2d40 - Revision history

OCA at 11:34, 22 May 2024

OCA — Wed, 22 May 2024 11:34:07 GMT

←Older revision		Revision as of 11:34, 22 May 2024
Line 3:		Line 3:
	<StructureSection load='2d40' size='340' side='right'caption='[[2d40]], [[Resolution\|resolution]] 2.41Å' scene=''>		<StructureSection load='2d40' size='340' side='right'caption='[[2d40]], [[Resolution\|resolution]] 2.41Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2d40]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Eco57 Eco57~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D40 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2D40 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2d40]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_O157:H7 Escherichia coli O157:H7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D40 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2D40 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=FE:FE+(III)+ION'>FE</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]] 2.41Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~MSE~~:~~SELENOMETHIONINE~~'>~~MSE~~</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[https://en.wikipedia.org/wiki/Gentisate_1,2-dioxygenase Gentisate 1,2-dioxygenase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.4 1.13.11.4]~~ </~~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=2d40 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2d40 OCA], [https://pdbe.org/2d40 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2d40 RCSB], [https://www.ebi.ac.uk/pdbsum/2d40 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2d40 ProSAT], [https://www.topsan.org/Proteins/BSGI/2d40 TOPSAN]</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=2d40 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2d40 OCA], [https://pdbe.org/2d40 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2d40 RCSB], [https://www.ebi.ac.uk/pdbsum/2d40 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2d40 ProSAT], [https://www.topsan.org/Proteins/BSGI/2d40 TOPSAN]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q8X655_ECO57 Q8X655_ECO57]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Eco57]]~~	+	[[Category: Escherichia coli O157:H7]]
-	~~[[Category~~: ~~Gentisate 1,2-dioxygenase~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Adams~~, M A]]~~	+	[[Category: Adams MA]]
-	~~[[Category: Structural genomic~~]]	+	[[Category: Jia Z]]
-	[[Category: Jia, Z]]	+
-	~~[[Category: 2-dioxygenase]]~~	+
-	~~[[Category: Bicupin]]~~	+
-	~~[[Category: Bsgi]]~~	+
-	~~[[Category: Gentisic acid]]~~	+
-	~~[[Category: Oxidoreductase]]~~	+
-	~~[[Category: Tetramer~~]]	+

OCA at 09:48, 5 May 2021

OCA — Wed, 05 May 2021 09:48:20 GMT

←Older revision		Revision as of 09:48, 5 May 2021
Line 3:		Line 3:
	<StructureSection load='2d40' size='340' side='right'caption='[[2d40]], [[Resolution\|resolution]] 2.41Å' scene=''>		<StructureSection load='2d40' size='340' side='right'caption='[[2d40]], [[Resolution\|resolution]] 2.41Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2d40]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Eco57 Eco57]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D40 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2D40 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2d40]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Eco57 Eco57]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D40 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2D40 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Gentisate_1,2-dioxygenase Gentisate 1,2-dioxygenase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.4 1.13.11.4] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Gentisate_1,2-dioxygenase Gentisate 1,2-dioxygenase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.4 1.13.11.4] </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=2d40 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2d40 OCA], [~~http~~://pdbe.org/2d40 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2d40 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2d40 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2d40 ProSAT], [~~http~~://www.topsan.org/Proteins/BSGI/2d40 TOPSAN]</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=2d40 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2d40 OCA], [https://pdbe.org/2d40 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2d40 RCSB], [https://www.ebi.ac.uk/pdbsum/2d40 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2d40 ProSAT], [https://www.topsan.org/Proteins/BSGI/2d40 TOPSAN]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 09:23, 24 July 2019

OCA — Wed, 24 Jul 2019 09:23:38 GMT

←Older revision		Revision as of 09:23, 24 July 2019
Line 1:		Line 1:

	==Crystal Structure of Z3393 from Escherichia coli O157:H7==		==Crystal Structure of Z3393 from Escherichia coli O157:H7==
-	<StructureSection load='2d40' size='340' side='right' caption='[[2d40]], [[Resolution\|resolution]] 2.41Å' scene=''>	+	<StructureSection load='2d40' size='340' side='right'caption='[[2d40]], [[Resolution\|resolution]] 2.41Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2d40]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Eco57 Eco57]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D40 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2D40 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2d40]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Eco57 Eco57]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D40 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2D40 FirstGlance]. <br>
Line 13:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/d4/2d40_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/d4/2d40_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 34:		Line 34:
	[[Category: Eco57]]		[[Category: Eco57]]
	[[Category: Gentisate 1,2-dioxygenase]]		[[Category: Gentisate 1,2-dioxygenase]]
		+	[[Category: Large Structures]]
	[[Category: Adams, M A]]		[[Category: Adams, M A]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]

OCA at 16:00, 12 October 2017

OCA — Thu, 12 Oct 2017 16:00:56 GMT

←Older revision		Revision as of 16:00, 12 October 2017
Line 1:		Line 1:
		+
	==Crystal Structure of Z3393 from Escherichia coli O157:H7==		==Crystal Structure of Z3393 from Escherichia coli O157:H7==
	<StructureSection load='2d40' size='340' side='right' caption='[[2d40]], [[Resolution\|resolution]] 2.41Å' scene=''>		<StructureSection load='2d40' size='340' side='right' caption='[[2d40]], [[Resolution\|resolution]] 2.41Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2d40]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Escherichia_coli Escherichia coli~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D40 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2D40 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2d40]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Eco57 Eco57]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D40 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2D40 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Gentisate_1,2-dioxygenase Gentisate 1,2-dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.4 1.13.11.4] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Gentisate_1,2-dioxygenase Gentisate 1,2-dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.4 1.13.11.4] </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=2d40 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2d40 OCA], [http://pdbe.org/2d40 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2d40 RCSB], [http://www.ebi.ac.uk/pdbsum/2d40 PDBsum], [http://www.topsan.org/Proteins/BSGI/2d40 TOPSAN]</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=2d40 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2d40 OCA], [http://pdbe.org/2d40 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2d40 RCSB], [http://www.ebi.ac.uk/pdbsum/2d40 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2d40 ProSAT], [http://www.topsan.org/Proteins/BSGI/2d40 TOPSAN]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 31:		Line 32:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Escherichia coli~~]]	+	[[Category: Eco57]]
	[[Category: Gentisate 1,2-dioxygenase]]		[[Category: Gentisate 1,2-dioxygenase]]
	[[Category: Adams, M A]]		[[Category: Adams, M A]]

OCA at 01:46, 10 February 2016

OCA — Wed, 10 Feb 2016 01:46:49 GMT

←Older revision		Revision as of 01:46, 10 February 2016
Line 16:		Line 16:
	<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=2d40 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 04:09, 11 September 2015

OCA — Fri, 11 Sep 2015 04:09:27 GMT

←Older revision		Revision as of 04:09, 11 September 2015
Line 6:		Line 6:
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Gentisate_1,2-dioxygenase Gentisate 1,2-dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.4 1.13.11.4] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Gentisate_1,2-dioxygenase Gentisate 1,2-dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.4 1.13.11.4] </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=2d40 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2d40 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2d40 RCSB], [http://www.ebi.ac.uk/pdbsum/2d40 PDBsum], [http://www.topsan.org/Proteins/BSGI/2d40 TOPSAN]</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=2d40 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2d40 OCA], [http://pdbe.org/2d40 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2d40 RCSB], [http://www.ebi.ac.uk/pdbsum/2d40 PDBsum], [http://www.topsan.org/Proteins/BSGI/2d40 TOPSAN]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 26:		Line 26:
	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 2d40" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 18:14, 15 January 2015

OCA — Thu, 15 Jan 2015 18:14:19 GMT

←Older revision		Revision as of 18:14, 15 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2d40]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D40 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2D40 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2d40]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D40 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2D40 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Gentisate_1,2-dioxygenase Gentisate 1,2-dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.4 1.13.11.4] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Gentisate_1,2-dioxygenase Gentisate 1,2-dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.4 1.13.11.4] </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=2d40 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2d40 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2d40 RCSB], [http://www.ebi.ac.uk/pdbsum/2d40 PDBsum], [http://www.topsan.org/Proteins/BSGI/2d40 TOPSAN]</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=2d40 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2d40 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2d40 RCSB], [http://www.ebi.ac.uk/pdbsum/2d40 PDBsum], [http://www.topsan.org/Proteins/BSGI/2d40 TOPSAN]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 32:
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Gentisate 1,2-dioxygenase]]		[[Category: Gentisate 1,2-dioxygenase]]
-	[[Category: Adams, M A.]]	+	[[Category: Adams, M A]]
-	[[Category: ~~BSGI, Montreal-Kingston Bacterial~~ Structural ~~Genomics Initiative.~~]]	+	[[Category: Structural genomic]]
-	[[Category: Jia, Z.]]	+	[[Category: Jia, Z]]
	[[Category: 2-dioxygenase]]		[[Category: 2-dioxygenase]]
	[[Category: Bicupin]]		[[Category: Bicupin]]
	[[Category: Bsgi]]		[[Category: Bsgi]]
	[[Category: Gentisic acid]]		[[Category: Gentisic acid]]
-	[[Category: Montreal-kingston bacterial structural genomics initiative]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]
-	[[Category: Structural genomic]]
	[[Category: Tetramer]]		[[Category: Tetramer]]

OCA at 02:49, 30 September 2014

OCA — Tue, 30 Sep 2014 02:49:28 GMT

←Older revision		Revision as of 02:49, 30 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2d40.~~png~~\|~~left~~\|200px]]	+	==Crystal Structure of Z3393 from Escherichia coli O157:H7==
		+	<StructureSection load='2d40' size='340' side='right' caption='[[2d40]], [[Resolution\|resolution]] 2.41Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2d40]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D40 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2D40 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Gentisate_1,2-dioxygenase Gentisate 1,2-dioxygenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.13.11.4 1.13.11.4] </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=2d40 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2d40 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2d40 RCSB], [http://www.ebi.ac.uk/pdbsum/2d40 PDBsum], [http://www.topsan.org/Proteins/BSGI/2d40 TOPSAN]</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/d4/2d40_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 ==
		+	Gentisic acid (2,5-dihydroxybenzoic acid) is a key intermediate in aerobic bacterial pathways that are responsible for the metabolism of a large number of aromatic compounds. The critical step of these pathways is the oxygen-dependent reaction catalysed by gentisate 1,2-dioxygenase which opens the aromatic ring of gentisate to form maleylpyruvate. From gentisic acid, the cell derives carbon and energy through the conversion of maleylpyruvate to central metabolites. We have confirmed the annotation of a gentisate 1,2-dioygenase from the pathogenic O157:H7 Escherichia coli strain and present the first structural characterization of this family of enzymes. The identity of the reaction product was revealed using tandem mass spectroscopy. The operon responsible for the degradation of gentisate in this organism exhibits a high degree of conservation with the gentisate-degrading operons of other pathogenic bacteria, including the Shiga toxin-producing E. coli O103:H2, but does not appear to be present in non-pathogenic strains. The acquisition of the gentisate operon may represent a special adaptation to meet carbon source requirements under conditions of environmental stress and may provide a selective advantage for enterohaemorrhagic E. coli relative to their non-pathogenic counterparts.

-	~~{{STRUCTURE_2d40\| PDB=2d40 \| SCENE= }}~~	+	Structural and biochemical characterization of gentisate 1,2-dioxygenase from Escherichia coli O157:H7.,Adams MA, Singh VK, Keller BO, Jia Z Mol Microbiol. 2006 Sep;61(6):1469-84. Epub 2006 Aug 23. PMID:16930152<ref>PMID:16930152</ref>

-	~~===Crystal Structure~~ of ~~Z3393 from Escherichia coli O157:H7===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_16930152}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2d40]] is a 4 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Escherichia_coli Escherichia coli]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2D40 OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:016930152<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Gentisate 1,2-dioxygenase]]		[[Category: Gentisate 1,2-dioxygenase]]

OCA: Protected "2d40" [edit=sysop:move=sysop]

OCA — Sun, 06 Jan 2013 12:00:21 GMT

Protected "2d40" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:00, 6 January 2013

OCA at 12:00, 6 January 2013

OCA — Sun, 06 Jan 2013 12:00:19 GMT

←Older revision		Revision as of 12:00, 6 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2d40.png\|left\|200px]]		[[Image:2d40.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2d40", 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_2d40\| PDB=2d40 \| SCENE= }}		{{STRUCTURE_2d40\| PDB=2d40 \| SCENE= }}

	===Crystal Structure of Z3393 from Escherichia coli O157:H7===		===Crystal Structure of Z3393 from Escherichia coli O157:H7===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_16930152}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 16930152 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_16930152}}		{{ABSTRACT_PUBMED_16930152}}

	==About this Structure==		==About this Structure==
-	~~2D40~~ is a 4 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/~~Escherichia_coli_o157:h7~~ Escherichia coli ~~o157:h7~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D40 OCA].	+	[[2d40]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D40 OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~16930152~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:016930152</ref><references group="xtra"/>
-	[[Category: Escherichia coli ~~o157:h7~~]]	+	[[Category: Escherichia coli]]
	[[Category: Gentisate 1,2-dioxygenase]]		[[Category: Gentisate 1,2-dioxygenase]]
	[[Category: Adams, M A.]]		[[Category: Adams, M A.]]
	[[Category: BSGI, Montreal-Kingston Bacterial Structural Genomics Initiative.]]		[[Category: BSGI, Montreal-Kingston Bacterial Structural Genomics Initiative.]]
	[[Category: Jia, Z.]]		[[Category: Jia, Z.]]
-	[[Category: 1,2-dioxygenase]]	+	[[Category: 2-dioxygenase]]
	[[Category: Bicupin]]		[[Category: Bicupin]]
	[[Category: Bsgi]]		[[Category: Bsgi]]
-	[[Category: Crystal structure]]
	[[Category: Gentisic acid]]		[[Category: Gentisic acid]]
	[[Category: Montreal-kingston bacterial structural genomics initiative]]		[[Category: Montreal-kingston bacterial structural genomics initiative]]
		+	[[Category: Oxidoreductase]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
	[[Category: Tetramer]]		[[Category: Tetramer]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 14:25:47 2009''