4u49 - Revision history

OCA at 11:49, 1 February 2024

OCA — Thu, 01 Feb 2024 11:49:44 GMT

←Older revision		Revision as of 11:49, 1 February 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4u49]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Pectobacterium_carotovorum Pectobacterium carotovorum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U49 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4U49 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4u49]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Pectobacterium_carotovorum Pectobacterium carotovorum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U49 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4U49 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</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]] 1.8Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></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=4u49 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u49 OCA], [https://pdbe.org/4u49 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4u49 RCSB], [https://www.ebi.ac.uk/pdbsum/4u49 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4u49 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=4u49 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u49 OCA], [https://pdbe.org/4u49 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4u49 RCSB], [https://www.ebi.ac.uk/pdbsum/4u49 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4u49 ProSAT]</span></td></tr>
	</table>		</table>

OCA at 06:14, 26 October 2022

OCA — Wed, 26 Oct 2022 06:14:45 GMT

←Older revision		Revision as of 06:14, 26 October 2022
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	<StructureSection load='4u49' size='340' side='right'caption='[[4u49]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='4u49' size='340' side='right'caption='[[4u49]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4u49]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillus_carotovorus"_jones_1901 "bacillus carotovorus" jones 1901~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U49 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4U49 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4u49]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Pectobacterium_carotovorum Pectobacterium carotovorum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U49 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4U49 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pel-3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=554 "Bacillus carotovorus" Jones 1901])</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=4u49 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u49 OCA], [https://pdbe.org/4u49 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4u49 RCSB], [https://www.ebi.ac.uk/pdbsum/4u49 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4u49 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=4u49 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u49 OCA], [~~http~~://pdbe.org/4u49 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4u49 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4u49 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4u49 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q47465_PECCA Q47465_PECCA]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The type II secretion system (T2SS) transports fully folded proteins of various functions and structures through the outer membrane of Gram-negative bacteria. The molecular mechanisms of substrate recruitment by T2SS remain elusive but a prevailing view is that the secretion determinants could be of a structural nature. The phytopathogenic gamma-proteobacteria, Pectobacterium carotovorum and Dickeya dadantii, secrete similar sets of homologous plant cell wall degrading enzymes, mainly pectinases, by similar T2SSs, called Out. However, the orthologous pectate lyases Pel3 and PelI from these bacteria, which share 67% of sequence identity, are not secreted by the counterpart T2SS of each bacterium, indicating a fine-tuned control of protein recruitment. To identify the related secretion determinants, we first performed a structural characterization and comparison of Pel3 with PelI using X-ray crystallography. Then, to assess the biological relevance of the observed structural variations, we conducted a loop-substitution analysis of Pel3 combined with secretion assays. We showed that there is not one element with a definite secondary structure but several distant and structurally flexible loop regions that are essential for the secretion of Pel3 and that these loop regions act together as a composite secretion signal. Interestingly, depending on the crystal contacts, one of these key secretion determinants undergoes disorder-to-order transitions that could reflect its transient structuration upon the contact with the appropriate T2SS components. We hypothesize that such T2SS-induced structuration of some intrinsically disordered zones of secretion substrates could be part of the recruitment mechanism used by T2SS.
		+
		+	Structure-function analysis of pectate lyase Pel3 reveals essential facets of protein recognition by the bacterial type 2 secretion system.,Pineau C, Guschinskaya N, Goncalves IR, Ruaudel F, Robert X, Gouet P, Ballut L, Shevchik VE J Biol Chem. 2021 Jan-Jun;296:100305. doi: 10.1016/j.jbc.2021.100305. Epub 2021, Jan 16. PMID:33465378<ref>PMID:33465378</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 4u49" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Bacillus carotovorus jones 1901]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Ballut, L~~]]	+	[[Category: Pectobacterium carotovorum]]
-	[[Category: ~~Gouet, P~~]]	+	[[Category: Ballut L]]
-	[[Category: ~~Shevchik, V~~]]	+	[[Category: Gouet P]]
-	[[Category: ~~Bacterial pathogenesis]]~~	+	[[Category: Shevchik V]]
-	~~[[Category: Lyase]]~~	+
-	~~[[Category: Protein secretion~~]]	+

OCA at 13:59, 10 May 2019

OCA — Fri, 10 May 2019 13:59:45 GMT

←Older revision		Revision as of 13:59, 10 May 2019
Line 1:		Line 1:

	==Crystal structure of Pectate Lyase Pel3 from Pectobacterium carotovorum with two monomers in the A.U==		==Crystal structure of Pectate Lyase Pel3 from Pectobacterium carotovorum with two monomers in the A.U==
-	<StructureSection load='4u49' size='340' side='right' caption='[[4u49]], [[Resolution\|resolution]] 1.80Å' scene=''>	+	<StructureSection load='4u49' size='340' side='right'caption='[[4u49]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4u49]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U49 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4U49 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4u49]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_carotovorus"_jones_1901 "bacillus carotovorus" jones 1901]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U49 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4U49 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">pel-3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=554 "Bacillus carotovorus" Jones 1901])</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=4u49 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u49 OCA], [http://pdbe.org/4u49 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4u49 RCSB], [http://www.ebi.ac.uk/pdbsum/4u49 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4u49 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=4u49 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u49 OCA], [http://pdbe.org/4u49 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4u49 RCSB], [http://www.ebi.ac.uk/pdbsum/4u49 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4u49 ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillus carotovorus jones 1901]]
		+	[[Category: Large Structures]]
	[[Category: Ballut, L]]		[[Category: Ballut, L]]
	[[Category: Gouet, P]]		[[Category: Gouet, P]]

OCA at 13:20, 10 May 2017

OCA — Wed, 10 May 2017 13:20:37 GMT

←Older revision		Revision as of 13:20, 10 May 2017
Line 1:		Line 1:
		+
	==Crystal structure of Pectate Lyase Pel3 from Pectobacterium carotovorum with two monomers in the A.U==		==Crystal structure of Pectate Lyase Pel3 from Pectobacterium carotovorum with two monomers in the A.U==
	<StructureSection load='4u49' size='340' side='right' caption='[[4u49]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='4u49' size='340' side='right' caption='[[4u49]], [[Resolution\|resolution]] 1.80Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[4u49]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U49 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4U49 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4u49]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U49 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4U49 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</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=4u49 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u49 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4u49 RCSB], [http://www.ebi.ac.uk/pdbsum/4u49 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=4u49 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u49 OCA], [http://pdbe.org/4u49 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4u49 RCSB], [http://www.ebi.ac.uk/pdbsum/4u49 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4u49 ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__

OCA at 20:10, 5 August 2015

OCA — Wed, 05 Aug 2015 20:10:29 GMT

←Older revision		Revision as of 20:10, 5 August 2015
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	==Crystal structure of Pectate Lyase Pel3 from Pectobacterium carotovorum with two monomers in the A.U==
-		+	<StructureSection load='4u49' size='340' side='right' caption='[[4u49]], [[Resolution\|resolution]] 1.80Å' scene=''>
-	~~The entry 4u49 is ON HOLD until Jul 23 2016~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4u49]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4U49 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4U49 FirstGlance]. <br>
-	~~Authors: Ballut, L., Gouet, P., Shevchik, V.~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</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=4u49 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4u49 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4u49 RCSB], [http://www.ebi.ac.uk/pdbsum/4u49 PDBsum]</span></td></tr>
-	~~Description:~~ Crystal structure of Pectate Lyase Pel3 from Pectobacterium carotovorum with two monomers in the A.U	+	</table>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	__TOC__
-	[[~~Category~~: ~~Shevchik, V~~]]	+	</StructureSection>
-	[[~~Category~~: ~~Gouet~~, P]]	+
	[[Category: Ballut, L]]		[[Category: Ballut, L]]
		+	[[Category: Gouet, P]]
		+	[[Category: Shevchik, V]]
		+	[[Category: Bacterial pathogenesis]]
		+	[[Category: Lyase]]
		+	[[Category: Protein secretion]]

OCA at 18:07, 24 December 2014

OCA — Wed, 24 Dec 2014 18:07:48 GMT

←Older revision		Revision as of 18:07, 24 December 2014
Line 6:		Line 6:

	Description: Crystal structure of Pectate Lyase Pel3 from Pectobacterium carotovorum with two monomers in the A.U		Description: Crystal structure of Pectate Lyase Pel3 from Pectobacterium carotovorum with two monomers in the A.U
		+	[[Category: Unreleased Structures]]
		+	[[Category: Shevchik, V]]
		+	[[Category: Gouet, P]]
		+	[[Category: Ballut, L]]

OCA: Protected "4u49" [edit=sysop:move=sysop]

OCA — Wed, 30 Jul 2014 07:16:02 GMT

Protected "4u49" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:16, 30 July 2014

OCA: New page: '''Unreleased structure''' The entry 4u49 is ON HOLD until Jul 23 2016 Authors: Ballut, L., Gouet, P., Shevchik, V. Description: Crystal structure of Pectate Lyase Pel3 from Pectobacte...

OCA — Wed, 30 Jul 2014 07:16:02 GMT

New page: '''Unreleased structure''' The entry 4u49 is ON HOLD until Jul 23 2016 Authors: Ballut, L., Gouet, P., Shevchik, V. Description: Crystal structure of Pectate Lyase Pel3 from Pectobacte...

New page

'''Unreleased structure'''

The entry 4u49 is ON HOLD until Jul 23 2016

Authors: Ballut, L., Gouet, P., Shevchik, V.

Description: Crystal structure of Pectate Lyase Pel3 from Pectobacterium carotovorum with two monomers in the A.U