2d2g - Revision history

OCA at 11:33, 22 May 2024

OCA — Wed, 22 May 2024 11:33:36 GMT

←Older revision		Revision as of 11:33, 22 May 2024
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	<StructureSection load='2d2g' size='340' side='right'caption='[[2d2g]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='2d2g' size='340' side='right'caption='[[2d2g]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2d2g]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"achromobacter_radiobacter"_(beijerinck_and_van_delden_1902)_bergey_et_al._1934 "achromobacter radiobacter" (beijerinck and van delden 1902) bergey et al. 1934~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D2G OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2D2G FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2d2g]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Agrobacterium_tumefaciens Agrobacterium tumefaciens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D2G OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2D2G FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene>~~, ~~<scene name='pdbligand=DZZ:O,O-DIMETHYL+HYDROGEN+THIOPHOSPHATE'>DZZ</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='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~KCX~~:~~LYSINE~~+~~NZ-CARBOXYLIC~~+~~ACID~~'>~~KCX~~</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene>, <scene name='pdbligand=DZZ:O,O-DIMETHYL+HYDROGEN+THIOPHOSPHATE'>DZZ</scene>, <scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene></td></tr>
-	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b></td><td class="sblockDat"><div style='overflow: auto; max~~-~~height: 3em;~~'>~~[[2d2h\|2d2h]], [[2d2j\|2d2j]]~~</~~div~~><~~/td></tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[https://en.wikipedia.org/wiki/Aryldialkylphosphatase Aryldialkylphosphatase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.8.1 3.1.8.1]~~ </~~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=2d2g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2d2g OCA], [https://pdbe.org/2d2g PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2d2g RCSB], [https://www.ebi.ac.uk/pdbsum/2d2g PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2d2g 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=2d2g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2d2g OCA], [https://pdbe.org/2d2g PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2d2g RCSB], [https://www.ebi.ac.uk/pdbsum/2d2g PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2d2g ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q93LD7_RHIRD Q93LD7_RHIRD]
	== 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: ~~Aryldialkylphosphatase~~]]	+	[[Category: Agrobacterium tumefaciens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Carr~~, P D~~]]	+	[[Category: Carr PD]]
-	[[Category: Jackson, C]]	+	[[Category: Jackson C]]
-	[[Category: Kim~~, H K~~]]	+	[[Category: Kim HK]]
-	[[Category: Liu~~, J W~~]]	+	[[Category: Liu JW]]
-	[[Category: Ollis~~, D L]]~~	+	[[Category: Ollis DL]]
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Metalloenzyme]]~~	+
-	~~[[Category: Opda]]~~	+
-	~~[[Category: Phosphotriesterase~~]]	+

OCA at 11:53, 3 February 2021

OCA — Wed, 03 Feb 2021 11:53:32 GMT

←Older revision		Revision as of 11:53, 3 February 2021
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	==OpdA from Agrobacterium radiobacter with bound product dimethylthiophosphate==		==OpdA from Agrobacterium radiobacter with bound product dimethylthiophosphate==
-	<StructureSection load='2d2g' size='340' side='right' caption='[[2d2g]], [[Resolution\|resolution]] 1.85Å' scene=''>	+	<StructureSection load='2d2g' size='340' side='right'caption='[[2d2g]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2d2g]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"achromobacter_radiobacter"_(beijerinck_and_van_delden_1902)_bergey_et_al._1934 "achromobacter radiobacter" (beijerinck and van delden 1902) bergey et al. 1934]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D2G OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2D2G FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2d2g]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"achromobacter_radiobacter"_(beijerinck_and_van_delden_1902)_bergey_et_al._1934 "achromobacter radiobacter" (beijerinck and van delden 1902) bergey et al. 1934]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D2G OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2D2G FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene>, <scene name='pdbligand=DZZ:O,O-DIMETHYL+HYDROGEN+THIOPHOSPHATE'>DZZ</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene>, <scene name='pdbligand=DZZ:O,O-DIMETHYL+HYDROGEN+THIOPHOSPHATE'>DZZ</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2d2h\|2d2h]], [[2d2j\|2d2j]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2d2h\|2d2h]], [[2d2j\|2d2j]]</div></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/Aryldialkylphosphatase Aryldialkylphosphatase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.8.1 3.1.8.1] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Aryldialkylphosphatase Aryldialkylphosphatase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.8.1 3.1.8.1] </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=2d2g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2d2g OCA], [~~http~~://pdbe.org/2d2g PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2d2g RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2d2g PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2d2g 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=2d2g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2d2g OCA], [https://pdbe.org/2d2g PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2d2g RCSB], [https://www.ebi.ac.uk/pdbsum/2d2g PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2d2g ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	==See Also==		==See Also==
-	*[[Phosphotriesterase\|Phosphotriesterase]]	+	*[[Phosphotriesterase 3D structures\|Phosphotriesterase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 37:		Line 37:
	</StructureSection>		</StructureSection>
	[[Category: Aryldialkylphosphatase]]		[[Category: Aryldialkylphosphatase]]
		+	[[Category: Large Structures]]
	[[Category: Carr, P D]]		[[Category: Carr, P D]]
	[[Category: Jackson, C]]		[[Category: Jackson, C]]

OCA at 17:04, 27 February 2019

OCA — Wed, 27 Feb 2019 17:04:10 GMT

←Older revision		Revision as of 17:04, 27 February 2019
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/d2/2d2g_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/d2/2d2g_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 14:13, 24 May 2017

OCA — Wed, 24 May 2017 14:13:27 GMT

←Older revision		Revision as of 14:13, 24 May 2017
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		+
	==OpdA from Agrobacterium radiobacter with bound product dimethylthiophosphate==		==OpdA from Agrobacterium radiobacter with bound product dimethylthiophosphate==
	<StructureSection load='2d2g' size='340' side='right' caption='[[2d2g]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='2d2g' size='340' side='right' caption='[[2d2g]], [[Resolution\|resolution]] 1.85Å' scene=''>
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	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2d2h\|2d2h]], [[2d2j\|2d2j]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2d2h\|2d2h]], [[2d2j\|2d2j]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Aryldialkylphosphatase Aryldialkylphosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.8.1 3.1.8.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Aryldialkylphosphatase Aryldialkylphosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.8.1 3.1.8.1] </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=2d2g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2d2g OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2d2g RCSB], [http://www.ebi.ac.uk/pdbsum/2d2g 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=2d2g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2d2g OCA], [http://pdbe.org/2d2g PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2d2g RCSB], [http://www.ebi.ac.uk/pdbsum/2d2g PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2d2g ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	<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=2d2g 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 2d2g" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==

OCA at 06:19, 20 August 2015

OCA — Thu, 20 Aug 2015 06:19:50 GMT

←Older revision		Revision as of 06:19, 20 August 2015
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	<StructureSection load='2d2g' size='340' side='right' caption='[[2d2g]], [[Resolution\|resolution]] 1.85Å' scene=''>		<StructureSection load='2d2g' size='340' side='right' caption='[[2d2g]], [[Resolution\|resolution]] 1.85Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2d2g]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Agrobacterium_tumefaciens Agrobacterium tumefaciens~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D2G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2D2G FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2d2g]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"achromobacter_radiobacter"_(beijerinck_and_van_delden_1902)_bergey_et_al._1934 "achromobacter radiobacter" (beijerinck and van delden 1902) bergey et al. 1934]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D2G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2D2G FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene>, <scene name='pdbligand=~~CO2~~:~~CARBON~~+~~DIOXIDE~~'>~~CO2~~</scene>, <scene name='pdbligand=~~DZZ~~:~~O,O~~-~~DIMETHYL~~+~~HYDROGEN+THIOPHOSPHATE~~'>~~DZZ~~</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene>, <scene name='pdbligand=DZZ:O,O-DIMETHYL+HYDROGEN+THIOPHOSPHATE'>DZZ</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=KCX:LYSINE+NZ-CARBOXYLIC+ACID'>KCX</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2d2h\|2d2h]], [[2d2j\|2d2j]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2d2h\|2d2h]], [[2d2j\|2d2j]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Aryldialkylphosphatase Aryldialkylphosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.8.1 3.1.8.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Aryldialkylphosphatase Aryldialkylphosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.8.1 3.1.8.1] </span></td></tr>
Line 33:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Agrobacterium tumefaciens]]
	[[Category: Aryldialkylphosphatase]]		[[Category: Aryldialkylphosphatase]]
	[[Category: Carr, P D]]		[[Category: Carr, P D]]

OCA at 18:33, 15 January 2015

OCA — Thu, 15 Jan 2015 18:33:11 GMT

←Older revision		Revision as of 18:33, 15 January 2015
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2d2g]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Agrobacterium_tumefaciens Agrobacterium tumefaciens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D2G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2D2G FirstGlance]. <br>		<table><tr><td colspan='2'>[[2d2g]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Agrobacterium_tumefaciens Agrobacterium tumefaciens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D2G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2D2G FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene>, <scene name='pdbligand=CO2:CARBON+DIOXIDE'>CO2</scene>, <scene name='pdbligand=DZZ:O,O-DIMETHYL+HYDROGEN+THIOPHOSPHATE'>DZZ</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene>, <scene name='pdbligand=CO2:CARBON+DIOXIDE'>CO2</scene>, <scene name='pdbligand=DZZ:O,O-DIMETHYL+HYDROGEN+THIOPHOSPHATE'>DZZ</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2d2h\|2d2h]], [[2d2j\|2d2j]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2d2h\|2d2h]], [[2d2j\|2d2j]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Aryldialkylphosphatase Aryldialkylphosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.8.1 3.1.8.1] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Aryldialkylphosphatase Aryldialkylphosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.8.1 3.1.8.1] </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=2d2g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2d2g OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2d2g RCSB], [http://www.ebi.ac.uk/pdbsum/2d2g 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=2d2g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2d2g OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2d2g RCSB], [http://www.ebi.ac.uk/pdbsum/2d2g PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 35:
	[[Category: Agrobacterium tumefaciens]]		[[Category: Agrobacterium tumefaciens]]
	[[Category: Aryldialkylphosphatase]]		[[Category: Aryldialkylphosphatase]]
-	[[Category: Carr, P D.]]	+	[[Category: Carr, P D]]
-	[[Category: Jackson, C.]]	+	[[Category: Jackson, C]]
-	[[Category: Kim, H K.]]	+	[[Category: Kim, H K]]
-	[[Category: Liu, J W.]]	+	[[Category: Liu, J W]]
-	[[Category: Ollis, D L.]]	+	[[Category: Ollis, D L]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Metalloenzyme]]		[[Category: Metalloenzyme]]
	[[Category: Opda]]		[[Category: Opda]]
	[[Category: Phosphotriesterase]]		[[Category: Phosphotriesterase]]

OCA at 05:22, 29 September 2014

OCA — Mon, 29 Sep 2014 05:22:52 GMT

←Older revision		Revision as of 05:22, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2d2g.~~png~~\|~~left~~\|200px]]	+	==OpdA from Agrobacterium radiobacter with bound product dimethylthiophosphate==
		+	<StructureSection load='2d2g' size='340' side='right' caption='[[2d2g]], [[Resolution\|resolution]] 1.85Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2d2g]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Agrobacterium_tumefaciens Agrobacterium tumefaciens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D2G OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2D2G FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CO:COBALT+(II)+ION'>CO</scene>, <scene name='pdbligand=CO2:CARBON+DIOXIDE'>CO2</scene>, <scene name='pdbligand=DZZ:O,O-DIMETHYL+HYDROGEN+THIOPHOSPHATE'>DZZ</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2d2h\|2d2h]], [[2d2j\|2d2j]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Aryldialkylphosphatase Aryldialkylphosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.8.1 3.1.8.1] </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=2d2g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2d2g OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2d2g RCSB], [http://www.ebi.ac.uk/pdbsum/2d2g 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/d2/2d2g_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 ==
		+	A detailed understanding of the catalytic mechanism of enzymes is an important step toward improving their activity for use in biotechnology. In this paper, crystal soaking experiments and X-ray crystallography were used to analyse the mechanism of the Agrobacterium radiobacter phosphotriesterase, OpdA, an enzyme capable of detoxifying a broad range of organophosphate pesticides. The structures of OpdA complexed with ethylene glycol and the product of dimethoate hydrolysis, dimethyl thiophosphate, provide new details of the catalytic mechanism. These structures suggest that the attacking nucleophile is a terminally bound hydroxide, consistent with the catalytic mechanism of other binuclear metallophosphoesterases. In addition, a crystal structure with the potential substrate trimethyl phosphate bound non-productively demonstrates the importance of the active site cavity in orienting the substrate into an approximation of the transition state.

-	~~{{STRUCTURE_2d2g\| PDB=2d2g \| SCENE= }}~~	+	The structure of an enzyme-product complex reveals the critical role of a terminal hydroxide nucleophile in the bacterial phosphotriesterase mechanism.,Jackson C, Kim HK, Carr PD, Liu JW, Ollis DL Biochim Biophys Acta. 2005 Aug 31;1752(1):56-64. PMID:16054447<ref>PMID:16054447</ref>

-	~~===OpdA from Agrobacterium radiobacter with bound product dimethylthiophosphate===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_16054447}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2d2g]] is~~ a ~~1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Agrobacterium_tumefaciens Agrobacterium tumefaciens]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2D2G OCA].~~	+

	==See Also==		==See Also==
	*[[Phosphotriesterase\|Phosphotriesterase]]		*[[Phosphotriesterase\|Phosphotriesterase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:016054447<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Agrobacterium tumefaciens]]		[[Category: Agrobacterium tumefaciens]]
	[[Category: Aryldialkylphosphatase]]		[[Category: Aryldialkylphosphatase]]

OCA at 19:43, 20 October 2012

OCA — Sat, 20 Oct 2012 19:43:26 GMT

←Older revision		Revision as of 19:43, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[2d2g]] is a 1 chain structure ~~of [[Phosphotriesterase]]~~ with sequence from [http://en.wikipedia.org/wiki/Agrobacterium_tumefaciens Agrobacterium tumefaciens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D2G OCA].	+	[[2d2g]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Agrobacterium_tumefaciens Agrobacterium tumefaciens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D2G OCA].

	==See Also==		==See Also==

OCA: Protected "2d2g" [edit=sysop:move=sysop]

OCA — Fri, 27 Jul 2012 08:15:50 GMT

Protected "2d2g" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:15, 27 July 2012

OCA at 08:15, 27 July 2012

OCA — Fri, 27 Jul 2012 08:15:48 GMT

←Older revision		Revision as of 08:15, 27 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2d2g.png\|left\|200px]]		[[Image:2d2g.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2d2g", 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_2d2g\| PDB=2d2g \| SCENE= }}		{{STRUCTURE_2d2g\| PDB=2d2g \| SCENE= }}

	===OpdA from Agrobacterium radiobacter with bound product dimethylthiophosphate===		===OpdA from Agrobacterium radiobacter with bound product dimethylthiophosphate===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_16054447}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 16054447 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_16054447}}		{{ABSTRACT_PUBMED_16054447}}

	==About this Structure==		==About this Structure==
-	~~2D2G~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Agrobacterium_tumefaciens Agrobacterium tumefaciens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D2G OCA].	+	[[2d2g]] is a 1 chain structure of [[Phosphotriesterase]] with sequence from [http://en.wikipedia.org/wiki/Agrobacterium_tumefaciens Agrobacterium tumefaciens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D2G OCA].
		+
		+	==See Also==
		+	*[[Phosphotriesterase\|Phosphotriesterase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~16054447~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:016054447</ref><references group="xtra"/>
	[[Category: Agrobacterium tumefaciens]]		[[Category: Agrobacterium tumefaciens]]
	[[Category: Aryldialkylphosphatase]]		[[Category: Aryldialkylphosphatase]]
Line 31:		Line 22:
	[[Category: Liu, J W.]]		[[Category: Liu, J W.]]
	[[Category: Ollis, D L.]]		[[Category: Ollis, D L.]]
		+	[[Category: Hydrolase]]
	[[Category: Metalloenzyme]]		[[Category: Metalloenzyme]]
	[[Category: Opda]]		[[Category: Opda]]
	[[Category: Phosphotriesterase]]		[[Category: Phosphotriesterase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 00:53:15 2009''