3zg4 - Revision history

OCA at 07:20, 29 March 2023

2023-03-29T07:20:03Z

←Older revision		Revision as of 07:20, 29 March 2023
Line 1:		Line 1:

	==NMR structure of the catalytic domain from E. faecium L,D- transpeptidase==		==NMR structure of the catalytic domain from E. faecium L,D- transpeptidase==
-	<StructureSection load='3zg4' size='340' side='right'caption='[[3zg4~~]], [[NMR_Ensembles_of_Models \| 20 NMR models~~]]' scene=''>	+	<StructureSection load='3zg4' size='340' side='right'caption='[[3zg4]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3zg4]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_19434 Atcc 19434~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ZG4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3ZG4 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3zg4]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Enterococcus_faecium Enterococcus faecium]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ZG4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3ZG4 FirstGlance]. <br>
-	</td></tr>~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3zgp\|3zgp]]</div></td></tr>~~	+	</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=3zg4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3zg4 OCA], [https://pdbe.org/3zg4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3zg4 RCSB], [https://www.ebi.ac.uk/pdbsum/3zg4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3zg4 ProSAT]</span></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Peptidyltransferase Peptidyltransferase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.2.12 2.3.2.12] </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=3zg4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3zg4 OCA], [https://pdbe.org/3zg4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3zg4 RCSB], [https://www.ebi.ac.uk/pdbsum/3zg4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3zg4 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q3Y185_ENTFD Q3Y185_ENTFD]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Atcc 19434~~]]	+	[[Category: Enterococcus faecium]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Peptidyltransferase]]~~	+	[[Category: Arthur M]]
-	[[Category: Arthur, M]]	+	[[Category: Bougault C]]
-	[[Category: Bougault, C]]	+	[[Category: Dubee V]]
-	[[Category: Dubee, V]]	+	[[Category: Hugonnet JE]]
-	[[Category: Hugonnet~~, J E~~]]	+	[[Category: Lecoq L]]
-	[[Category: Lecoq, L]]	+	[[Category: Simorre JP]]
-	[[Category: Simorre~~, J P~~]]	+	[[Category: Triboulet S]]
-	[[Category: Triboulet, S]]	+
-	~~[[Category: Antibiotic resistance]]~~	+
-	~~[[Category: Peptidoglycan biosynthesis]]~~	+
-	~~[[Category: Transferase]]~~	+
-	~~[[Category: Transpeptidation~~]]	+

OCA at 07:35, 25 June 2021

2021-06-25T07:35:05Z

←Older revision		Revision as of 07:35, 25 June 2021
Line 1:		Line 1:

	==NMR structure of the catalytic domain from E. faecium L,D- transpeptidase==		==NMR structure of the catalytic domain from E. faecium L,D- transpeptidase==
-	<StructureSection load='3zg4' size='340' side='right' caption='[[3zg4]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>	+	<StructureSection load='3zg4' size='340' side='right'caption='[[3zg4]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3zg4]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_19434 Atcc 19434]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ZG4 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3ZG4 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3zg4]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_19434 Atcc 19434]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ZG4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3ZG4 FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3zgp\|3zgp]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3zgp\|3zgp]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Peptidyltransferase Peptidyltransferase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.2.12 2.3.2.12] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Peptidyltransferase Peptidyltransferase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.2.12 2.3.2.12] </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=3zg4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3zg4 OCA], [~~http~~://pdbe.org/3zg4 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3zg4 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3zg4 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3zg4 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=3zg4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3zg4 OCA], [https://pdbe.org/3zg4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3zg4 RCSB], [https://www.ebi.ac.uk/pdbsum/3zg4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3zg4 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 22:		Line 22:
	</StructureSection>		</StructureSection>
	[[Category: Atcc 19434]]		[[Category: Atcc 19434]]
		+	[[Category: Large Structures]]
	[[Category: Peptidyltransferase]]		[[Category: Peptidyltransferase]]
	[[Category: Arthur, M]]		[[Category: Arthur, M]]

OCA at 20:36, 11 August 2016

2016-08-11T20:36:33Z

←Older revision		Revision as of 20:36, 11 August 2016
Line 1:		Line 1:
		+
	==NMR structure of the catalytic domain from E. faecium L,D- transpeptidase==		==NMR structure of the catalytic domain from E. faecium L,D- transpeptidase==
	<StructureSection load='3zg4' size='340' side='right' caption='[[3zg4]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='3zg4' size='340' side='right' caption='[[3zg4]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3zg4]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Enterococcus_faecium Enterococcus faecium~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ZG4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ZG4 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3zg4]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_19434 Atcc 19434]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ZG4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ZG4 FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3zgp\|3zgp]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3zgp\|3zgp]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Peptidyltransferase Peptidyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.2.12 2.3.2.12] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Peptidyltransferase Peptidyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.2.12 2.3.2.12] </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=3zg4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3zg4 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3zg4 RCSB], [http://www.ebi.ac.uk/pdbsum/3zg4 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=3zg4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3zg4 OCA], [http://pdbe.org/3zg4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3zg4 RCSB], [http://www.ebi.ac.uk/pdbsum/3zg4 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3zg4 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 15:		Line 16:
	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 3zg4" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Enterococcus faecium~~]]	+	[[Category: Atcc 19434]]
	[[Category: Peptidyltransferase]]		[[Category: Peptidyltransferase]]
	[[Category: Arthur, M]]		[[Category: Arthur, M]]

OCA at 10:21, 4 January 2015

2015-01-04T10:21:58Z

←Older revision		Revision as of 10:21, 4 January 2015
Line 1:		Line 1:
-	~~{{STRUCTURE_3zg4\| PDB=3zg4 \| SCENE= }}~~	+	==NMR structure of the catalytic domain from E. faecium L,D- transpeptidase==
-	===NMR structure of the catalytic domain from E. faecium L,D- transpeptidase===	+	<StructureSection load='3zg4' size='340' side='right' caption='[[3zg4]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
-	~~{{ABSTRACT_PUBMED_23574509}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3zg4]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterococcus_faecium Enterococcus faecium]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ZG4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ZG4 FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3zgp\|3zgp]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Peptidyltransferase Peptidyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.2.12 2.3.2.12] </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=3zg4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3zg4 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3zg4 RCSB], [http://www.ebi.ac.uk/pdbsum/3zg4 PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The maintenance of bacterial cell shape and integrity is largely attributed to peptidoglycan, a biopolymer highly cross-linked through d,d-transpeptidation. Peptidoglycan cross-linking is catalyzed by penicillin-binding proteins (PBPs) that are the essential target of beta-lactam antibiotics. PBPs are functionally replaced by l,d-transpeptidases (Ldts) in ampicillin-resistant mutants of Enterococcus faecium and in wild-type Mycobacterium tuberculosis. Ldts are inhibited in vivo by a single class of beta-lactams, the carbapenems, which act as a suicide substrate. We present here the first structure of a carbapenem-acylated l,d-transpeptidase, E. faecium Ldtfm acylated by ertapenem, which revealed key contacts between the carbapenem core and residues of the catalytic cavity of the enzyme. Significant reorganization of the antibiotic conformation occurs upon enzyme acylation. These results, together with the analysis of protein-to-carbapenem proton transfers, provide new insights into the mechanism of Ldt acylation by carbapenems.

-	~~==About this~~ Structure==	+	Structure of Enterococcus faeciuml,d-Transpeptidase Acylated by Ertapenem Provides Insight into the Inactivation Mechanism.,Lecoq L, Dubee V, Triboulet S, Bougault C, Hugonnet JE, Arthur M, Simorre JP ACS Chem Biol. 2013 Apr 12. PMID:23574509<ref>PMID:23574509</ref>
-	~~[[3zg4]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Enterococcus_faecium Enterococcus faecium]~~. ~~Full experimental information is available from [http~~:/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3ZG4 OCA].~~	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group="xtra">PMID:023574509</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Enterococcus faecium]]		[[Category: Enterococcus faecium]]
	[[Category: Peptidyltransferase]]		[[Category: Peptidyltransferase]]
-	[[Category: Arthur, M.]]	+	[[Category: Arthur, M]]
-	[[Category: Bougault, C.]]	+	[[Category: Bougault, C]]
-	[[Category: Dubee, V.]]	+	[[Category: Dubee, V]]
-	[[Category: Hugonnet, J E.]]	+	[[Category: Hugonnet, J E]]
-	[[Category: Lecoq, L.]]	+	[[Category: Lecoq, L]]
-	[[Category: Simorre, J P.]]	+	[[Category: Simorre, J P]]
-	[[Category: Triboulet, S.]]	+	[[Category: Triboulet, S]]
	[[Category: Antibiotic resistance]]		[[Category: Antibiotic resistance]]
	[[Category: Peptidoglycan biosynthesis]]		[[Category: Peptidoglycan biosynthesis]]
	[[Category: Transferase]]		[[Category: Transferase]]
	[[Category: Transpeptidation]]		[[Category: Transpeptidation]]

OCA at 05:17, 28 August 2013

2013-08-28T05:17:04Z

←Older revision		Revision as of 05:17, 28 August 2013
Line 5:		Line 5:
	==About this Structure==		==About this Structure==
	[[3zg4]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterococcus_faecium Enterococcus faecium]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ZG4 OCA].		[[3zg4]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterococcus_faecium Enterococcus faecium]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ZG4 OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:023574509</ref><references group="xtra"/><references/>
	[[Category: Enterococcus faecium]]		[[Category: Enterococcus faecium]]
	[[Category: Peptidyltransferase]]		[[Category: Peptidyltransferase]]

OCA at 11:22, 24 April 2013

2013-04-24T11:22:09Z

←Older revision		Revision as of 11:22, 24 April 2013
Line 1:		Line 1:
-	~~'''Unreleased~~ structure~~'''~~	+	{{STRUCTURE_3zg4\| PDB=3zg4 \| SCENE= }}
		+	===NMR structure of the catalytic domain from E. faecium L,D- transpeptidase===
		+	{{ABSTRACT_PUBMED_23574509}}

-	~~The entry~~ 3zg4 is ~~ON HOLD until Paper Publication~~	+	==About this Structure==
-		+	[[3zg4]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Enterococcus_faecium Enterococcus faecium]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3ZG4 OCA].
-	~~Authors~~: ~~Lecoq, L~~.~~, Dubee, V~~.~~, Triboulet, S~~., Bougault, C., Hugonnet, J.E., ~~Arthur, M~~., Simorre, J.P.	+	[[Category: Enterococcus faecium]]
-		+	[[Category: Peptidyltransferase]]
-	~~Description~~: ~~NMR structure of the catalytic domain from E. faecium L~~,~~D-transpeptidase~~	+	[[Category: Arthur, M.]]
		+	[[Category: Bougault, C.]]
		+	[[Category: Dubee, V.]]
		+	[[Category: Hugonnet, J E.]]
		+	[[Category: Lecoq, L.]]
		+	[[Category: Simorre, J P.]]
		+	[[Category: Triboulet, S.]]
		+	[[Category: Antibiotic resistance]]
		+	[[Category: Peptidoglycan biosynthesis]]
		+	[[Category: Transferase]]
		+	[[Category: Transpeptidation]]

OCA: Protected "3zg4" [edit=sysop:move=sysop]

2013-01-02T08:39:07Z

Protected "3zg4" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:39, 2 January 2013

OCA: New page: '''Unreleased structure''' The entry 3zg4 is ON HOLD until Paper Publication Authors: Lecoq, L., Dubee, V., Triboulet, S., Bougault, C., Hugonnet, J.E., Arthur, M., Simorre, J.P. Descr...

2013-01-02T08:39:06Z

New page: '''Unreleased structure''' The entry 3zg4 is ON HOLD until Paper Publication Authors: Lecoq, L., Dubee, V., Triboulet, S., Bougault, C., Hugonnet, J.E., Arthur, M., Simorre, J.P. Descr...

New page

'''Unreleased structure'''

The entry 3zg4 is ON HOLD until Paper Publication

Authors: Lecoq, L., Dubee, V., Triboulet, S., Bougault, C., Hugonnet, J.E., Arthur, M., Simorre, J.P.

Description: NMR structure of the catalytic domain from E. faecium L,D-transpeptidase