5j9r - Revision history

OCA at 10:56, 6 September 2023

OCA — Wed, 06 Sep 2023 10:56:07 GMT

←Older revision		Revision as of 10:56, 6 September 2023
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	==Structure of Penicillin V acylase from Agrobacterium tumefaciens==		==Structure of Penicillin V acylase from Agrobacterium tumefaciens==
-	<StructureSection load='5j9r' size='340' side='right' caption='[[5j9r]], [[Resolution\|resolution]] 2.80Å' scene=''>	+	<StructureSection load='5j9r' size='340' side='right'caption='[[5j9r]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5j9r]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"achromobacter_radiobacter"_(beijerinck_and_van_delden_1902)_bergey_et_al._1934 "achromobacter radiobacter" (beijerinck and van delden 1902) bergey et al. 1934~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5J9R OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5J9R FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5j9r]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Agrobacterium_tumefaciens Agrobacterium tumefaciens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5J9R OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5J9R FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>SY94_4548 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~358~~ "~~Achromobacter radiobacter~~" ~~(Beijerinck and van Delden 1902) Bergey et al. 1934])</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]] 2.8Å</td></tr>
-	~~<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'~~>[~~http://en.wikipedia.org/wiki/Choloylglycine_hydrolase Choloylglycine hydrolase~~]~~, with EC number [http://www~~.~~brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.24 3.5.1.24] </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=5j9r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5j9r OCA], [https://pdbe.org/5j9r PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5j9r RCSB], [https://www.ebi.ac.uk/pdbsum/5j9r PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5j9r 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=5j9r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5j9r OCA], [~~http~~://pdbe.org/5j9r PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5j9r RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5j9r PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5j9r ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A083ZJN8_RHIRD A0A083ZJN8_RHIRD]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Choloylglycine hydrolase~~]]	+	[[Category: Agrobacterium tumefaciens]]
-	[[Category: ~~Avinash, V S~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Pundle, A V~~]]	+	[[Category: Avinash VS]]
-	[[Category: ~~Ramasamy, S~~]]	+	[[Category: Pundle AV]]
-	[[Category: ~~Cholylglcine hydrolase]]~~	+	[[Category: Ramasamy S]]
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Ntn hydrolase]]~~	+
-	~~[[Category: Penicillin v]]~~	+
-	~~[[Category: Quorum quenching~~]]	+

OCA at 08:34, 16 November 2017

OCA — Thu, 16 Nov 2017 08:34:57 GMT

←Older revision		Revision as of 08:34, 16 November 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5j9r is ~~ON HOLD~~	+	==Structure of Penicillin V acylase from Agrobacterium tumefaciens==
		+	<StructureSection load='5j9r' size='340' side='right' caption='[[5j9r]], [[Resolution\|resolution]] 2.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5j9r]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"achromobacter_radiobacter"_(beijerinck_and_van_delden_1902)_bergey_et_al._1934 "achromobacter radiobacter" (beijerinck and van delden 1902) bergey et al. 1934]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5J9R OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5J9R FirstGlance]. <br>
		+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SY94_4548 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=358 "Achromobacter radiobacter" (Beijerinck and van Delden 1902) Bergey et al. 1934])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Choloylglycine_hydrolase Choloylglycine hydrolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.24 3.5.1.24] </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=5j9r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5j9r OCA], [http://pdbe.org/5j9r PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5j9r RCSB], [http://www.ebi.ac.uk/pdbsum/5j9r PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5j9r ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Virulence pathways in gram-negative pathogenic bacteria are regulated by quorum sensing mechanisms, through the production and sensing of N-acylhomoserine lactone (AHL) signal molecules. Enzymatic degradation of AHLs leading to attenuation of virulence (quorum quenching) could pave the way for the development of new antibacterials. Penicillin V acylases (PVAs) belong to the Ntn hydrolase superfamily, together with AHL acylases. PVAs are exploited widely in the pharmaceutical industry, but their role in the natural physiology of their native microbes is not clearly understood. This report details the characterization of AHL degradation activity by homotetrameric PVAs from two gram-negative plant pathogenic bacteria, Pectobacterium atrosepticum (PaPVA) and Agrobacterium tumefaciens (AtPVA). Both the PVAs exhibited substrate specificity for degrading long-chain AHLs. Exogenous addition of these enzymes into Pseudomonas aeruginosa greatly diminished the production of elastase and pyocyanin and biofilm formation and increased the survival rate in an insect model of acute infection. Subtle structural differences in the PVA active site that regulate specificity for acyl chain length have been characterized, which could reflect the evolution of AHL-degrading acylases in relation to the environment of the bacteria that produce them and also provide strategies for enzyme engineering. The potential for using these enzymes as therapeutic agents in clinical applications and a few ideas about their possible significance in microbial physiology have also been discussed.

-	~~Authors: Ramasamy, S~~., ~~Avinash~~, V.S., ~~Pundle~~, A.V.	+	Penicillin V acylases from gram-negative bacteria degrade N-acylhomoserine lactones and attenuate virulence in Pseudomonas aeruginosa.,Sunder AV, Utari PD, Ramasamy S, van Merkerk R, Quax W, Pundle A Appl Microbiol Biotechnol. 2017 Mar;101(6):2383-2395. doi:, 10.1007/s00253-016-8031-5. Epub 2016 Dec 8. PMID:27933456<ref>PMID:27933456</ref>

-	~~Description: Structure~~ of ~~Penicillin V acylase from Agrobacterium tumefaciens~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: Avinash, V.S]]	+	<div class="pdbe-citations 5j9r" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Choloylglycine hydrolase]]
		+	[[Category: Avinash, V S]]
		+	[[Category: Pundle, A V]]
	[[Category: Ramasamy, S]]		[[Category: Ramasamy, S]]
-	[[Category: ~~Pundle, A.V~~]]	+	[[Category: Cholylglcine hydrolase]]
		+	[[Category: Hydrolase]]
		+	[[Category: Ntn hydrolase]]
		+	[[Category: Penicillin v]]
		+	[[Category: Quorum quenching]]

OCA at 09:49, 9 March 2017

OCA — Thu, 09 Mar 2017 09:49:53 GMT

←Older revision		Revision as of 09:49, 9 March 2017
Line 7:		Line 7:
	Description: Structure of Penicillin V acylase from Agrobacterium tumefaciens		Description: Structure of Penicillin V acylase from Agrobacterium tumefaciens
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Pundle, A.V]]
	[[Category: Avinash, V.S]]		[[Category: Avinash, V.S]]
	[[Category: Ramasamy, S]]		[[Category: Ramasamy, S]]
		+	[[Category: Pundle, A.V]]

OCA: Protected "5j9r" [edit=sysop:move=sysop]

OCA — Wed, 11 May 2016 01:43:55 GMT

Protected "5j9r" [edit=sysop:move=sysop]

←Older revision

Revision as of 01:43, 11 May 2016

OCA: New page: '''Unreleased structure''' The entry 5j9r is ON HOLD Authors: Ramasamy, S., Avinash, V.S., Pundle, A.V. Description: Structure of Penicillin V acylase from Agrobacterium tumefaciens [[...

OCA — Wed, 11 May 2016 01:43:53 GMT

New page: '''Unreleased structure''' The entry 5j9r is ON HOLD Authors: Ramasamy, S., Avinash, V.S., Pundle, A.V. Description: Structure of Penicillin V acylase from Agrobacterium tumefaciens [[...

New page

'''Unreleased structure'''

The entry 5j9r is ON HOLD

Authors: Ramasamy, S., Avinash, V.S., Pundle, A.V.

Description: Structure of Penicillin V acylase from Agrobacterium tumefaciens
[[Category: Unreleased Structures]]
[[Category: Pundle, A.V]]
[[Category: Avinash, V.S]]
[[Category: Ramasamy, S]]