1gyy - Revision history

OCA at 11:25, 27 March 2024

OCA — Wed, 27 Mar 2024 11:25:50 GMT

←Older revision		Revision as of 11:25, 27 March 2024
Line 3:		Line 3:
	<StructureSection load='1gyy' size='340' side='right'caption='[[1gyy]], [[Resolution\|resolution]] 1.35Å' scene=''>		<StructureSection load='1gyy' size='340' side='right'caption='[[1gyy]], [[Resolution\|resolution]] 1.35Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1gyy]] is a 2 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=1GYY OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1GYY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1gyy]] is a 2 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=1GYY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1GYY FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=FHC:2~~-~~FLUORO-3-(4-HYDROXYPHENYL)-2E-PROPENEOATE'>FHC</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]] 1.35Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style='overflow: auto; max-height: 3em;'>[[1gyj\|1gyj]], [[1gyx\|1gyx]]</div></td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FHC:2-FLUORO-3-(4-HYDROXYPHENYL)-2E-PROPENEOATE'>FHC</scene></td></tr>
-	~~<tr~~ id~~='activity'><td class~~="~~sblockLbl~~"><~~b>Activity:</b></td><td class~~=~~"sblockDat"><span class~~=~~'plainlinks'>[http~~:~~//en.wikipedia.org/wiki/Phenylpyruvate_tautomerase Phenylpyruvate tautomerase], with EC number [http://www.brenda~~-~~enzymes.info/php/result_flat.php4?ecno=5.~~3~~.2.1 5.3.2.1]~~ </~~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=1gyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gyy OCA], [https://pdbe.org/1gyy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1gyy RCSB], [https://www.ebi.ac.uk/pdbsum/1gyy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1gyy ProSAT]</span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=1gyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gyy OCA], [~~http~~://pdbe.org/1gyy PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1gyy RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1gyy PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1gyy ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/PPTA_ECOLI PPTA_ECOLI]] Can use enol isomers of phenylpyruvate, 2-hydroxy-2,4-pentadienoate and (p-hydroxyphenyl)pyruvate as substrates.<ref>PMID:12356301</ref>	+	[https://www.uniprot.org/uniprot/PPTA_ECOLI PPTA_ECOLI] Can use enol isomers of phenylpyruvate, 2-hydroxy-2,4-pentadienoate and (p-hydroxyphenyl)pyruvate as substrates.<ref>PMID:12356301</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 21:		Line 20:
	</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=1gyy 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=1gyy ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The tautomerase superfamily consists of three major families represented by 4-oxalocrotonate tautomerase (4-OT), 5-(carboxymethyl)-2-hydroxymuconate isomerase (CHMI), and macrophage migration inhibitory factor (MIF). The members of this superfamily are structurally homologous proteins constructed from a simple beta-alpha-beta fold that share a key mechanistic feature; they use an amino-terminal proline, which has an unusually low pK(a), as the general base in a keto-enol tautomerization. Several new members of the 4-OT family have now been identified using PSI-BLAST and categorized into five subfamilies on the basis of multiple-sequence alignments and the conservation of key catalytic and structural residues. The members of subfamily 5, which includes a hypothetical protein designated YdcE from Escherichia coli, are predicted not to form hexamers. The crystal structure of YdcE has been determined to 1.35 A resolution and confirms that it is a dimer. In addition, YdcE complexed with (E)-2-fluoro-p-hydroxycinnamate, identified as a potent competitive inhibitor of this enzyme, as well as N-(2-hydroxyethyl)piperazine-N'-2-ethanesulfonic acid (HEPES) and benzoate are also presented. These latter crystal structures reveal the location of the active site and suggest a mechanism for the observed YdcE-catalyzed tautomerization reaction. The dimeric arrangement of YdcE represents a new structure in the 4-OT family and demonstrates structural diversity within the 4-OT family not previously reported.
-
-	The crystal structure of YdcE, a 4-oxalocrotonate tautomerase homologue from Escherichia coli, confirms the structural basis for oligomer diversity.,Almrud JJ, Kern AD, Wang SC, Czerwinski RM, Johnson WH Jr, Murzin AG, Hackert ML, Whitman CP Biochemistry. 2002 Oct 8;41(40):12010-24. PMID:12356301<ref>PMID:12356301</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1gyy" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus~~ coli ~~migula 1895~~]]	+	[[Category: Escherichia coli]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Phenylpyruvate tautomerase]]~~	+	[[Category: Almrud J]]
-	[[Category: Almrud, J]]	+	[[Category: Czerwinski R]]
-	[[Category: Czerwinski, R]]	+	[[Category: Hackert M]]
-	[[Category: Hackert, M]]	+	[[Category: Johnson W]]
-	[[Category: Johnson, W]]	+	[[Category: Kern A]]
-	[[Category: Kern, A]]	+	[[Category: Murzin A]]
-	[[Category: Murzin, A]]	+	[[Category: Wang S]]
-	[[Category: Wang, S]]	+	[[Category: Whitman C]]
-	[[Category: Whitman, C]]	+
-	~~[[Category: Complete prote]]~~	+
-	~~[[Category: Hypothetical protein]]~~	+
-	~~[[Category: Isomerase]]~~	+
-	~~[[Category: Tautomerase~~]]	+

OCA at 08:30, 2 December 2020

OCA — Wed, 02 Dec 2020 08:30:44 GMT

←Older revision		Revision as of 08:30, 2 December 2020
Line 1:		Line 1:

	==The Crystal Structure of YdcE, a 4-Oxalocrotonate Tautomerase Homologue from Escherichia coli, Confirms the Structural Basis for Oligomer Diversity==		==The Crystal Structure of YdcE, a 4-Oxalocrotonate Tautomerase Homologue from Escherichia coli, Confirms the Structural Basis for Oligomer Diversity==
-	<StructureSection load='1gyy' size='340' side='right' caption='[[1gyy]], [[Resolution\|resolution]] 1.35Å' scene=''>	+	<StructureSection load='1gyy' size='340' side='right'caption='[[1gyy]], [[Resolution\|resolution]] 1.35Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1gyy]] is a 2 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=1GYY OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1GYY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1gyy]] is a 2 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=1GYY OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1GYY FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FHC:2-FLUORO-3-(4-HYDROXYPHENYL)-2E-PROPENEOATE'>FHC</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FHC:2-FLUORO-3-(4-HYDROXYPHENYL)-2E-PROPENEOATE'>FHC</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1gyj\|1gyj]], [[1gyx\|1gyx]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1gyj\|1gyj]], [[1gyx\|1gyx]]</div></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phenylpyruvate_tautomerase Phenylpyruvate tautomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.2.1 5.3.2.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phenylpyruvate_tautomerase Phenylpyruvate tautomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.2.1 5.3.2.1] </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=1gyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gyy OCA], [http://pdbe.org/1gyy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1gyy RCSB], [http://www.ebi.ac.uk/pdbsum/1gyy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1gyy ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=1gyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gyy OCA], [http://pdbe.org/1gyy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1gyy RCSB], [http://www.ebi.ac.uk/pdbsum/1gyy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1gyy ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 35:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Bacillus coli migula 1895]]		[[Category: Bacillus coli migula 1895]]
		+	[[Category: Large Structures]]
	[[Category: Phenylpyruvate tautomerase]]		[[Category: Phenylpyruvate tautomerase]]
	[[Category: Almrud, J]]		[[Category: Almrud, J]]

OCA at 06:42, 3 January 2018

OCA — Wed, 03 Jan 2018 06:42:30 GMT

←Older revision		Revision as of 06:42, 3 January 2018
Line 1:		Line 1:
-	==~~THE CRYSTAL STRUCTURE OF YDCE~~, A 4-~~OXALOCROTONATE TAUTOMERASE HOMOLOGUE FROM ESCHERICHIA COLI~~, ~~CONFIRMS THE STRUCTURAL BASIS FOR OLIGOMER DIVERSITY~~==	+
		+	==The Crystal Structure of YdcE, a 4-Oxalocrotonate Tautomerase Homologue from Escherichia coli, Confirms the Structural Basis for Oligomer Diversity==
	<StructureSection load='1gyy' size='340' side='right' caption='[[1gyy]], [[Resolution\|resolution]] 1.35Å' scene=''>		<StructureSection load='1gyy' size='340' side='right' caption='[[1gyy]], [[Resolution\|resolution]] 1.35Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1gyj\|1gyj]], [[1gyx\|1gyx]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1gyj\|1gyj]], [[1gyx\|1gyx]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phenylpyruvate_tautomerase Phenylpyruvate tautomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.2.1 5.3.2.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phenylpyruvate_tautomerase Phenylpyruvate tautomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.2.1 5.3.2.1] </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=1gyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gyy OCA], [http://pdbe.org/1gyy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1gyy RCSB], [http://www.ebi.ac.uk/pdbsum/1gyy 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=1gyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gyy OCA], [http://pdbe.org/1gyy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1gyy RCSB], [http://www.ebi.ac.uk/pdbsum/1gyy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1gyy ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 14:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/gy/1gyy_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/gy/1gyy_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 22:38, 9 February 2016

OCA — Tue, 09 Feb 2016 22:38:53 GMT

←Older revision		Revision as of 22:38, 9 February 2016
Line 18:		Line 18:
	<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=1gyy ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 02:44, 11 September 2015

OCA — Fri, 11 Sep 2015 02:44:14 GMT

←Older revision		Revision as of 02:44, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1gyy' size='340' side='right' caption='[[1gyy]], [[Resolution\|resolution]] 1.35Å' scene=''>		<StructureSection load='1gyy' size='340' side='right' caption='[[1gyy]], [[Resolution\|resolution]] 1.35Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1gyy]] is a 2 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=1GYY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1GYY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1gyy]] is a 2 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=1GYY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1GYY FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FHC:2-FLUORO-3-(4-HYDROXYPHENYL)-2E-PROPENEOATE'>FHC</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FHC:2-FLUORO-3-(4-HYDROXYPHENYL)-2E-PROPENEOATE'>FHC</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1gyj\|1gyj]], [[1gyx\|1gyx]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1gyj\|1gyj]], [[1gyx\|1gyx]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phenylpyruvate_tautomerase Phenylpyruvate tautomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.2.1 5.3.2.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phenylpyruvate_tautomerase Phenylpyruvate tautomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.2.1 5.3.2.1] </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=1gyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gyy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1gyy RCSB], [http://www.ebi.ac.uk/pdbsum/1gyy 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=1gyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gyy OCA], [http://pdbe.org/1gyy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1gyy RCSB], [http://www.ebi.ac.uk/pdbsum/1gyy PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/~~YDCE_ECOLI YDCE_ECOLI~~]] Can use enol isomers of phenylpyruvate, 2-hydroxy-2,4-pentadienoate and (p-hydroxyphenyl)pyruvate as substrates.<ref>PMID:12356301</ref>	+	[[http://www.uniprot.org/uniprot/PPTA_ECOLI PPTA_ECOLI]] Can use enol isomers of phenylpyruvate, 2-hydroxy-2,4-pentadienoate and (p-hydroxyphenyl)pyruvate as substrates.<ref>PMID:12356301</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 28:		Line 28:
	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 1gyy" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Escherichia~~ coli]]	+	[[Category: Bacillus coli migula 1895]]
	[[Category: Phenylpyruvate tautomerase]]		[[Category: Phenylpyruvate tautomerase]]
	[[Category: Almrud, J]]		[[Category: Almrud, J]]

OCA at 10:01, 25 December 2014

OCA — Thu, 25 Dec 2014 10:01:44 GMT

←Older revision		Revision as of 10:01, 25 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=1gyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gyy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1gyy RCSB], [http://www.ebi.ac.uk/pdbsum/1gyy 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=1gyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gyy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1gyy RCSB], [http://www.ebi.ac.uk/pdbsum/1gyy PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/YDCE_ECOLI YDCE_ECOLI]] Can use enol isomers of phenylpyruvate, 2-hydroxy-2,4-pentadienoate and (p-hydroxyphenyl)pyruvate as substrates.<ref>PMID:12356301</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 23:07, 22 December 2014

OCA — Mon, 22 Dec 2014 23:07:08 GMT

←Older revision		Revision as of 23:07, 22 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1gyy]] is a 2 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=1GYY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1GYY FirstGlance]. <br>		<table><tr><td colspan='2'>[[1gyy]] is a 2 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=1GYY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1GYY FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FHC:2-FLUORO-3-(4-HYDROXYPHENYL)-2E-PROPENEOATE'>FHC</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FHC:2-FLUORO-3-(4-HYDROXYPHENYL)-2E-PROPENEOATE'>FHC</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1gyj\|1gyj]], [[1gyx\|1gyx]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1gyj\|1gyj]], [[1gyx\|1gyx]]</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phenylpyruvate_tautomerase Phenylpyruvate tautomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.2.1 5.3.2.1] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phenylpyruvate_tautomerase Phenylpyruvate tautomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.2.1 5.3.2.1] </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=1gyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gyy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1gyy RCSB], [http://www.ebi.ac.uk/pdbsum/1gyy 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=1gyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gyy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1gyy RCSB], [http://www.ebi.ac.uk/pdbsum/1gyy 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 32:		Line 32:
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Phenylpyruvate tautomerase]]		[[Category: Phenylpyruvate tautomerase]]
-	[[Category: Almrud, J.]]	+	[[Category: Almrud, J]]
-	[[Category: Czerwinski, R.]]	+	[[Category: Czerwinski, R]]
-	[[Category: Hackert, M.]]	+	[[Category: Hackert, M]]
-	[[Category: Johnson, W.]]	+	[[Category: Johnson, W]]
-	[[Category: Kern, A.]]	+	[[Category: Kern, A]]
-	[[Category: Murzin, A.]]	+	[[Category: Murzin, A]]
-	[[Category: Wang, S.]]	+	[[Category: Wang, S]]
-	[[Category: Whitman, C.]]	+	[[Category: Whitman, C]]
	[[Category: Complete prote]]		[[Category: Complete prote]]
	[[Category: Hypothetical protein]]		[[Category: Hypothetical protein]]
	[[Category: Isomerase]]		[[Category: Isomerase]]
	[[Category: Tautomerase]]		[[Category: Tautomerase]]

OCA at 12:51, 28 September 2014

OCA — Sun, 28 Sep 2014 12:51:24 GMT

←Older revision		Revision as of 12:51, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1gyy.~~png~~\|~~left~~\|200px]]	+	==THE CRYSTAL STRUCTURE OF YDCE, A 4-OXALOCROTONATE TAUTOMERASE HOMOLOGUE FROM ESCHERICHIA COLI, CONFIRMS THE STRUCTURAL BASIS FOR OLIGOMER DIVERSITY==
		+	<StructureSection load='1gyy' size='340' side='right' caption='[[1gyy]], [[Resolution\|resolution]] 1.35Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1gyy]] is a 2 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=1GYY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1GYY FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FHC:2-FLUORO-3-(4-HYDROXYPHENYL)-2E-PROPENEOATE'>FHC</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1gyj\|1gyj]], [[1gyx\|1gyx]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phenylpyruvate_tautomerase Phenylpyruvate tautomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.2.1 5.3.2.1] </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=1gyy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gyy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1gyy RCSB], [http://www.ebi.ac.uk/pdbsum/1gyy 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/gy/1gyy_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 tautomerase superfamily consists of three major families represented by 4-oxalocrotonate tautomerase (4-OT), 5-(carboxymethyl)-2-hydroxymuconate isomerase (CHMI), and macrophage migration inhibitory factor (MIF). The members of this superfamily are structurally homologous proteins constructed from a simple beta-alpha-beta fold that share a key mechanistic feature; they use an amino-terminal proline, which has an unusually low pK(a), as the general base in a keto-enol tautomerization. Several new members of the 4-OT family have now been identified using PSI-BLAST and categorized into five subfamilies on the basis of multiple-sequence alignments and the conservation of key catalytic and structural residues. The members of subfamily 5, which includes a hypothetical protein designated YdcE from Escherichia coli, are predicted not to form hexamers. The crystal structure of YdcE has been determined to 1.35 A resolution and confirms that it is a dimer. In addition, YdcE complexed with (E)-2-fluoro-p-hydroxycinnamate, identified as a potent competitive inhibitor of this enzyme, as well as N-(2-hydroxyethyl)piperazine-N'-2-ethanesulfonic acid (HEPES) and benzoate are also presented. These latter crystal structures reveal the location of the active site and suggest a mechanism for the observed YdcE-catalyzed tautomerization reaction. The dimeric arrangement of YdcE represents a new structure in the 4-OT family and demonstrates structural diversity within the 4-OT family not previously reported.

-	~~{{STRUCTURE_1gyy\| PDB=1gyy \| SCENE= }}~~	+	The crystal structure of YdcE, a 4-oxalocrotonate tautomerase homologue from Escherichia coli, confirms the structural basis for oligomer diversity.,Almrud JJ, Kern AD, Wang SC, Czerwinski RM, Johnson WH Jr, Murzin AG, Hackert ML, Whitman CP Biochemistry. 2002 Oct 8;41(40):12010-24. PMID:12356301<ref>PMID:12356301</ref>

-	~~===THE CRYSTAL STRUCTURE OF YDCE~~, ~~A 4-OXALOCROTONATE TAUTOMERASE HOMOLOGUE FROM ESCHERICHIA COLI, CONFIRMS THE STRUCTURAL BASIS FOR OLIGOMER DIVERSITY===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_12356301}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1gyy]] is~~ a ~~2 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=1GYY OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:012356301<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Phenylpyruvate tautomerase]]		[[Category: Phenylpyruvate tautomerase]]

OCA: Protected "1gyy" [edit=sysop:move=sysop]

OCA — Wed, 21 Nov 2012 16:10:06 GMT

Protected "1gyy" [edit=sysop:move=sysop]

←Older revision

Revision as of 16:10, 21 November 2012

OCA at 16:10, 21 November 2012

OCA — Wed, 21 Nov 2012 16:10:02 GMT

←Older revision		Revision as of 16:10, 21 November 2012
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-	{{Seed}}
	[[Image:1gyy.png\|left\|200px]]		[[Image:1gyy.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1gyy", 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_1gyy\| PDB=1gyy \| SCENE= }}		{{STRUCTURE_1gyy\| PDB=1gyy \| SCENE= }}

	===THE CRYSTAL STRUCTURE OF YDCE, A 4-OXALOCROTONATE TAUTOMERASE HOMOLOGUE FROM ESCHERICHIA COLI, CONFIRMS THE STRUCTURAL BASIS FOR OLIGOMER DIVERSITY===		===THE CRYSTAL STRUCTURE OF YDCE, A 4-OXALOCROTONATE TAUTOMERASE HOMOLOGUE FROM ESCHERICHIA COLI, CONFIRMS THE STRUCTURAL BASIS FOR OLIGOMER DIVERSITY===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_12356301}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 12356301 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_12356301}}		{{ABSTRACT_PUBMED_12356301}}

	==About this Structure==		==About this Structure==
-	~~1GYY~~ is a 2 ~~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=1GYY OCA].	+	[[1gyy]] is a 2 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=1GYY OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~12356301~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:012356301</ref><references group="xtra"/>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Phenylpyruvate tautomerase]]		[[Category: Phenylpyruvate tautomerase]]
Line 38:		Line 26:
	[[Category: Isomerase]]		[[Category: Isomerase]]
	[[Category: Tautomerase]]		[[Category: Tautomerase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 13:17:55 2009''