2xb9 - Revision history

OCA at 10:28, 20 December 2023

2023-12-20T10:28:01Z

←Older revision		Revision as of 10:28, 20 December 2023
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	<StructureSection load='2xb9' size='340' side='right'caption='[[2xb9]], [[Resolution\|resolution]] 2.75Å' scene=''>		<StructureSection load='2xb9' size='340' side='right'caption='[[2xb9]], [[Resolution\|resolution]] 2.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2xb9]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_43504 Atcc 43504~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XB9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2XB9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2xb9]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XB9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2XB9 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=XNW:(1R,2R,4S,5R)~~-1,~~4,5-TRIHYDROXY-~~2~~-(4-METHOXYBENZYL)-3-OXOCYCLOHEXANECARBOXYLIC+ACID'>XNW</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]] 2.75Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[2wks\|2wks]], [[2c57\|2c57]], [[2c4v\|2c4v]], [[1j2y\|1j2y]], [[2c4w\|2c4w]], [[2xb8\|2xb8]]~~</~~div~~><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=XNW:(1R,2R,4S,5R)-1,4,5-TRIHYDROXY-2-(4-METHOXYBENZYL)-3-OXOCYCLOHEXANECARBOXYLIC+ACID'>XNW</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/3~~-~~dehydroquinate_dehydratase 3-dehydroquinate dehydratase]~~, ~~with EC number [https://www.brenda~~-~~enzymes.info/php/result_flat.php4?ecno=4.~~2~~.1.10~~ 4~~.2.1.10]~~ </~~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=2xb9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xb9 OCA], [https://pdbe.org/2xb9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2xb9 RCSB], [https://www.ebi.ac.uk/pdbsum/2xb9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2xb9 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=2xb9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xb9 OCA], [https://pdbe.org/2xb9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2xb9 RCSB], [https://www.ebi.ac.uk/pdbsum/2xb9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2xb9 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/AROQ_HELPY AROQ_HELPY]] Catalyzes a trans-dehydration via an enolate intermediate (By similarity).[HAMAP-Rule:MF_00169]	+	[https://www.uniprot.org/uniprot/AROQ_HELPY AROQ_HELPY] Catalyzes a trans-dehydration via an enolate intermediate (By similarity).[HAMAP-Rule:MF_00169]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~3-dehydroquinate dehydratase]]~~	+	[[Category: Helicobacter pylori]]
-	~~[[Category: Atcc 43504~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Fox~~, G C~~]]	+	[[Category: Fox GC]]
-	[[Category: Gonzalez-Bello, C]]	+	[[Category: Gonzalez-Bello C]]
-	[[Category: Llamas-Saiz~~, A L~~]]	+	[[Category: Llamas-Saiz AL]]
-	[[Category: Otero~~, J M]]~~	+	[[Category: Otero JM]]
-	~~[[Category: Raaij, M J.van~~]]	+	[[Category: Tizon L]]
-	[[Category: Tizon, L]]	+	[[Category: Van Raaij MJ]]
-	[[Category: ~~Amino acid biosynthesis]]~~	+
-	~~[[Category: Lyase~~]]	+

OCA at 08:38, 10 November 2021

2021-11-10T08:38:06Z

←Older revision		Revision as of 08:38, 10 November 2021
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	<StructureSection load='2xb9' size='340' side='right'caption='[[2xb9]], [[Resolution\|resolution]] 2.75Å' scene=''>		<StructureSection load='2xb9' size='340' side='right'caption='[[2xb9]], [[Resolution\|resolution]] 2.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2xb9]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_43504 Atcc 43504]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XB9 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2XB9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2xb9]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_43504 Atcc 43504]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XB9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2XB9 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=XNW:(1R,2R,4S,5R)-1,4,5-TRIHYDROXY-2-(4-METHOXYBENZYL)-3-OXOCYCLOHEXANECARBOXYLIC+ACID'>XNW</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=XNW:(1R,2R,4S,5R)-1,4,5-TRIHYDROXY-2-(4-METHOXYBENZYL)-3-OXOCYCLOHEXANECARBOXYLIC+ACID'>XNW</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2wks\|2wks]], [[2c57\|2c57]], [[2c4v\|2c4v]], [[1j2y\|1j2y]], [[2c4w\|2c4w]], [[2xb8\|2xb8]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2wks\|2wks]], [[2c57\|2c57]], [[2c4v\|2c4v]], [[1j2y\|1j2y]], [[2c4w\|2c4w]], [[2xb8\|2xb8]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/3-dehydroquinate_dehydratase 3-dehydroquinate dehydratase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.10 4.2.1.10] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/3-dehydroquinate_dehydratase 3-dehydroquinate dehydratase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.10 4.2.1.10] </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=2xb9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xb9 OCA], [~~http~~://pdbe.org/2xb9 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2xb9 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2xb9 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2xb9 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=2xb9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xb9 OCA], [https://pdbe.org/2xb9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2xb9 RCSB], [https://www.ebi.ac.uk/pdbsum/2xb9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2xb9 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/AROQ_HELPY AROQ_HELPY]] Catalyzes a trans-dehydration via an enolate intermediate (By similarity).[HAMAP-Rule:MF_00169]	+	[[https://www.uniprot.org/uniprot/AROQ_HELPY AROQ_HELPY]] Catalyzes a trans-dehydration via an enolate intermediate (By similarity).[HAMAP-Rule:MF_00169]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 13:47, 25 December 2019

2019-12-25T13:47:52Z

←Older revision		Revision as of 13:47, 25 December 2019
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	==Structure of Helicobacter pylori type II dehydroquinase in complex with inhibitor compound (2R)-2-(4-methoxybenzyl)-3-dehydroquinic acid==		==Structure of Helicobacter pylori type II dehydroquinase in complex with inhibitor compound (2R)-2-(4-methoxybenzyl)-3-dehydroquinic acid==
-	<StructureSection load='2xb9' size='340' side='right' caption='[[2xb9]], [[Resolution\|resolution]] 2.75Å' scene=''>	+	<StructureSection load='2xb9' size='340' side='right'caption='[[2xb9]], [[Resolution\|resolution]] 2.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2xb9]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_43504 Atcc 43504]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XB9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2XB9 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2xb9]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_43504 Atcc 43504]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XB9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2XB9 FirstGlance]. <br>
Line 30:		Line 30:
	</div>		</div>
	<div class="pdbe-citations 2xb9" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2xb9" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Dehydroquinase 3D structures\|Dehydroquinase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 36:		Line 39:
	[[Category: 3-dehydroquinate dehydratase]]		[[Category: 3-dehydroquinate dehydratase]]
	[[Category: Atcc 43504]]		[[Category: Atcc 43504]]
		+	[[Category: Large Structures]]
	[[Category: Fox, G C]]		[[Category: Fox, G C]]
	[[Category: Gonzalez-Bello, C]]		[[Category: Gonzalez-Bello, C]]

OCA at 06:30, 7 February 2018

2018-02-07T06:30:41Z

←Older revision		Revision as of 06:30, 7 February 2018
Line 15:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/xb/2xb9_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/xb/2xb9_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>

OCA at 07:32, 16 November 2017

2017-11-16T07:32:35Z

←Older revision		Revision as of 07:32, 16 November 2017
Line 1:		Line 1:

-	==~~STRUCTURE OF HELICOBACTER PYLORI TYPE~~ II ~~DEHYDROQUINASE IN COMPLEX WITH INHIBITOR COMPOUND~~ (2R)-2-(4-~~METHOXYBENZYL~~)-3-~~DEHYDROQUINIC ACID~~==	+	==Structure of Helicobacter pylori type II dehydroquinase in complex with inhibitor compound (2R)-2-(4-methoxybenzyl)-3-dehydroquinic acid==
	<StructureSection load='2xb9' size='340' side='right' caption='[[2xb9]], [[Resolution\|resolution]] 2.75Å' scene=''>		<StructureSection load='2xb9' size='340' side='right' caption='[[2xb9]], [[Resolution\|resolution]] 2.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
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	</div>		</div>
	<div class="pdbe-citations 2xb9" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 2xb9" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Dehydroquinase\|Dehydroquinase]]
	== References ==		== References ==
	<references/>		<references/>
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	[[Category: Llamas-Saiz, A L]]		[[Category: Llamas-Saiz, A L]]
	[[Category: Otero, J M]]		[[Category: Otero, J M]]
-	[[Category: Raaij, M J.~~Van~~]]	+	[[Category: Raaij, M J.van]]
	[[Category: Tizon, L]]		[[Category: Tizon, L]]
	[[Category: Amino acid biosynthesis]]		[[Category: Amino acid biosynthesis]]
	[[Category: Lyase]]		[[Category: Lyase]]

OCA at 13:46, 4 August 2016

2016-08-04T13:46:21Z

←Older revision		Revision as of 13:46, 4 August 2016
Line 1:		Line 1:
		+
	==STRUCTURE OF HELICOBACTER PYLORI TYPE II DEHYDROQUINASE IN COMPLEX WITH INHIBITOR COMPOUND (2R)-2-(4-METHOXYBENZYL)-3-DEHYDROQUINIC ACID==		==STRUCTURE OF HELICOBACTER PYLORI TYPE II DEHYDROQUINASE IN COMPLEX WITH INHIBITOR COMPOUND (2R)-2-(4-METHOXYBENZYL)-3-DEHYDROQUINIC ACID==
	<StructureSection load='2xb9' size='340' side='right' caption='[[2xb9]], [[Resolution\|resolution]] 2.75Å' scene=''>		<StructureSection load='2xb9' size='340' side='right' caption='[[2xb9]], [[Resolution\|resolution]] 2.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2xb9]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Helicobacter_pylori Helicobacter pylori~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XB9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2XB9 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2xb9]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_43504 Atcc 43504]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XB9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2XB9 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=XNW:(1R,2R,4S,5R)-1,4,5-TRIHYDROXY-2-(4-METHOXYBENZYL)-3-OXOCYCLOHEXANECARBOXYLIC+ACID'>XNW</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=XNW:(1R,2R,4S,5R)-1,4,5-TRIHYDROXY-2-(4-METHOXYBENZYL)-3-OXOCYCLOHEXANECARBOXYLIC+ACID'>XNW</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2wks\|2wks]], [[2c57\|2c57]], [[2c4v\|2c4v]], [[1j2y\|1j2y]], [[2c4w\|2c4w]], [[2xb8\|2xb8]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2wks\|2wks]], [[2c57\|2c57]], [[2c4v\|2c4v]], [[1j2y\|1j2y]], [[2c4w\|2c4w]], [[2xb8\|2xb8]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-dehydroquinate_dehydratase 3-dehydroquinate dehydratase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.10 4.2.1.10] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-dehydroquinate_dehydratase 3-dehydroquinate dehydratase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.10 4.2.1.10] </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=2xb9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xb9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2xb9 RCSB], [http://www.ebi.ac.uk/pdbsum/2xb9 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=2xb9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xb9 OCA], [http://pdbe.org/2xb9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2xb9 RCSB], [http://www.ebi.ac.uk/pdbsum/2xb9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2xb9 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	<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=2xb9 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	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 2xb9" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 36:		Line 38:
	</StructureSection>		</StructureSection>
	[[Category: 3-dehydroquinate dehydratase]]		[[Category: 3-dehydroquinate dehydratase]]
-	[[Category: ~~Helicobacter pylori~~]]	+	[[Category: Atcc 43504]]
	[[Category: Fox, G C]]		[[Category: Fox, G C]]
	[[Category: Gonzalez-Bello, C]]		[[Category: Gonzalez-Bello, C]]

OCA at 15:14, 24 December 2014

2014-12-24T15:14:32Z

←Older revision		Revision as of 15:14, 24 December 2014
Line 8:		Line 8:
	<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=2xb9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xb9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2xb9 RCSB], [http://www.ebi.ac.uk/pdbsum/2xb9 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=2xb9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xb9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2xb9 RCSB], [http://www.ebi.ac.uk/pdbsum/2xb9 PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/AROQ_HELPY AROQ_HELPY]] Catalyzes a trans-dehydration via an enolate intermediate (By similarity).[HAMAP-Rule:MF_00169]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 12:02, 18 December 2014

2014-12-18T12:02:00Z

←Older revision		Revision as of 12:02, 18 December 2014
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-	~~{{STRUCTURE_2xb9\| PDB=2xb9 \| SCENE= }}~~	+	==STRUCTURE OF HELICOBACTER PYLORI TYPE II DEHYDROQUINASE IN COMPLEX WITH INHIBITOR COMPOUND (2R)-2-(4-METHOXYBENZYL)-3-DEHYDROQUINIC ACID==
-	===STRUCTURE OF HELICOBACTER PYLORI TYPE II DEHYDROQUINASE IN COMPLEX WITH INHIBITOR COMPOUND (2R)-2-(4-METHOXYBENZYL)-3-DEHYDROQUINIC ACID===	+	<StructureSection load='2xb9' size='340' side='right' caption='[[2xb9]], [[Resolution\|resolution]] 2.75Å' scene=''>
-	~~{{ABSTRACT_PUBMED_20815012}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2xb9]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Helicobacter_pylori Helicobacter pylori]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XB9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2XB9 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=XNW:(1R,2R,4S,5R)-1,4,5-TRIHYDROXY-2-(4-METHOXYBENZYL)-3-OXOCYCLOHEXANECARBOXYLIC+ACID'>XNW</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2wks\|2wks]], [[2c57\|2c57]], [[2c4v\|2c4v]], [[1j2y\|1j2y]], [[2c4w\|2c4w]], [[2xb8\|2xb8]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/3-dehydroquinate_dehydratase 3-dehydroquinate dehydratase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.10 4.2.1.10] </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=2xb9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xb9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2xb9 RCSB], [http://www.ebi.ac.uk/pdbsum/2xb9 PDBsum]</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/xb/2xb9_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 ==
		+	The binding mode of several substrate analogues, (2R)-2-benzyl-3-dehydroquinic acids 4, which are potent reversible competitive inhibitors of type II dehydroquinase (DHQ2), the third enzyme of the shikimic acid pathway, has been investigated by structural and computational studies. The crystal structures of Mycobacterium tuberculosis and Helicobacter pylori DHQ2 in complex with one of the most potent inhibitor, p-methoxybenzyl derivative 4 a, have been solved at 2.40 A and 2.75 A, respectively. This has allowed the resolution of the M. tuberculosis DHQ2 loop containing residues 20-25 for the first time. These structures show the key interactions of the aromatic ring in the active site of both enzymes and additionally reveal an important change in the conformation and flexibility of the loop that closes over substrate binding. The loop conformation and the binding mode of compounds 4 b-d has been also studied by molecular dynamics simulations, which suggest that the benzyl group of inhibitors 4 prevent appropriate orientation of the catalytic tyrosine of the loop for proton abstraction and disrupts its basicity.

-	~~==Function==~~	+	Understanding the Key Factors that Control the Inhibition of Type II Dehydroquinase by (2R)-2-Benzyl-3-dehydroquinic Acids.,Peon A, Otero JM, Tizon L, Prazeres VF, Llamas-Saiz AL, Fox GC, van Raaij MJ, Lamb H, Hawkins AR, Gago F, Castedo L, Gonzalez-Bello C ChemMedChem. 2010 Sep 2. PMID:20815012<ref>PMID:20815012</ref>
-	~~[[http://www.uniprot.org/uniprot/AROQ_HELPY AROQ_HELPY]] Catalyzes a trans-dehydration via an enolate intermediate~~ (~~By similarity~~).~~[HAMAP~~-~~Rule~~:~~MF_00169]~~	+

-	~~==About this Structure==~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[2xb9]] is~~ a ~~3 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Helicobacter_pylori Helicobacter pylori]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2XB9 OCA].~~	+	</div>

-	==~~Reference~~==	+	==See Also==
-	~~<ref group~~=~~"xtra">PMID:020815012</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	*[[Dehydroquinase\|Dehydroquinase]]
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: 3-dehydroquinate dehydratase]]		[[Category: 3-dehydroquinate dehydratase]]
	[[Category: Helicobacter pylori]]		[[Category: Helicobacter pylori]]
-	[[Category: Fox, G C.]]	+	[[Category: Fox, G C]]
-	[[Category: Gonzalez-Bello, C.]]	+	[[Category: Gonzalez-Bello, C]]
-	[[Category: Llamas-Saiz, A L.]]	+	[[Category: Llamas-Saiz, A L]]
-	[[Category: Otero, J M.]]	+	[[Category: Otero, J M]]
-	[[Category: Raaij, M J.Van.]]	+	[[Category: Raaij, M J.Van]]
-	[[Category: Tizon, L.]]	+	[[Category: Tizon, L]]
	[[Category: Amino acid biosynthesis]]		[[Category: Amino acid biosynthesis]]
	[[Category: Lyase]]		[[Category: Lyase]]

OCA at 08:04, 16 May 2013

2013-05-16T08:04:08Z

←Older revision		Revision as of 08:04, 16 May 2013
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-	[[Image:2xb9.png\|left\|200px]]
-
-	<!--
-	The line below this paragraph, containing "STRUCTURE_2xb9", 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_2xb9\| PDB=2xb9 \| SCENE= }}		{{STRUCTURE_2xb9\| PDB=2xb9 \| SCENE= }}
-
	===STRUCTURE OF HELICOBACTER PYLORI TYPE II DEHYDROQUINASE IN COMPLEX WITH INHIBITOR COMPOUND (2R)-2-(4-METHOXYBENZYL)-3-DEHYDROQUINIC ACID===		===STRUCTURE OF HELICOBACTER PYLORI TYPE II DEHYDROQUINASE IN COMPLEX WITH INHIBITOR COMPOUND (2R)-2-(4-METHOXYBENZYL)-3-DEHYDROQUINIC ACID===
		+	{{ABSTRACT_PUBMED_20815012}}

-		+	==Function==
-	~~<!--~~	+	[[http://www.uniprot.org/uniprot/AROQ_HELPY AROQ_HELPY]] Catalyzes a trans-dehydration via an enolate intermediate (By similarity).[HAMAP-Rule:MF_00169]
-	~~The line below this paragraph, {{ABSTRACT_PUBMED_20815012}}, adds the Publication Abstract to the page~~	+
-	~~(as it appears on PubMed at~~ http://www.~~pubmed~~.~~gov~~)~~, where 20815012 is the PubMed ID number~~.	+
-	-->	+
-	~~{{ABSTRACT_PUBMED_20815012}}~~	+

	==About this Structure==		==About this Structure==
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	==Reference==		==Reference==
-	<ref group="xtra">PMID:020815012</ref><references group="xtra"/>	+	<ref group="xtra">PMID:020815012</ref><references group="xtra"/><references/>
	[[Category: 3-dehydroquinate dehydratase]]		[[Category: 3-dehydroquinate dehydratase]]
	[[Category: Helicobacter pylori]]		[[Category: Helicobacter pylori]]

OCA: Protected "2xb9" [edit=sysop:move=sysop]

2011-07-13T07:58:39Z

Protected "2xb9" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:58, 13 July 2011