6sla - Revision history

OCA at 12:43, 24 January 2024

OCA — Wed, 24 Jan 2024 12:43:31 GMT

←Older revision		Revision as of 12:43, 24 January 2024
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	<StructureSection load='6sla' size='340' side='right'caption='[[6sla]], [[Resolution\|resolution]] 2.55Å' scene=''>		<StructureSection load='6sla' size='340' side='right'caption='[[6sla]], [[Resolution\|resolution]] 2.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6sla]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Thermus_thermophilus_jl~~-18 Thermus thermophilus jl-18]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6SLA OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6SLA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6sla]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_JL-18 Thermus thermophilus JL-18]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6SLA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6SLA FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=LHQ:~{S}-[2-[3-[[(2~{R})-4-[[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-3,3-dimethyl-2-oxidanyl-butanoyl]amino]propanoylamino]ethyl]+2-(2,5-dihydrooxepin-7-yl)ethanethioate'>LHQ</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]] 2.55Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6sl9\|6sl9]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=LHQ:~{S}-[2-[3-[[(2~{R})-4-[[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-3,3-dimethyl-2-oxidanyl-butanoyl]amino]propanoylamino]ethyl]+2-(2,5-dihydrooxepin-7-yl)ethanethioate'>LHQ</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TtJL18_0099 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=798128 Thermus thermophilus JL-18])</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=6sla FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6sla OCA], [https://pdbe.org/6sla PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6sla RCSB], [https://www.ebi.ac.uk/pdbsum/6sla PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6sla 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=6sla FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6sla OCA], [~~http~~://pdbe.org/6sla PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6sla RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6sla PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6sla ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/H9ZNW0_THETH H9ZNW0_THETH]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 6sla" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6sla" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Enoyl-CoA hydratase 3D structures\|Enoyl-CoA hydratase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Thermus thermophilus jl-18]]	+	[[Category: Thermus thermophilus JL-18]]
-	[[Category: Saleem-Batcha, R]]	+	[[Category: Saleem-Batcha R]]
-	[[Category: Spieker, M]]	+	[[Category: Spieker M]]
-	[[Category: Teufel, R]]	+	[[Category: Teufel R]]
-	~~[[Category: Crotonase]]~~	+
-	~~[[Category: Isomerase]]~~	+
-	~~[[Category: Phenylacetic acid catabolism]]~~	+
-	~~[[Category: Tropodithietic acid~~]]	+

OCA at 12:16, 1 January 2020

OCA — Wed, 01 Jan 2020 12:16:12 GMT

←Older revision		Revision as of 12:16, 1 January 2020
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	<StructureSection load='6sla' size='340' side='right'caption='[[6sla]], [[Resolution\|resolution]] 2.55Å' scene=''>		<StructureSection load='6sla' size='340' side='right'caption='[[6sla]], [[Resolution\|resolution]] 2.55Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6sla]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6SLA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6SLA FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6sla]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus_jl-18 Thermus thermophilus jl-18]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6SLA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6SLA FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=LHQ:~{S}-[2-[3-[[(2~{R})-4-[[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-3,3-dimethyl-2-oxidanyl-butanoyl]amino]propanoylamino]ethyl]+2-(2,5-dihydrooxepin-7-yl)ethanethioate'>LHQ</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=LHQ:~{S}-[2-[3-[[(2~{R})-4-[[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-3,3-dimethyl-2-oxidanyl-butanoyl]amino]propanoylamino]ethyl]+2-(2,5-dihydrooxepin-7-yl)ethanethioate'>LHQ</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6sl9\|6sl9]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6sl9\|6sl9]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TtJL18_0099 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=798128 Thermus thermophilus JL-18])</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=6sla FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6sla OCA], [http://pdbe.org/6sla PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6sla RCSB], [http://www.ebi.ac.uk/pdbsum/6sla PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6sla 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=6sla FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6sla OCA], [http://pdbe.org/6sla PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6sla RCSB], [http://www.ebi.ac.uk/pdbsum/6sla PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6sla ProSAT]</span></td></tr>
	</table>		</table>
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
		+	[[Category: Thermus thermophilus jl-18]]
	[[Category: Saleem-Batcha, R]]		[[Category: Saleem-Batcha, R]]
	[[Category: Spieker, M]]		[[Category: Spieker, M]]

OCA at 15:22, 11 December 2019

OCA — Wed, 11 Dec 2019 15:22:59 GMT

←Older revision		Revision as of 15:22, 11 December 2019
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-	'''Unreleased structure'''

-	~~The entry~~ 6sla is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of isomerase PaaG mutant - D136N with Oxepin-CoA==
		+	<StructureSection load='6sla' size='340' side='right'caption='[[6sla]], [[Resolution\|resolution]] 2.55Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6sla]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6SLA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6SLA FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=LHQ:~{S}-[2-[3-[[(2~{R})-4-[[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-3,3-dimethyl-2-oxidanyl-butanoyl]amino]propanoylamino]ethyl]+2-(2,5-dihydrooxepin-7-yl)ethanethioate'>LHQ</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6sl9\|6sl9]]</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=6sla FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6sla OCA], [http://pdbe.org/6sla PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6sla RCSB], [http://www.ebi.ac.uk/pdbsum/6sla PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6sla ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Numerous aromatic compounds are aerobically degraded in bacteria via the central intermediate phenylacetic acid (paa). In one of the key steps of this widespread catabolic pathway, 1,2-epoxyphenylacetyl-CoA is converted by PaaG into the heterocyclic oxepin-CoA. PaaG thereby elegantly generates an alpha,beta-unsaturated CoA ester that is predisposed to undergo beta-oxidation subsequent to hydrolytic ring-cleavage. Moreover, oxepin-CoA serves as a precursor for secondary metabolites (e.g., tropodithietic acid) that act as antibiotics and quorum-sensing signals. Here we verify that PaaG adopts a second role in aromatic catabolism by converting cis-3,4-didehydroadipoyl-CoA into trans-2,3-didehydroadipoyl-CoA and corroborate a Delta(3),Delta(2)-enoyl-CoA isomerase-like proton shuttling mechanism for both distinct substrates. Biochemical and structural investigations of PaaG reveal active site adaptations to the structurally different substrates and provide detailed insight into catalysis and control of stereospecificity. This work elucidates the mechanism of action of unusual isomerase PaaG and sheds new light on the ubiquitous enoyl-CoA isomerases of the crotonase superfamily.

-	~~Authors~~:	+	Structural and Mechanistic Basis of an Oxepin-CoA Forming Isomerase in Bacterial Primary and Secondary Metabolism.,Spieker M, Saleem-Batcha R, Teufel R ACS Chem Biol. 2019 Nov 18. doi: 10.1021/acschembio.9b00742. PMID:31689071<ref>PMID:31689071</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 6sla" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Saleem-Batcha, R]]
		+	[[Category: Spieker, M]]
		+	[[Category: Teufel, R]]
		+	[[Category: Crotonase]]
		+	[[Category: Isomerase]]
		+	[[Category: Phenylacetic acid catabolism]]
		+	[[Category: Tropodithietic acid]]

OCA at 07:23, 2 October 2019

OCA — Wed, 02 Oct 2019 07:23:28 GMT

←Older revision		Revision as of 07:23, 2 October 2019
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	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors:		Authors:

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

OCA — Wed, 28 Aug 2019 13:53:22 GMT

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

←Older revision

Revision as of 13:53, 28 August 2019

OCA: New page: '''Unreleased structure''' The entry 6sla is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 28 Aug 2019 13:53:20 GMT

New page: '''Unreleased structure''' The entry 6sla is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6sla is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]