9ldt - Revision history

OCA at 10:09, 27 September 2023

2023-09-27T10:09:49Z

←Older revision		Revision as of 10:09, 27 September 2023
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	==DESIGN AND SYNTHESIS OF NEW ENZYMES BASED ON THE LACTATE DEHYDROGENASE FRAMEWORK==		==DESIGN AND SYNTHESIS OF NEW ENZYMES BASED ON THE LACTATE DEHYDROGENASE FRAMEWORK==
-	<StructureSection load='9ldt' size='340' side='right' caption='[[9ldt]], [[Resolution\|resolution]] 2.00Å' scene=''>	+	<StructureSection load='9ldt' size='340' side='right'caption='[[9ldt]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[9ldt]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Pig Pig~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9LDT OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=9LDT FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[9ldt]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Sus_scrofa Sus scrofa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9LDT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=9LDT FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=NAD:NICOTINAMIDE~~-~~ADENINE-DINUCLEOTIDE'>NAD</scene>~~, ~~<scene name='pdbligand=OXM:OXAMIC+ACID'>OXM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 2Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene><~~/td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=OXM:OXAMIC+ACID'>OXM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<~~tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[http://en.wikipedia.org/wiki/L-lactate_dehydrogenase L-lactate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.27 1.1.1.27]~~ </~~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=9ldt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9ldt OCA], [https://pdbe.org/9ldt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=9ldt RCSB], [https://www.ebi.ac.uk/pdbsum/9ldt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=9ldt ProSAT]</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=9ldt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9ldt OCA], [~~http~~://pdbe.org/9ldt PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=9ldt RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/9ldt PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=9ldt ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/LDHA_PIG LDHA_PIG]
	== 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/ld/9ldt_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ld/9ldt_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 28:		Line 29:
	</div>		</div>
	<div class="pdbe-citations 9ldt" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 9ldt" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Lactate dehydrogenase 3D structures\|Lactate dehydrogenase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~L-lactate dehydrogenase~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Pig~~]]	+	[[Category: Sus scrofa]]
-	[[Category: Dunn~~, C R~~]]	+	[[Category: Dunn CR]]
-	[[Category: Holbrook~~, J J~~]]	+	[[Category: Holbrook JJ]]
-	[[Category: Muirhead, H]]	+	[[Category: Muirhead H]]

OCA at 07:47, 29 November 2017

2017-11-29T07:47:56Z

←Older revision		Revision as of 07:47, 29 November 2017
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		+
	==DESIGN AND SYNTHESIS OF NEW ENZYMES BASED ON THE LACTATE DEHYDROGENASE FRAMEWORK==		==DESIGN AND SYNTHESIS OF NEW ENZYMES BASED ON THE LACTATE DEHYDROGENASE FRAMEWORK==
	<StructureSection load='9ldt' size='340' side='right' caption='[[9ldt]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='9ldt' size='340' side='right' caption='[[9ldt]], [[Resolution\|resolution]] 2.00Å' scene=''>
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	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/L-lactate_dehydrogenase L-lactate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.27 1.1.1.27] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/L-lactate_dehydrogenase L-lactate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.27 1.1.1.27] </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=9ldt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9ldt OCA], [http://pdbe.org/9ldt PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=9ldt RCSB], [http://www.ebi.ac.uk/pdbsum/9ldt 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=9ldt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9ldt OCA], [http://pdbe.org/9ldt PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=9ldt RCSB], [http://www.ebi.ac.uk/pdbsum/9ldt PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=9ldt ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 27:		Line 28:
	</div>		</div>
	<div class="pdbe-citations 9ldt" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 9ldt" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Lactate Dehydrogenase\|Lactate Dehydrogenase]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 15:36, 7 February 2016

2016-02-07T15:36:26Z

←Older revision		Revision as of 15:36, 7 February 2016
Line 2:		Line 2:
	<StructureSection load='9ldt' size='340' side='right' caption='[[9ldt]], [[Resolution\|resolution]] 2.00Å' scene=''>		<StructureSection load='9ldt' size='340' side='right' caption='[[9ldt]], [[Resolution\|resolution]] 2.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[9ldt]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Sus_scrofa Sus scrofa~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9LDT OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=9LDT FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[9ldt]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Pig Pig]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9LDT OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=9LDT FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=OXM:OXAMIC+ACID'>OXM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=OXM:OXAMIC+ACID'>OXM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/L-lactate_dehydrogenase L-lactate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.27 1.1.1.27] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/L-lactate_dehydrogenase L-lactate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.27 1.1.1.27] </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=9ldt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9ldt OCA], [http://www.rcsb.org/pdb/explore.do?structureId=9ldt RCSB], [http://www.ebi.ac.uk/pdbsum/9ldt 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=9ldt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9ldt OCA], [http://pdbe.org/9ldt PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=9ldt RCSB], [http://www.ebi.ac.uk/pdbsum/9ldt PDBsum]</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=9ldt 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 9ldt" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 34:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: L-lactate dehydrogenase]]		[[Category: L-lactate dehydrogenase]]
-	[[Category: ~~Sus scrofa~~]]	+	[[Category: Pig]]
	[[Category: Dunn, C R]]		[[Category: Dunn, C R]]
	[[Category: Holbrook, J J]]		[[Category: Holbrook, J J]]
	[[Category: Muirhead, H]]		[[Category: Muirhead, H]]

OCA at 08:41, 18 December 2014

2014-12-18T08:41:30Z

←Older revision		Revision as of 08:41, 18 December 2014
Line 1:		Line 1:
-	[[~~Image:~~9ldt.~~png~~\|~~left~~\|200px]]	+	==DESIGN AND SYNTHESIS OF NEW ENZYMES BASED ON THE LACTATE DEHYDROGENASE FRAMEWORK==
		+	<StructureSection load='9ldt' size='340' side='right' caption='[[9ldt]], [[Resolution\|resolution]] 2.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[9ldt]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Sus_scrofa Sus scrofa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9LDT OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=9LDT FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=OXM:OXAMIC+ACID'>OXM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/L-lactate_dehydrogenase L-lactate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.27 1.1.1.27] </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=9ldt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9ldt OCA], [http://www.rcsb.org/pdb/explore.do?structureId=9ldt RCSB], [http://www.ebi.ac.uk/pdbsum/9ldt 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/ld/9ldt_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 ==
		+	Analysis of the mechanism and structure of lactate dehydrogenases is summarized in a map of the catalytic pathway. Chemical probes, single tryptophan residues inserted at specific sites and a crystal structure reveal slow movements of the protein framework that discriminate between closely related small substrates. Only small and correctly charged substrates allow the protein to engulf the substrate in an internal vacuole that is isolated from solvent protons, in which water is frozen and hydride transfer is rapid. The closed vacuole is very sensitive to the size and charge of the substrate and provides discrimination between small substrates that otherwise have too few functional groups to be distinguished at a solvated protein surface. This model was tested against its ability to successfully predict the design and synthesis of new enzymes such as L-hydroxyisocaproate dehydrogenase and fully active malate dehydrogenase. Solvent friction limits the rate of forming the vacuole and thus the maximum rate of catalysis.

-	~~{{STRUCTURE_9ldt\| PDB=9ldt \| SCENE= }}~~	+	Design and synthesis of new enzymes based on the lactate dehydrogenase framework.,Dunn CR, Wilks HM, Halsall DJ, Atkinson T, Clarke AR, Muirhead H, Holbrook JJ Philos Trans R Soc Lond B Biol Sci. 1991 May 29;332(1263):177-84. PMID:1678537<ref>PMID:1678537</ref>

-	~~===DESIGN AND SYNTHESIS OF NEW ENZYMES BASED ON THE LACTATE DEHYDROGENASE FRAMEWORK===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_1678537}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[9ldt]] is~~ a ~~2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Sus_scrofa Sus scrofa]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=9LDT OCA].~~	+

	==See Also==		==See Also==
	*[[Lactate Dehydrogenase\|Lactate Dehydrogenase]]		*[[Lactate Dehydrogenase\|Lactate Dehydrogenase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:001678537<~~/~~ref~~><~~ref group="xtra">PMID:012215419</ref><references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: L-lactate dehydrogenase]]		[[Category: L-lactate dehydrogenase]]
	[[Category: Sus scrofa]]		[[Category: Sus scrofa]]
-	[[Category: Dunn, C R.]]	+	[[Category: Dunn, C R]]
-	[[Category: Holbrook, J J.]]	+	[[Category: Holbrook, J J]]
-	[[Category: Muirhead, H.]]	+	[[Category: Muirhead, H]]

OCA at 07:05, 20 October 2012

2012-10-20T07:05:29Z

←Older revision		Revision as of 07:05, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[9ldt]] is a 2 chain structure ~~of [[Lactate Dehydrogenase]]~~ with sequence from [http://en.wikipedia.org/wiki/Sus_scrofa Sus scrofa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9LDT OCA].	+	[[9ldt]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Sus_scrofa Sus scrofa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9LDT OCA].

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

OCA: Protected "9ldt" [edit=sysop:move=sysop]

2012-07-25T15:14:35Z

Protected "9ldt" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:14, 25 July 2012

OCA at 15:14, 25 July 2012

2012-07-25T15:14:34Z

←Older revision		Revision as of 15:14, 25 July 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:9ldt.png\|left\|200px]]		[[Image:9ldt.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_9ldt", 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_9ldt\| PDB=9ldt \| SCENE= }}		{{STRUCTURE_9ldt\| PDB=9ldt \| SCENE= }}

	===DESIGN AND SYNTHESIS OF NEW ENZYMES BASED ON THE LACTATE DEHYDROGENASE FRAMEWORK===		===DESIGN AND SYNTHESIS OF NEW ENZYMES BASED ON THE LACTATE DEHYDROGENASE FRAMEWORK===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_1678537}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 1678537 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_1678537}}		{{ABSTRACT_PUBMED_1678537}}

	==About this Structure==		==About this Structure==
-	~~9LDT~~ is a 2 ~~chains~~ structure of ~~sequences~~ from [http://en.wikipedia.org/wiki/Sus_scrofa Sus scrofa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9LDT OCA].	+	[[9ldt]] is a 2 chain structure of [[Lactate Dehydrogenase]] with sequence from [http://en.wikipedia.org/wiki/Sus_scrofa Sus scrofa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9LDT OCA].
		+
		+	==See Also==
		+	*[[Lactate Dehydrogenase\|Lactate Dehydrogenase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~1678537~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:001678537</ref><ref group="xtra">PMID:012215419</ref><references group="xtra"/>
	[[Category: L-lactate dehydrogenase]]		[[Category: L-lactate dehydrogenase]]
	[[Category: Sus scrofa]]		[[Category: Sus scrofa]]
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	[[Category: Holbrook, J J.]]		[[Category: Holbrook, J J.]]
	[[Category: Muirhead, H.]]		[[Category: Muirhead, H.]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 14:49:21 2009''

OCA at 12:49, 16 February 2009

2009-02-16T12:49:23Z

←Older revision		Revision as of 12:49, 16 February 2009
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	==About this Structure==		==About this Structure==
-	9LDT is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Sus_scrofa Sus scrofa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9LDT OCA].	+	9LDT is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Sus_scrofa Sus scrofa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9LDT OCA].

	==Reference==		==Reference==
-	Design and synthesis of new enzymes based on the lactate dehydrogenase framework., Dunn CR, Wilks HM, Halsall DJ, Atkinson T, Clarke AR, Muirhead H, Holbrook JJ, Philos Trans R Soc Lond B Biol Sci. 1991 May 29;332(1263):177-84. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/1678537 1678537]~~	+	<ref group="xtra">PMID:1678537</ref><references group="xtra"/>
	[[Category: L-lactate dehydrogenase]]		[[Category: L-lactate dehydrogenase]]
-	[[Category: Single protein]]
	[[Category: Sus scrofa]]		[[Category: Sus scrofa]]
	[[Category: Dunn, C R.]]		[[Category: Dunn, C R.]]
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	[[Category: Muirhead, H.]]		[[Category: Muirhead, H.]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Fri Jul 11 12~~:51:~~11 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 14:49:21 2009''

OCA at 09:51, 11 July 2008

2008-07-11T09:51:12Z

←Older revision		Revision as of 09:51, 11 July 2008
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-	[[Image:9ldt.~~gif~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:9ldt.png\|left\|200px]]

	<!--		<!--
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	{{STRUCTURE_9ldt\| PDB=9ldt \| SCENE= }}		{{STRUCTURE_9ldt\| PDB=9ldt \| SCENE= }}

-	~~'''~~DESIGN AND SYNTHESIS OF NEW ENZYMES BASED ON THE LACTATE DEHYDROGENASE FRAMEWORK~~'''~~	+	===DESIGN AND SYNTHESIS OF NEW ENZYMES BASED ON THE LACTATE DEHYDROGENASE FRAMEWORK===


-	~~==Overview==~~	+	<!--
-	~~Analysis of~~ the ~~mechanism and structure of lactate dehydrogenases is summarized in a map of~~ the ~~catalytic pathway~~. ~~Chemical probes, single tryptophan residues inserted at specific sites and a crystal structure reveal slow movements of the protein framework that discriminate between closely related small substrates~~. ~~Only small and correctly charged substrates allow the protein to engulf the substrate in an internal vacuole that is isolated from solvent protons~~, ~~in which water~~ is ~~frozen and hydride transfer is rapid. The closed vacuole is very sensitive to~~ the ~~size and charge of the substrate and provides discrimination between small substrates that otherwise have too few functional groups to be distinguished at a solvated protein surface~~. ~~This model was tested against its ability to successfully predict the design and synthesis of new enzymes such as L~~-~~hydroxyisocaproate dehydrogenase and fully active malate dehydrogenase. Solvent friction limits the rate of forming the vacuole and thus the maximum rate of catalysis.~~	+	The line below this paragraph, {{ABSTRACT_PUBMED_1678537}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 1678537 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_1678537}}

	==About this Structure==		==About this Structure==
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	[[Category: Holbrook, J J.]]		[[Category: Holbrook, J J.]]
	[[Category: Muirhead, H.]]		[[Category: Muirhead, H.]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun May 4 22~~:54:40 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri Jul 11 12:51:11 2008''

OCA at 19:54, 4 May 2008

2008-05-04T19:54:41Z

←Older revision		Revision as of 19:54, 4 May 2008
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	[[Image:9ldt.gif\|left\|200px]]		[[Image:9ldt.gif\|left\|200px]]

-	~~{{Structure~~	+	<!--
-	~~\|PDB= 9ldt \|SIZE=350\|CAPTION= <scene name='initialview01'>9ldt</scene>~~, ~~resolution 2~~.~~0Å~~	+	The line below this paragraph, containing "STRUCTURE_9ldt", creates the "Structure Box" on the page.
-	~~\|SITE=~~	+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	~~\|LIGAND= <~~scene ~~name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>~~, ~~<scene name='pdbligand=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=OXM:OXAMIC+ACID'>OXM</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>~~	+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	~~\|ACTIVITY= <span class='plainlinks'>[http://en~~.~~wikipedia.org/wiki/L~~-~~lactate_dehydrogenase L~~-~~lactate dehydrogenase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.27 1.1.1.27] </span~~>	+	or leave the SCENE parameter empty for the default display.
-	\|~~GENE~~=	+	-->
-	\|~~DOMAIN~~=	+	{{STRUCTURE_9ldt\| PDB=9ldt \| SCENE= }}
-	~~\|RELATEDENTRY=~~	+
-	\|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=9ldt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9ldt OCA], [http://www.ebi.ac.uk/pdbsum/9ldt PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=9ldt RCSB]</span>	+
-	}}	+

	'''DESIGN AND SYNTHESIS OF NEW ENZYMES BASED ON THE LACTATE DEHYDROGENASE FRAMEWORK'''		'''DESIGN AND SYNTHESIS OF NEW ENZYMES BASED ON THE LACTATE DEHYDROGENASE FRAMEWORK'''
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	[[Category: Holbrook, J J.]]		[[Category: Holbrook, J J.]]
	[[Category: Muirhead, H.]]		[[Category: Muirhead, H.]]
-	~~[[Category: oxidoreductase(choh(d)-nad+(a))]]~~	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 22:54:40 2008''
-		+
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Mon Mar 31 05~~:46:28 2008''	+