2y7p - Revision history

OCA at 07:11, 1 May 2024

OCA — Wed, 01 May 2024 07:11:55 GMT

←Older revision		Revision as of 07:11, 1 May 2024
Line 10:		Line 10:
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/Q7WT50_9BURK Q7WT50_9BURK]		[https://www.uniprot.org/uniprot/Q7WT50_9BURK Q7WT50_9BURK]
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Activation of LysR-type transcription factors (LTTRs) is thought to result from conformational changes that occur when inducer molecules bind to their Inducer Binding Domains (IBDs). However, the exact nature of these changes remains to be fully elucidated. We present the crystal structures of two truncated constructs of the LTTR DntR in their apo- forms and in complex with its natural inducer molecule, salicylate. These provide a fuller picture of the conformational changes that can occur in LTTR IBDs and offer insights that may be relevant when considering the mechanism of activation of LTTRs. Two of the crystal structures show that DntR IBDs can bind up to two inducer molecules. The full extent of conformational changes observed is achieved only when inducer molecules are bound in both binding sites identified. Point mutations disrupting the putative secondary binding site produce DntR variants with a reduced response to salicylate in a whole cell system, suggesting that this site is functionally relevant.
-
-	Crystal structures of DntR inducer binding domains in complex with salicylate offer insights into the activation of LysR-type transcriptional regulators.,Devesse L, Smirnova I, Lonneborg R, Kapp U, Brzezinski P, Leonard GA, Dian C Mol Microbiol. 2011 Jul;81(2):354-367. doi:, 10.1111/j.1365-2958.2011.07673.x. Epub 2011 Jun 22. PMID:21692874<ref>PMID:21692874</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 2y7p" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 14:02, 1 February 2024

OCA — Thu, 01 Feb 2024 14:02:50 GMT

←Older revision		Revision as of 14:02, 1 February 2024
Line 3:		Line 3:
	<StructureSection load='2y7p' size='340' side='right'caption='[[2y7p]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='2y7p' size='340' side='right'caption='[[2y7p]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2y7p]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Burkholderia_sp.~~_dnt~~ Burkholderia sp. ~~dnt~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y7P OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2Y7P FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2y7p]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Burkholderia_sp._DNT Burkholderia sp. DNT]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y7P OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2Y7P FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PEU:2,5,8,11,14,17,20,23,26,29,32,35,38,41,44,47,50,53,56,59,62,65,68,71,74,77,80-HEPTACOSAOXADOOCTACONTAN-82-OL'>PEU</scene>, <scene name='pdbligand=SAL:2-HYDROXYBENZOIC+ACID'>SAL</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]] 1.85Å</td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1uth\|1uth]], [[2y7w\|2y7w]], [[1utb\|1utb]], [[2y7r\|2y7r]], [[2y84\|2y84]], [[2y7k\|2y7k]]</div></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PEU:2,5,8,11,14,17,20,23,26,29,32,35,38,41,44,47,50,53,56,59,62,65,68,71,74,77,80-HEPTACOSAOXADOOCTACONTAN-82-OL'>PEU</scene>, <scene name='pdbligand=SAL:2-HYDROXYBENZOIC+ACID'>SAL</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=2y7p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2y7p OCA], [https://pdbe.org/2y7p PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2y7p RCSB], [https://www.ebi.ac.uk/pdbsum/2y7p PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2y7p 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=2y7p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2y7p OCA], [https://pdbe.org/2y7p PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2y7p RCSB], [https://www.ebi.ac.uk/pdbsum/2y7p PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2y7p ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q7WT50_9BURK Q7WT50_9BURK]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Burkholderia sp. ~~dnt~~]]	+	[[Category: Burkholderia sp. DNT]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Brzezinski, P]]	+	[[Category: Brzezinski P]]
-	[[Category: Devesse, L]]	+	[[Category: Devesse L]]
-	[[Category: Dian, C]]	+	[[Category: Dian C]]
-	[[Category: Kapp, U]]	+	[[Category: Kapp U]]
-	[[Category: Leonard~~, G A~~]]	+	[[Category: Leonard GA]]
-	[[Category: Lonneborg, R]]	+	[[Category: Lonneborg R]]
-	[[Category: Smirnova, I]]	+	[[Category: Smirnova I]]
-	~~[[Category: Dna-binding]]~~	+
-	~~[[Category: Transcription]]~~	+
-	~~[[Category: Transcription factor]]~~	+
-	~~[[Category: Transcription regulation]]~~	+
-	~~[[Category: Transcription regulator~~]]	+

OCA at 12:24, 27 April 2022

OCA — Wed, 27 Apr 2022 12:24:42 GMT

←Older revision		Revision as of 12:24, 27 April 2022
Line 3:		Line 3:
	<StructureSection load='2y7p' size='340' side='right'caption='[[2y7p]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='2y7p' size='340' side='right'caption='[[2y7p]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2y7p]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Burkholderia_sp._dnt Burkholderia sp. dnt]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y7P OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2Y7P FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2y7p]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Burkholderia_sp._dnt Burkholderia sp. dnt]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y7P OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2Y7P FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PEU:2,5,8,11,14,17,20,23,26,29,32,35,38,41,44,47,50,53,56,59,62,65,68,71,74,77,80-HEPTACOSAOXADOOCTACONTAN-82-OL'>PEU</scene>, <scene name='pdbligand=SAL:2-HYDROXYBENZOIC+ACID'>SAL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PEU:2,5,8,11,14,17,20,23,26,29,32,35,38,41,44,47,50,53,56,59,62,65,68,71,74,77,80-HEPTACOSAOXADOOCTACONTAN-82-OL'>PEU</scene>, <scene name='pdbligand=SAL:2-HYDROXYBENZOIC+ACID'>SAL</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1uth\|1uth]], [[2y7w\|2y7w]], [[1utb\|1utb]], [[2y7r\|2y7r]], [[2y84\|2y84]], [[2y7k\|2y7k]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1uth\|1uth]], [[2y7w\|2y7w]], [[1utb\|1utb]], [[2y7r\|2y7r]], [[2y84\|2y84]], [[2y7k\|2y7k]]</div></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=2y7p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2y7p OCA], [~~http~~://pdbe.org/2y7p PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2y7p RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2y7p PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2y7p 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=2y7p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2y7p OCA], [https://pdbe.org/2y7p PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2y7p RCSB], [https://www.ebi.ac.uk/pdbsum/2y7p PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2y7p ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 12:38, 22 July 2020

OCA — Wed, 22 Jul 2020 12:38:18 GMT

←Older revision		Revision as of 12:38, 22 July 2020
Line 1:		Line 1:

	==DntR Inducer Binding Domain in Complex with Salicylate. Trigonal crystal form==		==DntR Inducer Binding Domain in Complex with Salicylate. Trigonal crystal form==
-	<StructureSection load='2y7p' size='340' side='right' caption='[[2y7p]], [[Resolution\|resolution]] 1.85Å' scene=''>	+	<StructureSection load='2y7p' size='340' side='right'caption='[[2y7p]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2y7p]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Burkholderia_sp._dnt Burkholderia sp. dnt]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y7P OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2Y7P FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2y7p]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Burkholderia_sp._dnt Burkholderia sp. dnt]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y7P OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2Y7P FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PEU:2,5,8,11,14,17,20,23,26,29,32,35,38,41,44,47,50,53,56,59,62,65,68,71,74,77,80-HEPTACOSAOXADOOCTACONTAN-82-OL'>PEU</scene>, <scene name='pdbligand=SAL:2-HYDROXYBENZOIC+ACID'>SAL</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PEU:2,5,8,11,14,17,20,23,26,29,32,35,38,41,44,47,50,53,56,59,62,65,68,71,74,77,80-HEPTACOSAOXADOOCTACONTAN-82-OL'>PEU</scene>, <scene name='pdbligand=SAL:2-HYDROXYBENZOIC+ACID'>SAL</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1uth\|1uth]], [[2y7w\|2y7w]], [[1utb\|1utb]], [[2y7r\|2y7r]], [[2y84\|2y84]], [[2y7k\|2y7k]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1uth\|1uth]], [[2y7w\|2y7w]], [[1utb\|1utb]], [[2y7r\|2y7r]], [[2y84\|2y84]], [[2y7k\|2y7k]]</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=2y7p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2y7p OCA], [http://pdbe.org/2y7p PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2y7p RCSB], [http://www.ebi.ac.uk/pdbsum/2y7p PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2y7p 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=2y7p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2y7p OCA], [http://pdbe.org/2y7p PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2y7p RCSB], [http://www.ebi.ac.uk/pdbsum/2y7p PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2y7p ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 22:		Line 22:
	</StructureSection>		</StructureSection>
	[[Category: Burkholderia sp. dnt]]		[[Category: Burkholderia sp. dnt]]
		+	[[Category: Large Structures]]
	[[Category: Brzezinski, P]]		[[Category: Brzezinski, P]]
	[[Category: Devesse, L]]		[[Category: Devesse, L]]

OCA at 08:59, 10 October 2018

OCA — Wed, 10 Oct 2018 08:59:59 GMT

←Older revision		Revision as of 08:59, 10 October 2018
Line 1:		Line 1:

-	==~~DNTR INDUCER BINDING DOMAIN IN COMPLEX WITH SALICYLATE~~. ~~TRIGONAL CRYSTAL FORM~~==	+	==DntR Inducer Binding Domain in Complex with Salicylate. Trigonal crystal form==
	<StructureSection load='2y7p' size='340' side='right' caption='[[2y7p]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='2y7p' size='340' side='right' caption='[[2y7p]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==

OCA at 05:33, 5 August 2016

OCA — Fri, 05 Aug 2016 05:33:05 GMT

←Older revision		Revision as of 05:33, 5 August 2016
Line 1:		Line 1:
		+
	==DNTR INDUCER BINDING DOMAIN IN COMPLEX WITH SALICYLATE. TRIGONAL CRYSTAL FORM==		==DNTR INDUCER BINDING DOMAIN IN COMPLEX WITH SALICYLATE. TRIGONAL CRYSTAL FORM==
	<StructureSection load='2y7p' size='340' side='right' caption='[[2y7p]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='2y7p' size='340' side='right' caption='[[2y7p]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2y7p]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Burkholderia_sp. Burkholderia sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y7P OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2Y7P FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2y7p]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Burkholderia_sp._dnt Burkholderia sp. dnt]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y7P OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2Y7P FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PEU:2,5,8,11,14,17,20,23,26,29,32,35,38,41,44,47,50,53,56,59,62,65,68,71,74,77,80-HEPTACOSAOXADOOCTACONTAN-82-OL'>PEU</scene>, <scene name='pdbligand=SAL:2-HYDROXYBENZOIC+ACID'>SAL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PEU:2,5,8,11,14,17,20,23,26,29,32,35,38,41,44,47,50,53,56,59,62,65,68,71,74,77,80-HEPTACOSAOXADOOCTACONTAN-82-OL'>PEU</scene>, <scene name='pdbligand=SAL:2-HYDROXYBENZOIC+ACID'>SAL</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1uth\|1uth]], [[2y7w\|2y7w]], [[1utb\|1utb]], [[2y7r\|2y7r]], [[2y84\|2y84]], [[2y7k\|2y7k]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1uth\|1uth]], [[2y7w\|2y7w]], [[1utb\|1utb]], [[2y7r\|2y7r]], [[2y84\|2y84]], [[2y7k\|2y7k]]</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=2y7p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2y7p OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2y7p RCSB], [http://www.ebi.ac.uk/pdbsum/2y7p 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=2y7p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2y7p OCA], [http://pdbe.org/2y7p PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2y7p RCSB], [http://www.ebi.ac.uk/pdbsum/2y7p PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2y7p 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 2y7p" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Burkholderia sp]]	+	[[Category: Burkholderia sp. dnt]]
	[[Category: Brzezinski, P]]		[[Category: Brzezinski, P]]
	[[Category: Devesse, L]]		[[Category: Devesse, L]]

OCA at 21:24, 3 January 2015

OCA — Sat, 03 Jan 2015 21:24:01 GMT

←Older revision		Revision as of 21:24, 3 January 2015
Line 2:		Line 2:
	<StructureSection load='2y7p' size='340' side='right' caption='[[2y7p]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='2y7p' size='340' side='right' caption='[[2y7p]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2y7p]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Burkholderia_sp. Burkholderia sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y7P OCA]. <br>	+	<table><tr><td colspan='2'>[[2y7p]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Burkholderia_sp. Burkholderia sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y7P OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2Y7P FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PEU:2,5,8,11,14,17,20,23,26,29,32,35,38,41,44,47,50,53,56,59,62,65,68,71,74,77,80-HEPTACOSAOXADOOCTACONTAN-82-OL'>PEU</scene>, <scene name='pdbligand=SAL:2-HYDROXYBENZOIC+ACID'>SAL</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PEU:2,5,8,11,14,17,20,23,26,29,32,35,38,41,44,47,50,53,56,59,62,65,68,71,74,77,80-HEPTACOSAOXADOOCTACONTAN-82-OL'>PEU</scene>, <scene name='pdbligand=SAL:2-HYDROXYBENZOIC+ACID'>SAL</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1uth\|1uth]], [[2y7w\|2y7w]], [[1utb\|1utb]], [[2y7r\|2y7r]], [[2y84\|2y84]], [[2y7k\|2y7k]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1uth\|1uth]], [[2y7w\|2y7w]], [[1utb\|1utb]], [[2y7r\|2y7r]], [[2y84\|2y84]], [[2y7k\|2y7k]]</td></tr>
-	<tr~~><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class~~='~~plainlinks~~'~~>[http://en.wikipedia.org/wiki/Glucokinase Glucokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.2 2.7.1.2] </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=2y7p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2y7p OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2y7p RCSB], [http://www.ebi.ac.uk/pdbsum/2y7p PDBsum]</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=2y7p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2y7p OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2y7p RCSB], [http://www.ebi.ac.uk/pdbsum/2y7p PDBsum]</span></td></tr>	+	</table>
-	<table>	+
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 14:		Line 13:
	Crystal structures of DntR inducer binding domains in complex with salicylate offer insights into the activation of LysR-type transcriptional regulators.,Devesse L, Smirnova I, Lonneborg R, Kapp U, Brzezinski P, Leonard GA, Dian C Mol Microbiol. 2011 Jul;81(2):354-367. doi:, 10.1111/j.1365-2958.2011.07673.x. Epub 2011 Jun 22. PMID:21692874<ref>PMID:21692874</ref>		Crystal structures of DntR inducer binding domains in complex with salicylate offer insights into the activation of LysR-type transcriptional regulators.,Devesse L, Smirnova I, Lonneborg R, Kapp U, Brzezinski P, Leonard GA, Dian C Mol Microbiol. 2011 Jul;81(2):354-367. doi:, 10.1111/j.1365-2958.2011.07673.x. Epub 2011 Jun 22. PMID:21692874<ref>PMID:21692874</ref>

-	From ~~MEDLINEÂ®~~/~~PubMedÂ®~~, 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>
	== References ==		== References ==
Line 20:		Line 19:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Burkholderia sp.]]	+	[[Category: Burkholderia sp]]
-	[[Category: Brzezinski, P.]]	+	[[Category: Brzezinski, P]]
-	[[Category: Devesse, L.]]	+	[[Category: Devesse, L]]
-	[[Category: Dian, C.]]	+	[[Category: Dian, C]]
-	[[Category: Kapp, U.]]	+	[[Category: Kapp, U]]
-	[[Category: Leonard, G A.]]	+	[[Category: Leonard, G A]]
-	[[Category: Lonneborg, R.]]	+	[[Category: Lonneborg, R]]
-	[[Category: Smirnova, I.]]	+	[[Category: Smirnova, I]]
	[[Category: Dna-binding]]		[[Category: Dna-binding]]
	[[Category: Transcription]]		[[Category: Transcription]]

OCA at 07:46, 14 May 2014

OCA — Wed, 14 May 2014 07:46:17 GMT

←Older revision		Revision as of 07:46, 14 May 2014
Line 1:		Line 1:
-	[[~~Image:~~2y7p.~~png~~\|~~left~~\|~~200px~~]]	+	==DNTR INDUCER BINDING DOMAIN IN COMPLEX WITH SALICYLATE. TRIGONAL CRYSTAL FORM==
		+	<StructureSection load='2y7p' size='340' side='right' caption='[[2y7p]], [[Resolution\|resolution]] 1.85Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2y7p]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Burkholderia_sp. Burkholderia sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y7P OCA]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PEU:2,5,8,11,14,17,20,23,26,29,32,35,38,41,44,47,50,53,56,59,62,65,68,71,74,77,80-HEPTACOSAOXADOOCTACONTAN-82-OL'>PEU</scene>, <scene name='pdbligand=SAL:2-HYDROXYBENZOIC+ACID'>SAL</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1uth\|1uth]], [[2y7w\|2y7w]], [[1utb\|1utb]], [[2y7r\|2y7r]], [[2y84\|2y84]], [[2y7k\|2y7k]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glucokinase Glucokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.2 2.7.1.2] </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=2y7p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2y7p OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2y7p RCSB], [http://www.ebi.ac.uk/pdbsum/2y7p PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Activation of LysR-type transcription factors (LTTRs) is thought to result from conformational changes that occur when inducer molecules bind to their Inducer Binding Domains (IBDs). However, the exact nature of these changes remains to be fully elucidated. We present the crystal structures of two truncated constructs of the LTTR DntR in their apo- forms and in complex with its natural inducer molecule, salicylate. These provide a fuller picture of the conformational changes that can occur in LTTR IBDs and offer insights that may be relevant when considering the mechanism of activation of LTTRs. Two of the crystal structures show that DntR IBDs can bind up to two inducer molecules. The full extent of conformational changes observed is achieved only when inducer molecules are bound in both binding sites identified. Point mutations disrupting the putative secondary binding site produce DntR variants with a reduced response to salicylate in a whole cell system, suggesting that this site is functionally relevant.

-	<!--	+	Crystal structures of DntR inducer binding domains in complex with salicylate offer insights into the activation of LysR-type transcriptional regulators.,Devesse L, Smirnova I, Lonneborg R, Kapp U, Brzezinski P, Leonard GA, Dian C Mol Microbiol. 2011 Jul;81(2):354-367. doi:, 10.1111/j.1365-2958.2011.07673.x. Epub 2011 Jun 22. PMID:21692874<ref>PMID:21692874</ref>
-	~~The line below this paragraph~~, ~~containing "STRUCTURE_2y7p"~~, ~~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_2y7p\| PDB=2y7p \| SCENE= }}~~	+

-	~~===DNTR INDUCER BINDING DOMAIN IN COMPLEX WITH SALICYLATE. TRIGONAL CRYSTAL FORM===~~	+	From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-		+	== References ==
-	~~<!--~~	+	<references/>
-	~~The line below this paragraph~~, ~~{{ABSTRACT_PUBMED_21692874}}, adds~~ the ~~Publication Abstract to the page~~	+	__TOC__
-	~~(as it appears on PubMed at http://www~~.~~pubmed~~.~~gov), where 21692874 is the PubMed ID number~~.	+	</StructureSection>
-	-->	+
-	~~{{ABSTRACT_PUBMED_21692874}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2y7p]] is a 1 chain structure with sequence from [http:~~/~~/en.wikipedia.org/wiki/Burkholderia_sp. Burkholderia sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y7P OCA].~~	+
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:021692874<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Burkholderia sp.]]		[[Category: Burkholderia sp.]]
	[[Category: Brzezinski, P.]]		[[Category: Brzezinski, P.]]

OCA at 06:10, 27 July 2011

OCA — Wed, 27 Jul 2011 06:10:58 GMT

←Older revision		Revision as of 06:10, 27 July 2011
Line 1:		Line 1:
-	[[Image:2y7p.~~jpg~~\|left\|200px]]	+	[[Image:2y7p.png\|left\|200px]]

	<!--		<!--

OCA at 06:45, 20 July 2011

OCA — Wed, 20 Jul 2011 06:45:43 GMT

←Older revision		Revision as of 06:45, 20 July 2011
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:2y7p.jpg\|left\|200px]]

-	The ~~entry 2y7p~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_2y7p", 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_2y7p\| PDB=2y7p \| SCENE= }}

-	~~Authors: Devesse, L., Smirnova, I., Lonneborg, R., Kapp, U., Brzezinski, P., Leonard, G., Dian, C~~.	+	===DNTR INDUCER BINDING DOMAIN IN COMPLEX WITH SALICYLATE. TRIGONAL CRYSTAL FORM===

-	~~Description~~: ~~DntR Inducer Binding Domain in Complex~~ with ~~Salicylate~~. ~~Trigonal crystal form~~	+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_21692874}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 21692874 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_21692874}}
		+
		+	==About this Structure==
		+	[[2y7p]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Burkholderia_sp. Burkholderia sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2Y7P OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:021692874</ref><references group="xtra"/>
		+	[[Category: Burkholderia sp.]]
		+	[[Category: Brzezinski, P.]]
		+	[[Category: Devesse, L.]]
		+	[[Category: Dian, C.]]
		+	[[Category: Kapp, U.]]
		+	[[Category: Leonard, G A.]]
		+	[[Category: Lonneborg, R.]]
		+	[[Category: Smirnova, I.]]
		+	[[Category: Dna-binding]]
		+	[[Category: Transcription]]
		+	[[Category: Transcription factor]]
		+	[[Category: Transcription regulation]]
		+	[[Category: Transcription regulator]]