2wyc - Revision history

OCA at 10:42, 13 April 2022

OCA — Wed, 13 Apr 2022 10:42:31 GMT

←Older revision		Revision as of 10:42, 13 April 2022
Line 3:		Line 3:
	<StructureSection load='2wyc' size='340' side='right'caption='[[2wyc]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='2wyc' size='340' side='right'caption='[[2wyc]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2wyc]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Pseae Pseae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WYC OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2WYC FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2wyc]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseae Pseae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WYC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2WYC FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=3LA:3-OXODODECANOIC+ACID'>3LA</scene>, <scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=3LA:3-OXODODECANOIC+ACID'>3LA</scene>, <scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2wyb\|2wyb]], [[2wye\|2wye]], [[2wyd\|2wyd]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2wyb\|2wyb]], [[2wye\|2wye]], [[2wyd\|2wyd]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Acyl-homoserine-lactone_acylase Acyl-homoserine-lactone acylase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.97 3.5.1.97] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Acyl-homoserine-lactone_acylase Acyl-homoserine-lactone acylase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.97 3.5.1.97] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=2wyc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2wyc OCA], [~~http~~://pdbe.org/2wyc PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2wyc RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2wyc PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2wyc ProSAT]</span></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=2wyc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2wyc OCA], [https://pdbe.org/2wyc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2wyc RCSB], [https://www.ebi.ac.uk/pdbsum/2wyc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2wyc ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/PVDQ_PSEAE PVDQ_PSEAE]] Catalyzes the deacylation of acyl-homoserine lactone (AHL or acyl-HSL), releasing homoserine lactone (HSL) and the corresponding fatty acid. Possesses a specificity for the degradation of long-chain acyl-HSLs (side chains of 11 to 14 carbons in length). Degrades 3-oxo-C12-HSL, one of the two main AHL signal molecules of P.aeruginosa, and thereby functions as a quorum quencher, inhibiting the las quorum-sensing system. Therefore, may enable P.aeruginosa to modulate its own quorum-sensing-dependent pathogenic potential. Also appears to be required for pyoverdin biosynthesis.<ref>PMID:16495538</ref> <ref>PMID:14532048</ref> <ref>PMID:12686626</ref>	+	[[https://www.uniprot.org/uniprot/PVDQ_PSEAE PVDQ_PSEAE]] Catalyzes the deacylation of acyl-homoserine lactone (AHL or acyl-HSL), releasing homoserine lactone (HSL) and the corresponding fatty acid. Possesses a specificity for the degradation of long-chain acyl-HSLs (side chains of 11 to 14 carbons in length). Degrades 3-oxo-C12-HSL, one of the two main AHL signal molecules of P.aeruginosa, and thereby functions as a quorum quencher, inhibiting the las quorum-sensing system. Therefore, may enable P.aeruginosa to modulate its own quorum-sensing-dependent pathogenic potential. Also appears to be required for pyoverdin biosynthesis.<ref>PMID:16495538</ref> <ref>PMID:14532048</ref> <ref>PMID:12686626</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 15:00, 8 July 2020

OCA — Wed, 08 Jul 2020 15:00:27 GMT

←Older revision		Revision as of 15:00, 8 July 2020
Line 1:		Line 1:

	==The quorum quenching N-acyl homoserine lactone acylase PvdQ in complex with 3-oxo-lauric acid==		==The quorum quenching N-acyl homoserine lactone acylase PvdQ in complex with 3-oxo-lauric acid==
-	<StructureSection load='2wyc' size='340' side='right' caption='[[2wyc]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='2wyc' size='340' side='right'caption='[[2wyc]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2wyc]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseae Pseae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WYC OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2WYC FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2wyc]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseae Pseae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WYC OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2WYC FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=3LA:3-OXODODECANOIC+ACID'>3LA</scene>, <scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=3LA:3-OXODODECANOIC+ACID'>3LA</scene>, <scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2wyb\|2wyb]], [[2wye\|2wye]], [[2wyd\|2wyd]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2wyb\|2wyb]], [[2wye\|2wye]], [[2wyd\|2wyd]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Acyl-homoserine-lactone_acylase Acyl-homoserine-lactone acylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.97 3.5.1.97] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Acyl-homoserine-lactone_acylase Acyl-homoserine-lactone acylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.97 3.5.1.97] </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=2wyc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2wyc OCA], [http://pdbe.org/2wyc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2wyc RCSB], [http://www.ebi.ac.uk/pdbsum/2wyc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2wyc ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=2wyc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2wyc OCA], [http://pdbe.org/2wyc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2wyc RCSB], [http://www.ebi.ac.uk/pdbsum/2wyc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2wyc ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 35:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Acyl-homoserine-lactone acylase]]		[[Category: Acyl-homoserine-lactone acylase]]
		+	[[Category: Large Structures]]
	[[Category: Pseae]]		[[Category: Pseae]]
	[[Category: Bokhove, M]]		[[Category: Bokhove, M]]

OCA at 09:03, 3 October 2018

OCA — Wed, 03 Oct 2018 09:03:02 GMT

←Older revision		Revision as of 09:03, 3 October 2018
Line 1:		Line 1:

-	==~~THE QUORUM QUENCHING~~ N-~~ACYL HOMOSERINE LACTONE ACYLASE PVDQ IN COMPLEX WITH~~ 3-~~OXO~~-~~LAURIC ACID~~==	+	==The quorum quenching N-acyl homoserine lactone acylase PvdQ in complex with 3-oxo-lauric acid==
	<StructureSection load='2wyc' size='340' side='right' caption='[[2wyc]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='2wyc' size='340' side='right' caption='[[2wyc]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
Line 15:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/wy/2wyc_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/wy/2wyc_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
Line 41:		Line 41:
	[[Category: Quax, W J]]		[[Category: Quax, W J]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
		+	[[Category: Periplasm]]
	[[Category: Zymogen]]		[[Category: Zymogen]]

OCA at 03:51, 5 August 2016

OCA — Fri, 05 Aug 2016 03:51:41 GMT

←Older revision		Revision as of 03:51, 5 August 2016
Line 1:		Line 1:
		+
	==THE QUORUM QUENCHING N-ACYL HOMOSERINE LACTONE ACYLASE PVDQ IN COMPLEX WITH 3-OXO-LAURIC ACID==		==THE QUORUM QUENCHING N-ACYL HOMOSERINE LACTONE ACYLASE PVDQ IN COMPLEX WITH 3-OXO-LAURIC ACID==
	<StructureSection load='2wyc' size='340' side='right' caption='[[2wyc]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='2wyc' size='340' side='right' caption='[[2wyc]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2wyc]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Pseudomonas_aeruginosa Pseudomonas aeruginosa~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WYC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2WYC FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2wyc]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseae Pseae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WYC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2WYC FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=3LA:3-OXODODECANOIC+ACID'>3LA</scene>, <scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=3LA:3-OXODODECANOIC+ACID'>3LA</scene>, <scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2wyb\|2wyb]], [[2wye\|2wye]], [[2wyd\|2wyd]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2wyb\|2wyb]], [[2wye\|2wye]], [[2wyd\|2wyd]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Acyl-homoserine-lactone_acylase Acyl-homoserine-lactone acylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.97 3.5.1.97] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Acyl-homoserine-lactone_acylase Acyl-homoserine-lactone acylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.97 3.5.1.97] </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=2wyc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2wyc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2wyc RCSB], [http://www.ebi.ac.uk/pdbsum/2wyc PDBsum]</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=2wyc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2wyc OCA], [http://pdbe.org/2wyc PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2wyc RCSB], [http://www.ebi.ac.uk/pdbsum/2wyc PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2wyc ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2wyc ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 28:		Line 29:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 2wyc" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
Line 33:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Acyl-homoserine-lactone acylase]]		[[Category: Acyl-homoserine-lactone acylase]]
-	[[Category: ~~Pseudomonas aeruginosa~~]]	+	[[Category: Pseae]]
	[[Category: Bokhove, M]]		[[Category: Bokhove, M]]
	[[Category: Dijkstra, B W]]		[[Category: Dijkstra, B W]]

OCA at 15:37, 25 December 2014

OCA — Thu, 25 Dec 2014 15:37:27 GMT

←Older revision		Revision as of 15:37, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2wyc]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_aeruginosa Pseudomonas aeruginosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WYC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2WYC FirstGlance]. <br>		<table><tr><td colspan='2'>[[2wyc]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_aeruginosa Pseudomonas aeruginosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WYC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2WYC FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=3LA:3-OXODODECANOIC+ACID'>3LA</scene>, <scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=3LA:3-OXODODECANOIC+ACID'>3LA</scene>, <scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2wyb\|2wyb]], [[2wye\|2wye]], [[2wyd\|2wyd]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2wyb\|2wyb]], [[2wye\|2wye]], [[2wyd\|2wyd]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Acyl-homoserine-lactone_acylase Acyl-homoserine-lactone acylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.97 3.5.1.97] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Acyl-homoserine-lactone_acylase Acyl-homoserine-lactone acylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.97 3.5.1.97] </span></td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2wyc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2wyc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2wyc RCSB], [http://www.ebi.ac.uk/pdbsum/2wyc PDBsum]</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=2wyc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2wyc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2wyc RCSB], [http://www.ebi.ac.uk/pdbsum/2wyc PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PVDQ_PSEAE PVDQ_PSEAE]] Catalyzes the deacylation of acyl-homoserine lactone (AHL or acyl-HSL), releasing homoserine lactone (HSL) and the corresponding fatty acid. Possesses a specificity for the degradation of long-chain acyl-HSLs (side chains of 11 to 14 carbons in length). Degrades 3-oxo-C12-HSL, one of the two main AHL signal molecules of P.aeruginosa, and thereby functions as a quorum quencher, inhibiting the las quorum-sensing system. Therefore, may enable P.aeruginosa to modulate its own quorum-sensing-dependent pathogenic potential. Also appears to be required for pyoverdin biosynthesis.<ref>PMID:16495538</ref> <ref>PMID:14532048</ref> <ref>PMID:12686626</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 34:
	[[Category: Acyl-homoserine-lactone acylase]]		[[Category: Acyl-homoserine-lactone acylase]]
	[[Category: Pseudomonas aeruginosa]]		[[Category: Pseudomonas aeruginosa]]
-	[[Category: Bokhove, M.]]	+	[[Category: Bokhove, M]]
-	[[Category: Dijkstra, B W.]]	+	[[Category: Dijkstra, B W]]
-	[[Category: Jimenez, P Nadal.]]	+	[[Category: Jimenez, P Nadal]]
-	[[Category: Quax, W J.]]	+	[[Category: Quax, W J]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Zymogen]]		[[Category: Zymogen]]

OCA at 01:46, 1 October 2014

OCA — Wed, 01 Oct 2014 01:46:53 GMT

←Older revision		Revision as of 01:46, 1 October 2014
Line 1:		Line 1:
-	[[~~Image:~~2wyc.~~png~~\|~~left~~\|200px]]	+	==THE QUORUM QUENCHING N-ACYL HOMOSERINE LACTONE ACYLASE PVDQ IN COMPLEX WITH 3-OXO-LAURIC ACID==
		+	<StructureSection load='2wyc' size='340' side='right' caption='[[2wyc]], [[Resolution\|resolution]] 1.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2wyc]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_aeruginosa Pseudomonas aeruginosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WYC OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2WYC FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=3LA:3-OXODODECANOIC+ACID'>3LA</scene>, <scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2wyb\|2wyb]], [[2wye\|2wye]], [[2wyd\|2wyd]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Acyl-homoserine-lactone_acylase Acyl-homoserine-lactone acylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.97 3.5.1.97] </span></td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2wyc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2wyc OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2wyc RCSB], [http://www.ebi.ac.uk/pdbsum/2wyc PDBsum]</span></td></tr>
		+	<table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/wy/2wyc_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	In many Gram-negative pathogens, their virulent behavior is regulated by quorum sensing, in which diffusible signals such as N-acyl homoserine lactones (AHLs) act as chemical messaging compounds. Enzymatic degradation of these diffusible signals by, e.g., lactonases or amidohydrolases abolishes AHL regulated virulence, a process known as quorum quenching. Here we report the first crystal structure of an AHL amidohydrolase, the AHL acylase PvdQ from Pseudomonas aeruginosa. PvdQ has a typical alpha/beta heterodimeric Ntn-hydrolase fold, similar to penicillin G acylase and cephalosporin acylase. However, it has a distinct, unusually large, hydrophobic binding pocket, ideally suited to recognize C12 fatty acid-like chains of AHLs. Binding of a C12 fatty acid or a 3-oxo-C12 fatty acid induces subtle conformational changes to accommodate the aliphatic chain. Furthermore, the structure of a covalent ester intermediate identifies Serbeta1 as the nucleophile and Asnbeta269 and Valbeta70 as the oxyanion hole residues in the AHL degradation process. Our structures show the versatility of the Ntn-hydrolase scaffold and can serve as a structural paradigm for Ntn-hydrolases with similar substrate preference. Finally, the quorum-quenching capabilities of PvdQ may be utilized to suppress the quorum-sensing machinery of pathogens.

-	~~{{STRUCTURE_2wyc\| PDB=2wyc \| SCENE= }}~~	+	The quorum-quenching N-acyl homoserine lactone acylase PvdQ is an Ntn-hydrolase with an unusual substrate-binding pocket.,Bokhove M, Jimenez PN, Quax WJ, Dijkstra BW Proc Natl Acad Sci U S A. 2010 Jan 12;107(2):686-91. Epub 2009 Dec 22. PMID:20080736<ref>PMID:20080736</ref>

-	~~===THE QUORUM QUENCHING N-ACYL HOMOSERINE LACTONE ACYLASE PVDQ IN COMPLEX WITH 3-OXO-LAURIC ACID===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_20080736}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2wyc]] is~~ a ~~2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Pseudomonas_aeruginosa Pseudomonas aeruginosa]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2WYC OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:020080736<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Acyl-homoserine-lactone acylase]]		[[Category: Acyl-homoserine-lactone acylase]]
	[[Category: Pseudomonas aeruginosa]]		[[Category: Pseudomonas aeruginosa]]

OCA: Protected "2wyc" [edit=sysop:move=sysop]

OCA — Mon, 07 Jan 2013 18:26:37 GMT

Protected "2wyc" [edit=sysop:move=sysop]

←Older revision

Revision as of 18:26, 7 January 2013

OCA at 18:26, 7 January 2013

OCA — Mon, 07 Jan 2013 18:26:35 GMT

←Older revision		Revision as of 18:26, 7 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2wyc.png\|left\|200px]]		[[Image:2wyc.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2wyc", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_2wyc\| PDB=2wyc \| SCENE= }}		{{STRUCTURE_2wyc\| PDB=2wyc \| SCENE= }}

	===THE QUORUM QUENCHING N-ACYL HOMOSERINE LACTONE ACYLASE PVDQ IN COMPLEX WITH 3-OXO-LAURIC ACID===		===THE QUORUM QUENCHING N-ACYL HOMOSERINE LACTONE ACYLASE PVDQ IN COMPLEX WITH 3-OXO-LAURIC ACID===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_20080736}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 20080736 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_20080736}}		{{ABSTRACT_PUBMED_20080736}}

	==About this Structure==		==About this Structure==
-	~~2WYC~~ is a 2 ~~chains~~ structure with ~~sequences~~ from [http://en.wikipedia.org/wiki/Pseudomonas_aeruginosa Pseudomonas aeruginosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WYC OCA].	+	[[2wyc]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_aeruginosa Pseudomonas aeruginosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WYC OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~20080736~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:020080736</ref><references group="xtra"/>
	[[Category: Acyl-homoserine-lactone acylase]]		[[Category: Acyl-homoserine-lactone acylase]]
	[[Category: Pseudomonas aeruginosa]]		[[Category: Pseudomonas aeruginosa]]
Line 31:		Line 19:
	[[Category: Quax, W J.]]		[[Category: Quax, W J.]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
-	[[Category: Periplasm]]
	[[Category: Zymogen]]		[[Category: Zymogen]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 27 15:19:15 2010''

OCA at 13:19, 27 January 2010

OCA — Wed, 27 Jan 2010 13:19:15 GMT

←Older revision		Revision as of 13:19, 27 January 2010
Line 1:		Line 1:
	{{Seed}}		{{Seed}}
-	[[Image:2wyc.~~jpg~~\|left\|200px]]	+	[[Image:2wyc.png\|left\|200px]]

	<!--		<!--
Line 12:		Line 12:
	===THE QUORUM QUENCHING N-ACYL HOMOSERINE LACTONE ACYLASE PVDQ IN COMPLEX WITH 3-OXO-LAURIC ACID===		===THE QUORUM QUENCHING N-ACYL HOMOSERINE LACTONE ACYLASE PVDQ IN COMPLEX WITH 3-OXO-LAURIC ACID===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_20080736}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 20080736 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_20080736}}

	==About this Structure==		==About this Structure==
-	2WYC is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Pseudomonas_aeruginosa Pseudomonas aeruginosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WYC OCA].	+	2WYC is a 2 chains structure with sequences from [http://en.wikipedia.org/wiki/Pseudomonas_aeruginosa Pseudomonas aeruginosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WYC OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:20080736</ref><references group="xtra"/>
	[[Category: Acyl-homoserine-lactone acylase]]		[[Category: Acyl-homoserine-lactone acylase]]
	[[Category: Pseudomonas aeruginosa]]		[[Category: Pseudomonas aeruginosa]]
Line 25:		Line 34:
	[[Category: Zymogen]]		[[Category: Zymogen]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Dec 30 14~~:41:~~31 2009~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 27 15:19:15 2010''

OCA at 12:41, 30 December 2009

OCA — Wed, 30 Dec 2009 12:41:32 GMT

←Older revision		Revision as of 12:41, 30 December 2009
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:2wyc.jpg\|left\|200px]]

-	The ~~entry 2wyc~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_2wyc", creates the "Structure Box" on the page.
		+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
		+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
		+	or leave the SCENE parameter empty for the default display.
		+	-->
		+	{{STRUCTURE_2wyc\| PDB=2wyc \| SCENE= }}

-	~~Authors: Bokhove, M., Nadal Jimenez, P., Quax, W.J., Dijkstra, B.W.~~	+	===THE QUORUM QUENCHING N-ACYL HOMOSERINE LACTONE ACYLASE PVDQ IN COMPLEX WITH 3-OXO-LAURIC ACID===

-	Description: The quorum quenching N-acyl homoserine lactone acylase PvdQ in complex with 3-oxo-lauric acid

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Nov 25 09~~:07:56 2009''	+	==About this Structure==
		+	2WYC is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Pseudomonas_aeruginosa Pseudomonas aeruginosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WYC OCA].
		+	[[Category: Acyl-homoserine-lactone acylase]]
		+	[[Category: Pseudomonas aeruginosa]]
		+	[[Category: Bokhove, M.]]
		+	[[Category: Dijkstra, B W.]]
		+	[[Category: Jimenez, P Nadal.]]
		+	[[Category: Quax, W J.]]
		+	[[Category: Hydrolase]]
		+	[[Category: Periplasm]]
		+	[[Category: Zymogen]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Dec 30 14:41:31 2009''