw is ON HOLD until Paper Publication

	Authors: Yukl, E.T., Avalos, D.		Authors: Yukl, E.T., Avalos, D.

OCA: Protected "6byw" [edit=sysop:move=sysop]

OCA — Wed, 27 Dec 2017 07:24:37 GMT

Protected "6byw" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:24, 27 December 2017

OCA: New page: '''Unreleased structure''' The entry 6byw is ON HOLD Authors: Yukl, E.T., Avalos, D. Description: Structure of GoxA from Pseudoalteromonas luteoviolacea [[Category: Unreleased Structur...

OCA — Wed, 27 Dec 2017 07:24:36 GMT

New page: '''Unreleased structure''' The entry 6byw is ON HOLD Authors: Yukl, E.T., Avalos, D. Description: Structure of GoxA from Pseudoalteromonas luteoviolacea [[Category: Unreleased Structur...

New page

'''Unreleased structure'''

The entry 6byw is ON HOLD

Authors: Yukl, E.T., Avalos, D.

Description: Structure of GoxA from Pseudoalteromonas luteoviolacea
[[Category: Unreleased Structures]]
[[Category: Yukl, E.T]]
[[Category: Avalos, D]]