2eb5 - Revision history

OCA at 13:49, 13 March 2024

2024-03-13T13:49:30Z

← Older revision		Revision as of 13:49, 13 March 2024
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	<StructureSection load='2eb5' size='340' side='right'caption='[[2eb5]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='2eb5' size='340' side='right'caption='[[2eb5]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2eb5]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"bacillus_coli"_migula_1895 "bacillus~~ coli~~" migula 1895~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EB5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2EB5 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2eb5]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EB5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2EB5 FirstGlance]. <br>
	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>~~, ~~<scene name='pdbligand=OXL:OXALATE+ION'>OXL</scene>, <scene name='pdbligand=SCN:THIOCYANATE+ION'>SCN</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]] 1.7Å</td></tr>
	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[2eb4\|2eb4]], [[2eb6\|2eb6]]~~</~~div~~><~~/td~~></tr>		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=OXL:OXALATE+ION'>OXL</scene>, <scene name='pdbligand=SCN:THIOCYANATE+ION'>SCN</scene></td></tr>
	<~~tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></~~td><td class="sblockDat"~~>~~HPCG ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])~~</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=2eb5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2eb5 OCA], [https://pdbe.org/2eb5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2eb5 RCSB], [https://www.ebi.ac.uk/pdbsum/2eb5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2eb5 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=2eb5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2eb5 OCA], [https://pdbe.org/2eb5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2eb5 RCSB], [https://www.ebi.ac.uk/pdbsum/2eb5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2eb5 ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[https://www.uniprot.org/uniprot/Q46982_ECOLX Q46982_ECOLX]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</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=2eb5 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=2eb5 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	~~<div style="background-color:#fffaf0;">~~
	~~== Publication Abstract from PubMed ==~~
	HpcG catalyses the hydration of a carbon-carbon double bond without the aid of any cofactor other than a simple divalent metal ion such as Mg(2+). Since the substrate has a nearby carbonyl group, it is believed that it first isomerises to form a pair of conjugated double bonds in the enol tautomer before Michael addition of water. Previous chemical studies of the reaction, and that of the related enzyme MhpD, have failed to provide a clear picture of the mechanism. The substrate itself is unstable, preventing co-crystallisation or soaking of crystals, but oxalate is a strong competitive inhibitor. We have solved the crystal structure of the protein in the apo form, and with magnesium and oxalate bound. Modelling substrate into the active site suggests the attacking water molecule is not part of the metal coordination shell, in contrast to a previous proposal. Our model suggests that geometrically strained cis isomer intermediates do not lie on the reaction pathway, and that separate groups are involved in the isomerisation and hydration steps.

	Structure and mechanism of HpcG, a hydratase in the homoprotocatechuate degradation pathway of Escherichia coli.,Izumi A, Rea D, Adachi T, Unzai S, Park SY, Roper DI, Tame JR J Mol Biol. 2007 Jul 27;370(5):899-911. Epub 2007 May 10. PMID:17559873<ref>PMID:17559873</ref>

	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 2eb5" style="background-color:#fffaf0;"></div>~~
	~~== References ==~~
	~~<references/>~~
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Bacillus~~ coli ~~migula 1895~~]]		[[Category: Escherichia coli]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Adachi, T]]		[[Category: Adachi T]]
	[[Category: Izumi, A]]		[[Category: Izumi A]]
	[[Category: Park~~, S Y~~]]		[[Category: Park SY]]
	[[Category: Rea, D]]		[[Category: Rea D]]
	[[Category: Roper~~, D I~~]]		[[Category: Roper DI]]
	[[Category: Tame~~, J R.H~~]]		[[Category: Tame JRH]]
	[[Category: Unzai, S]]		[[Category: Unzai S]]
	~~[[Category: Hydratase]]~~
	~~[[Category: Lyase~~]]

OCA at 11:55, 10 February 2021

2021-02-10T11:55:46Z

← Older revision		Revision as of 11:55, 10 February 2021
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	==Crystal structure of HpcG complexed with oxalate==		==Crystal structure of HpcG complexed with oxalate==
	<StructureSection load='2eb5' size='340' side='right' caption='[[2eb5]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='2eb5' size='340' side='right'caption='[[2eb5]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2eb5]] is a 5 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EB5 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2EB5 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2eb5]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EB5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2EB5 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=OXL:OXALATE+ION'>OXL</scene>, <scene name='pdbligand=SCN:THIOCYANATE+ION'>SCN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=OXL:OXALATE+ION'>OXL</scene>, <scene name='pdbligand=SCN:THIOCYANATE+ION'>SCN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2eb4\|2eb4]], [[2eb6\|2eb6]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2eb4\|2eb4]], [[2eb6\|2eb6]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HPCG ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HPCG ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=2eb5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2eb5 OCA], [~~http~~://pdbe.org/2eb5 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2eb5 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2eb5 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2eb5 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=2eb5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2eb5 OCA], [https://pdbe.org/2eb5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2eb5 RCSB], [https://www.ebi.ac.uk/pdbsum/2eb5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2eb5 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	</StructureSection>		</StructureSection>
	[[Category: Bacillus coli migula 1895]]		[[Category: Bacillus coli migula 1895]]
			[[Category: Large Structures]]
	[[Category: Adachi, T]]		[[Category: Adachi, T]]
	[[Category: Izumi, A]]		[[Category: Izumi, A]]

OCA at 07:02, 6 June 2018

2018-06-06T07:02:26Z

← Older revision		Revision as of 07:02, 6 June 2018
Line 1:		Line 1:

	==Crystal structure of HpcG complexed with oxalate==		==Crystal structure of HpcG complexed with oxalate==
	<StructureSection load='2eb5' size='340' side='right' caption='[[2eb5]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='2eb5' size='340' side='right' caption='[[2eb5]], [[Resolution\|resolution]] 1.70Å' scene=''>
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	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2eb4\|2eb4]], [[2eb6\|2eb6]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2eb4\|2eb4]], [[2eb6\|2eb6]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HPCG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HPCG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=2eb5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2eb5 OCA], [http://pdbe.org/2eb5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2eb5 RCSB], [http://www.ebi.ac.uk/pdbsum/2eb5 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=2eb5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2eb5 OCA], [http://pdbe.org/2eb5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2eb5 RCSB], [http://www.ebi.ac.uk/pdbsum/2eb5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2eb5 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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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/eb/2eb5_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/eb/2eb5_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 13:33, 8 February 2016

2016-02-08T13:33:40Z

← Older revision		Revision as of 13:33, 8 February 2016
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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=2eb5 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 12:03, 10 September 2015

2015-09-10T12:03:49Z

← Older revision		Revision as of 12:03, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='2eb5' size='340' side='right' caption='[[2eb5]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='2eb5' size='340' side='right' caption='[[2eb5]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2eb5]] is a 5 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=2EB5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2EB5 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2eb5]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EB5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2EB5 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=OXL:OXALATE+ION'>OXL</scene>, <scene name='pdbligand=SCN:THIOCYANATE+ION'>SCN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=OXL:OXALATE+ION'>OXL</scene>, <scene name='pdbligand=SCN:THIOCYANATE+ION'>SCN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2eb4\|2eb4]], [[2eb6\|2eb6]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2eb4\|2eb4]], [[2eb6\|2eb6]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HPCG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 ~~Escherichia~~ coli])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HPCG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</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=2eb5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2eb5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2eb5 RCSB], [http://www.ebi.ac.uk/pdbsum/2eb5 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=2eb5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2eb5 OCA], [http://pdbe.org/2eb5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2eb5 RCSB], [http://www.ebi.ac.uk/pdbsum/2eb5 PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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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 2eb5" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Escherichia~~ coli]]		[[Category: Bacillus coli migula 1895]]
	[[Category: Adachi, T]]		[[Category: Adachi, T]]
	[[Category: Izumi, A]]		[[Category: Izumi, A]]

OCA at 16:55, 15 January 2015

2015-01-15T16:55:02Z

← Older revision		Revision as of 16:55, 15 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2eb5]] is a 5 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=2EB5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2EB5 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2eb5]] is a 5 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=2EB5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2EB5 FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=OXL:OXALATE+ION'>OXL</scene>, <scene name='pdbligand=SCN:THIOCYANATE+ION'>SCN</scene><br>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=OXL:OXALATE+ION'>OXL</scene>, <scene name='pdbligand=SCN:THIOCYANATE+ION'>SCN</scene></td></tr>
	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2eb4\|2eb4]], [[2eb6\|2eb6]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2eb4\|2eb4]], [[2eb6\|2eb6]]</td></tr>
	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HPCG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HPCG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</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=2eb5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2eb5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2eb5 RCSB], [http://www.ebi.ac.uk/pdbsum/2eb5 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=2eb5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2eb5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2eb5 RCSB], [http://www.ebi.ac.uk/pdbsum/2eb5 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 31:		Line 31:
	</StructureSection>		</StructureSection>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Adachi, T.]]		[[Category: Adachi, T]]
	[[Category: Izumi, A.]]		[[Category: Izumi, A]]
	[[Category: Park, S Y.]]		[[Category: Park, S Y]]
	[[Category: Rea, D.]]		[[Category: Rea, D]]
	[[Category: Roper, D I.]]		[[Category: Roper, D I]]
	[[Category: Tame, J R.H.]]		[[Category: Tame, J R.H]]
	[[Category: Unzai, S.]]		[[Category: Unzai, S]]
	[[Category: Hydratase]]		[[Category: Hydratase]]
	[[Category: Lyase]]		[[Category: Lyase]]

OCA at 02:02, 30 September 2014

2014-09-30T02:02:03Z

← Older revision		Revision as of 02:02, 30 September 2014
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	[[Image:~~2eb5~~.~~png~~\|~~left~~\|~~200px~~]]		==Crystal structure of HpcG complexed with oxalate==
			<StructureSection load='2eb5' size='340' side='right' caption='[[2eb5]], [[Resolution\|resolution]] 1.70Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[2eb5]] is a 5 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=2EB5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2EB5 FirstGlance]. <br>
			</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=OXL:OXALATE+ION'>OXL</scene>, <scene name='pdbligand=SCN:THIOCYANATE+ION'>SCN</scene><br>
			<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2eb4\|2eb4]], [[2eb6\|2eb6]]</td></tr>
			<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">HPCG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</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=2eb5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2eb5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2eb5 RCSB], [http://www.ebi.ac.uk/pdbsum/2eb5 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/eb/2eb5_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 ==
			HpcG catalyses the hydration of a carbon-carbon double bond without the aid of any cofactor other than a simple divalent metal ion such as Mg(2+). Since the substrate has a nearby carbonyl group, it is believed that it first isomerises to form a pair of conjugated double bonds in the enol tautomer before Michael addition of water. Previous chemical studies of the reaction, and that of the related enzyme MhpD, have failed to provide a clear picture of the mechanism. The substrate itself is unstable, preventing co-crystallisation or soaking of crystals, but oxalate is a strong competitive inhibitor. We have solved the crystal structure of the protein in the apo form, and with magnesium and oxalate bound. Modelling substrate into the active site suggests the attacking water molecule is not part of the metal coordination shell, in contrast to a previous proposal. Our model suggests that geometrically strained cis isomer intermediates do not lie on the reaction pathway, and that separate groups are involved in the isomerisation and hydration steps.

	~~{{STRUCTURE_2eb5\| PDB=2eb5 \| SCENE= }}~~		Structure and mechanism of HpcG, a hydratase in the homoprotocatechuate degradation pathway of Escherichia coli.,Izumi A, Rea D, Adachi T, Unzai S, Park SY, Roper DI, Tame JR J Mol Biol. 2007 Jul 27;370(5):899-911. Epub 2007 May 10. PMID:17559873<ref>PMID:17559873</ref>

	~~===Crystal structure~~ of ~~HpcG complexed with oxalate===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_17559873}}~~		== References ==
			<references/>
	~~==About this Structure==~~		__TOC__
	~~[[2eb5]] is a 5 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=2EB5 OCA].~~		</StructureSection>

	==~~Reference~~==
	<~~ref group="xtra">PMID:017559873<~~/~~ref~~><~~references group="xtra"~~/>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Adachi, T.]]		[[Category: Adachi, T.]]

OCA: Protected "2eb5" [edit=sysop:move=sysop]

2013-01-06T11:15:36Z

Protected "2eb5" [edit=sysop:move=sysop]

← Older revision	Revision as of 11:15, 6 January 2013
(No difference)

OCA at 11:15, 6 January 2013

2013-01-06T11:15:34Z

← Older revision		Revision as of 11:15, 6 January 2013
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	~~{{Seed}}~~
	[[Image:2eb5.png\|left\|200px]]		[[Image:2eb5.png\|left\|200px]]

	~~<!--~~
	~~The line below this paragraph, containing "STRUCTURE_2eb5", 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_2eb5\| PDB=2eb5 \| SCENE= }}		{{STRUCTURE_2eb5\| PDB=2eb5 \| SCENE= }}

	===Crystal structure of HpcG complexed with oxalate===		===Crystal structure of HpcG complexed with oxalate===


	~~<!--~~
	~~The line below this paragraph, {{ABSTRACT_PUBMED_17559873}}, adds the Publication Abstract to the page~~
	~~(as it appears on PubMed at http://www.pubmed.gov), where 17559873 is the PubMed ID number.~~
	~~-->~~
	{{ABSTRACT_PUBMED_17559873}}		{{ABSTRACT_PUBMED_17559873}}

	==About this Structure==		==About this Structure==
	~~2EB5~~ is a 5 ~~chains~~ structure ~~of sequences~~ 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=2EB5 OCA].		[[2eb5]] is a 5 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=2EB5 OCA].

	==Reference==		==Reference==
	<ref group="xtra">PMID:~~17559873~~</ref><references group="xtra"/>		<ref group="xtra">PMID:017559873</ref><references group="xtra"/>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Adachi, T.]]		[[Category: Adachi, T.]]
Line 34:		Line 22:
	[[Category: Hydratase]]		[[Category: Hydratase]]
	[[Category: Lyase]]		[[Category: Lyase]]

	~~''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 22:38:13 2009''~~

OCA at 20:38, 16 February 2009

2009-02-16T20:38:33Z

← Older revision		Revision as of 20:38, 16 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
	2EB5 is a ~~[[Single protein]]~~ structure of ~~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=2EB5 OCA].		2EB5 is a 5 chains structure of sequences 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=2EB5 OCA].

	==Reference==		==Reference==
	Structure and mechanism of HpcG, a hydratase in the homoprotocatechuate degradation pathway of Escherichia coli., Izumi A, Rea D, Adachi T, Unzai S, Park SY, Roper DI, Tame JR, J Mol Biol. 2007 Jul 27;370(5):899-911. Epub 2007 May 10. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/17559873 17559873]~~		<ref group="xtra">PMID:17559873</ref><references group="xtra"/>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	~~[[Category: Single protein]]~~
	[[Category: Adachi, T.]]		[[Category: Adachi, T.]]
	[[Category: Izumi, A.]]		[[Category: Izumi, A.]]
Line 36:		Line 35:
	[[Category: Lyase]]		[[Category: Lyase]]

	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon ~~Jul 28 03~~:30:~~44 2008~~''		''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 22:38:13 2009''