7tim - Revision history

OCA at 13:08, 1 March 2024

2024-03-01T13:08:42Z

← Older revision		Revision as of 13:08, 1 March 2024
Line 1:		Line 1:

	==STRUCTURE OF THE TRIOSEPHOSPHATE ISOMERASE-PHOSPHOGLYCOLOHYDROXAMATE COMPLEX: AN ANALOGUE OF THE INTERMEDIATE ON THE REACTION PATHWAY==		==STRUCTURE OF THE TRIOSEPHOSPHATE ISOMERASE-PHOSPHOGLYCOLOHYDROXAMATE COMPLEX: AN ANALOGUE OF THE INTERMEDIATE ON THE REACTION PATHWAY==
	<StructureSection load='7tim' size='340' side='right' caption='[[7tim]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='7tim' size='340' side='right'caption='[[7tim]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7tim]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Atcc_18824 Atcc 18824~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7TIM OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=7TIM FirstGlance]. <br>		<table><tr><td colspan='2'>[[7tim]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7TIM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7TIM FirstGlance]. <br>
	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=PGH:PHOSPHOGLYCOLOHYDROXAMIC+ACID'>PGH</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]] 1.9Å</td></tr>
	<tr id='~~activity~~'><td class="sblockLbl"><b>~~Activity~~:</b></td><td class="sblockDat"><~~span class~~='~~plainlinks~~'>~~[http://en.wikipedia.org/wiki/Triose-phosphate_isomerase Triose-phosphate isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.1 5.3.1.1]~~ </~~span~~></td></tr>		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PGH:PHOSPHOGLYCOLOHYDROXAMIC+ACID'>PGH</scene></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=7tim FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7tim OCA], [~~http~~://pdbe.org/7tim PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=7tim RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/7tim PDBsum]</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=7tim FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7tim OCA], [https://pdbe.org/7tim PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7tim RCSB], [https://www.ebi.ac.uk/pdbsum/7tim PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7tim ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[https://www.uniprot.org/uniprot/TPIS_YEAST TPIS_YEAST]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ti/7tim_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ti/7tim_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
Line 17:		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=7tim 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=7tim ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	~~<div style="background-color:#fffaf0;">~~
	~~== Publication Abstract from PubMed ==~~
	The glycolytic enzyme triosephosphate isomerase (TIM) catalyzes the interconversion of the three-carbon sugars dihydroxyacetone phosphate (DHAP) and D-glyceraldehyde 3-phosphate (GAP) at a rate limited by the diffusion of substrate to the enzyme. We have solved the three-dimensional structure of TIM complexed with a reactive intermediate analogue, phosphoglycolohydroxamate (PGH), at 1.9-A resolution and have refined the structure to an R-factor of 18%. Analysis of the refined structure reveals the geometry of the active-site residues and the interactions they make with the inhibitor and, by analogy, the substrates. The structure is consistent with an acid-base mechanism in which the carboxylate of Glu-165 abstracts a proton from carbon while His-95 donates a proton to oxygen to form an enediol (or enediolate) intermediate. The conformation of the bound substrate stereoelectronically favors proton transfer from substrate carbon to the syn orbital of Glu-165. The crystal structure suggests that His-95 is neutral rather than cationic in the ground state and therefore would have to function as an imidazole acid instead of the usual imidazolium. Lys-12 is oriented so as to polarize the substrate oxygens by hydrogen bonding and/or electrostatic interaction, providing stabilization for the charged transition state. Asn-10 may play a similar role.

	Structure of the triosephosphate isomerase-phosphoglycolohydroxamate complex: an analogue of the intermediate on the reaction pathway.,Davenport RC, Bash PA, Seaton BA, Karplus M, Petsko GA, Ringe D Biochemistry. 1991 Jun 18;30(24):5821-6. PMID:2043623<ref>PMID:2043623</ref>

	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 7tim" style="background-color:#fffaf0;"></div>~~

	==See Also==		==See Also==
	*[[Triose ~~Phosphate Isomerase~~\|Triose ~~Phosphate Isomerase~~]]		*[[Triose phosphate isomerase 3D structures\|Triose phosphate isomerase 3D structures]]
	~~== References ==~~
	~~<references/>~~
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Atcc 18824~~]]		[[Category: Large Structures]]
	[[Category: ~~Triose-phosphate isomerase~~]]		[[Category: Saccharomyces cerevisiae]]
	[[Category: Bash~~, P A~~]]		[[Category: Bash PA]]
	[[Category: Davenport~~, R C~~]]		[[Category: Davenport RC]]
	[[Category: Karplus, M]]		[[Category: Karplus M]]
	[[Category: Petsko~~, G A~~]]		[[Category: Petsko GA]]
	[[Category: Ringe, D]]		[[Category: Ringe D]]
	[[Category: Seaton~~, B A]]~~		[[Category: Seaton BA]]
	~~[[Category: Intramolecular oxidoreductase~~]]

OCA at 13:09, 9 February 2016

2016-02-09T13:09:34Z

← Older revision		Revision as of 13:09, 9 February 2016
Line 2:		Line 2:
	<StructureSection load='7tim' size='340' side='right' caption='[[7tim]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='7tim' size='340' side='right' caption='[[7tim]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7tim]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Saccharomyces_cerevisiae Saccharomyces cerevisiae~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7TIM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=7TIM FirstGlance]. <br>		<table><tr><td colspan='2'>[[7tim]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7TIM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=7TIM FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PGH:PHOSPHOGLYCOLOHYDROXAMIC+ACID'>PGH</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PGH:PHOSPHOGLYCOLOHYDROXAMIC+ACID'>PGH</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Triose-phosphate_isomerase Triose-phosphate isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.1 5.3.1.1] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Triose-phosphate_isomerase Triose-phosphate isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.1 5.3.1.1] </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=7tim FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7tim OCA], [http://www.rcsb.org/pdb/explore.do?structureId=7tim RCSB], [http://www.ebi.ac.uk/pdbsum/7tim 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=7tim FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7tim OCA], [http://pdbe.org/7tim PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=7tim RCSB], [http://www.ebi.ac.uk/pdbsum/7tim PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 15:		Line 15:
	<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=7tim ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 25:		Line 25:
	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 7tim" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 32:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Saccharomyces cerevisiae~~]]		[[Category: Atcc 18824]]
	[[Category: Triose-phosphate isomerase]]		[[Category: Triose-phosphate isomerase]]
	[[Category: Bash, P A]]		[[Category: Bash, P A]]

OCA at 08:30, 18 December 2014

2014-12-18T08:30:53Z

← Older revision		Revision as of 08:30, 18 December 2014
Line 1:		Line 1:
	~~{{STRUCTURE_7tim\| PDB=7tim \| SCENE= }}~~		==STRUCTURE OF THE TRIOSEPHOSPHATE ISOMERASE-PHOSPHOGLYCOLOHYDROXAMATE COMPLEX: AN ANALOGUE OF THE INTERMEDIATE ON THE REACTION PATHWAY==
	===STRUCTURE OF THE TRIOSEPHOSPHATE ISOMERASE-PHOSPHOGLYCOLOHYDROXAMATE COMPLEX: AN ANALOGUE OF THE INTERMEDIATE ON THE REACTION PATHWAY===		<StructureSection load='7tim' size='340' side='right' caption='[[7tim]], [[Resolution\|resolution]] 1.90Å' scene=''>
	~~{{ABSTRACT_PUBMED_2043623}}~~		== Structural highlights ==
			<table><tr><td colspan='2'>[[7tim]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7TIM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=7TIM FirstGlance]. <br>
			</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PGH:PHOSPHOGLYCOLOHYDROXAMIC+ACID'>PGH</scene></td></tr>
			<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Triose-phosphate_isomerase Triose-phosphate isomerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.1 5.3.1.1] </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=7tim FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7tim OCA], [http://www.rcsb.org/pdb/explore.do?structureId=7tim RCSB], [http://www.ebi.ac.uk/pdbsum/7tim 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/ti/7tim_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 glycolytic enzyme triosephosphate isomerase (TIM) catalyzes the interconversion of the three-carbon sugars dihydroxyacetone phosphate (DHAP) and D-glyceraldehyde 3-phosphate (GAP) at a rate limited by the diffusion of substrate to the enzyme. We have solved the three-dimensional structure of TIM complexed with a reactive intermediate analogue, phosphoglycolohydroxamate (PGH), at 1.9-A resolution and have refined the structure to an R-factor of 18%. Analysis of the refined structure reveals the geometry of the active-site residues and the interactions they make with the inhibitor and, by analogy, the substrates. The structure is consistent with an acid-base mechanism in which the carboxylate of Glu-165 abstracts a proton from carbon while His-95 donates a proton to oxygen to form an enediol (or enediolate) intermediate. The conformation of the bound substrate stereoelectronically favors proton transfer from substrate carbon to the syn orbital of Glu-165. The crystal structure suggests that His-95 is neutral rather than cationic in the ground state and therefore would have to function as an imidazole acid instead of the usual imidazolium. Lys-12 is oriented so as to polarize the substrate oxygens by hydrogen bonding and/or electrostatic interaction, providing stabilization for the charged transition state. Asn-10 may play a similar role.

	~~==About this~~ Structure==		Structure of the triosephosphate isomerase-phosphoglycolohydroxamate complex: an analogue of the intermediate on the reaction pathway.,Davenport RC, Bash PA, Seaton BA, Karplus M, Petsko GA, Ringe D Biochemistry. 1991 Jun 18;30(24):5821-6. PMID:2043623<ref>PMID:2043623</ref>
	~~[[7tim]] is a 2 chain structure with sequence from [http~~:~~//en~~.~~wikipedia~~.~~org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]~~. ~~Full crystallographic information is available from [http~~://~~oca~~.~~weizmann~~.ac.~~il/oca-bin~~/~~ocashort?id=7TIM OCA].~~
			From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>

	==See Also==		==See Also==
	*[[Triose Phosphate Isomerase\|Triose Phosphate Isomerase]]		*[[Triose Phosphate Isomerase\|Triose Phosphate Isomerase]]
			== References ==
	==~~Reference~~==		<references/>
	<~~ref group="xtra">PMID:002043623<~~/~~ref~~><~~ref group="xtra">PMID:017381236</ref><references group="xtra"~~/>		__TOC__
			</StructureSection>
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]
	[[Category: Triose-phosphate isomerase]]		[[Category: Triose-phosphate isomerase]]
	[[Category: Bash, P A.]]		[[Category: Bash, P A]]
	[[Category: Davenport, R C.]]		[[Category: Davenport, R C]]
	[[Category: Karplus, M.]]		[[Category: Karplus, M]]
	[[Category: Petsko, G A.]]		[[Category: Petsko, G A]]
	[[Category: Ringe, D.]]		[[Category: Ringe, D]]
	[[Category: Seaton, B A.]]		[[Category: Seaton, B A]]
	[[Category: Intramolecular oxidoreductase]]		[[Category: Intramolecular oxidoreductase]]

OCA at 09:18, 11 March 2013

2013-03-11T09:18:35Z

← Older revision		Revision as of 09:18, 11 March 2013
Line 1:		Line 1:
	~~[[Image:7tim.png\|left\|200px]]~~

	{{STRUCTURE_7tim\| PDB=7tim \| SCENE= }}		{{STRUCTURE_7tim\| PDB=7tim \| SCENE= }}

	===STRUCTURE OF THE TRIOSEPHOSPHATE ISOMERASE-PHOSPHOGLYCOLOHYDROXAMATE COMPLEX: AN ANALOGUE OF THE INTERMEDIATE ON THE REACTION PATHWAY===		===STRUCTURE OF THE TRIOSEPHOSPHATE ISOMERASE-PHOSPHOGLYCOLOHYDROXAMATE COMPLEX: AN ANALOGUE OF THE INTERMEDIATE ON THE REACTION PATHWAY===

	{{ABSTRACT_PUBMED_2043623}}		{{ABSTRACT_PUBMED_2043623}}

OCA at 13:57, 20 October 2012

2012-10-20T13:57:18Z

← Older revision		Revision as of 13:57, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
	[[7tim]] is a 2 chain structure ~~of [[Triose Phosphate Isomerase]]~~ with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7TIM OCA].		[[7tim]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7TIM OCA].

	==See Also==		==See Also==
Line 14:		Line 14:

	==Reference==		==Reference==
	<ref group="xtra">PMID:002043623~~</ref><ref group="xtra">PMID:014636602~~</ref><ref group="xtra">PMID:017381236</ref><references group="xtra"/>		<ref group="xtra">PMID:002043623</ref><ref group="xtra">PMID:017381236</ref><references group="xtra"/>
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]
	[[Category: Triose-phosphate isomerase]]		[[Category: Triose-phosphate isomerase]]

OCA at 02:45, 29 August 2012

2012-08-29T02:45:51Z

← Older revision		Revision as of 02:45, 29 August 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
	[[7tim]] is a 2 chain structure of ~~[[TIM test]] and~~ [[Triose Phosphate Isomerase]] with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7TIM OCA].		[[7tim]] is a 2 chain structure of [[Triose Phosphate Isomerase]] with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7TIM OCA].

	==See Also==		==See Also==
	*[[TIM test\|TIM test]]
	*[[Triose Phosphate Isomerase\|Triose Phosphate Isomerase]]		*[[Triose Phosphate Isomerase\|Triose Phosphate Isomerase]]

OCA: Protected "7tim" [edit=sysop:move=sysop]

2012-07-26T13:36:42Z

Protected "7tim" [edit=sysop:move=sysop]

← Older revision	Revision as of 13:36, 26 July 2012
(No difference)

OCA at 13:36, 26 July 2012

2012-07-26T13:36:40Z

← Older revision		Revision as of 13:36, 26 July 2012
Line 1:		Line 1:
	~~{{Seed}}~~
	[[Image:7tim.png\|left\|200px]]		[[Image:7tim.png\|left\|200px]]

	~~<!--~~
	~~The line below this paragraph, containing "STRUCTURE_7tim", 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_7tim\| PDB=7tim \| SCENE= }}		{{STRUCTURE_7tim\| PDB=7tim \| SCENE= }}

	===STRUCTURE OF THE TRIOSEPHOSPHATE ISOMERASE-PHOSPHOGLYCOLOHYDROXAMATE COMPLEX: AN ANALOGUE OF THE INTERMEDIATE ON THE REACTION PATHWAY===		===STRUCTURE OF THE TRIOSEPHOSPHATE ISOMERASE-PHOSPHOGLYCOLOHYDROXAMATE COMPLEX: AN ANALOGUE OF THE INTERMEDIATE ON THE REACTION PATHWAY===


	~~<!--~~
	~~The line below this paragraph, {{ABSTRACT_PUBMED_2043623}}, adds the Publication Abstract to the page~~
	~~(as it appears on PubMed at http://www.pubmed.gov), where 2043623 is the PubMed ID number.~~
	~~-->~~
	{{ABSTRACT_PUBMED_2043623}}		{{ABSTRACT_PUBMED_2043623}}

	==About this Structure==		==About this Structure==
	~~7TIM~~ is a 2 ~~chains~~ structure of ~~sequences~~ from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7TIM OCA].		[[7tim]] is a 2 chain structure of [[TIM test]] and [[Triose Phosphate Isomerase]] with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7TIM OCA].

			==See Also==
			*[[TIM test\|TIM test]]
			*[[Triose Phosphate Isomerase\|Triose Phosphate Isomerase]]

	==Reference==		==Reference==
	<ref group="xtra">PMID:~~2043623~~</ref><references group="xtra"/>		<ref group="xtra">PMID:002043623</ref><ref group="xtra">PMID:014636602</ref><ref group="xtra">PMID:017381236</ref><references group="xtra"/>
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]
	[[Category: Triose-phosphate isomerase]]		[[Category: Triose-phosphate isomerase]]
Line 33:		Line 25:
	[[Category: Seaton, B A.]]		[[Category: Seaton, B A.]]
	[[Category: Intramolecular oxidoreductase]]		[[Category: Intramolecular oxidoreductase]]

	~~''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 10:02:02 2009''~~

OCA at 08:02, 17 February 2009

2009-02-17T08:02:03Z

← Older revision		Revision as of 08:02, 17 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
	7TIM is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7TIM OCA].		7TIM is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7TIM OCA].

	==Reference==		==Reference==
	Structure of the triosephosphate isomerase-phosphoglycolohydroxamate complex: an analogue of the intermediate on the reaction pathway., Davenport RC, Bash PA, Seaton BA, Karplus M, Petsko GA, Ringe D, Biochemistry. 1991 Jun 18;30(24):5821-6. PMID:~~[http://www.ncbi.nlm.nih.gov~~/~~pubmed~~/~~2043623 2043623]~~		<ref group="xtra">PMID:2043623</ref><references group="xtra"/>
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]
	~~[[Category: Single protein]]~~
	[[Category: Triose-phosphate isomerase]]		[[Category: Triose-phosphate isomerase]]
	[[Category: Bash, P A.]]		[[Category: Bash, P A.]]
Line 35:		Line 34:
	[[Category: Intramolecular oxidoreductase]]		[[Category: Intramolecular oxidoreductase]]

	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Thu Jul 3 15~~:10:~~45 2008~~''		''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 10:02:02 2009''

OCA at 12:10, 3 July 2008

2008-07-03T12:10:48Z

← Older revision		Revision as of 12:10, 3 July 2008
Line 1:		Line 1:
	[[Image:7tim.~~gif~~\|left\|200px]]		{{Seed}}
			[[Image:7tim.png\|left\|200px]]

	<!--		<!--
Line 9:		Line 10:
	{{STRUCTURE_7tim\| PDB=7tim \| SCENE= }}		{{STRUCTURE_7tim\| PDB=7tim \| SCENE= }}

	~~'''~~STRUCTURE OF THE TRIOSEPHOSPHATE ISOMERASE-PHOSPHOGLYCOLOHYDROXAMATE COMPLEX: AN ANALOGUE OF THE INTERMEDIATE ON THE REACTION PATHWAY~~'''~~		===STRUCTURE OF THE TRIOSEPHOSPHATE ISOMERASE-PHOSPHOGLYCOLOHYDROXAMATE COMPLEX: AN ANALOGUE OF THE INTERMEDIATE ON THE REACTION PATHWAY===


	~~==Overview==~~		<!--
	The ~~glycolytic enzyme triosephosphate isomerase (TIM) catalyzes~~ the ~~interconversion of the three-carbon sugars dihydroxyacetone phosphate (DHAP) and D-glyceraldehyde 3-phosphate (GAP) at a rate limited by the diffusion of substrate~~ to the ~~enzyme. We have solved the three-dimensional structure of TIM complexed with a reactive intermediate analogue, phosphoglycolohydroxamate~~ (~~PGH),~~ at 1.~~9-A resolution and have refined the structure to an R-factor of 18%~~. ~~Analysis of the refined structure reveals the geometry of the active-site residues and the interactions they make with the inhibitor and~~, ~~by analogy, the substrates. The structure~~ is consistent with an acid-base mechanism in which the carboxylate of Glu-165 abstracts a proton from carbon while His-95 donates a proton to oxygen to form an enediol (or enediolate) intermediate. The conformation of the ~~bound substrate stereoelectronically favors proton transfer from substrate carbon to the syn orbital of Glu-165~~. ~~The crystal structure suggests that His~~-~~95 is neutral rather than cationic in the ground state and therefore would have to function as an imidazole acid instead of the usual imidazolium. Lys~~-~~12 is oriented so as to polarize the substrate oxygens by hydrogen bonding and/or electrostatic interaction, providing stabilization for the charged transition state. Asn-10 may play a similar role.~~		The line below this paragraph, {{ABSTRACT_PUBMED_2043623}}, adds the Publication Abstract to the page
			(as it appears on PubMed at http://www.pubmed.gov), where 2043623 is the PubMed ID number.
			-->
			{{ABSTRACT_PUBMED_2043623}}

	==About this Structure==		==About this Structure==
Line 30:		Line 34:
	[[Category: Seaton, B A.]]		[[Category: Seaton, B A.]]
	[[Category: Intramolecular oxidoreductase]]		[[Category: Intramolecular oxidoreductase]]
	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun May~~ ~~4 22~~:47:47 2008''
			''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Jul 3 15:10:45 2008''