1cm7 - Revision history

OCA at 05:57, 3 April 2024

OCA — Wed, 03 Apr 2024 05:57:48 GMT

←Older revision		Revision as of 05:57, 3 April 2024
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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=1cm7 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=1cm7 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The basis of protein stability has been investigated by the structural comparison of themophilic enzymes with their mesophilic counterparts. A number of characteristics have been found that can contribute to the stabilization of thermophilic proteins, but no one is uniquely capable of imparting thermostability. The crystal structure of 3-isopropylmalate dehydrogenase (IPMDH) from the mesophiles Escherichia coli and Salmonella typhimurium have been determined by the method of molecular replacement using the known structure of the homologous Thermus thermophilus enzyme. The structure of the E. coli enzyme was refined at a resolution of 2.1 A to an R-factor of 17.3%, that of the S. typhimurium enzyme at 1.7 A resolution to an R-factor of 19.8%. The three structures were compared to elucidate the basis of the higher thermostability of the T. thermophilus enzyme. A mutant that created a cavity in the hydrophobic core of the thermophilic enzyme was designed to investigate the importance of packing density for thermostability. The structure of this mutant was analyzed. The main stabilizing features in the thermophilic enzyme are an increased number of salt bridges, additional hydrogen bonds, a proportionately larger and more hydrophobic subunit interface, shortened N and C termini and a larger number of proline residues. The mutation in the hydrophobic core of T. thermophilus IPMDH resulted in a cavity of 32 A3, but no significant effect on the activity and thermostability of the mutant was observed.
-
-	Crystal structures of Escherichia coli and Salmonella typhimurium 3-isopropylmalate dehydrogenase and comparison with their thermophilic counterpart from Thermus thermophilus.,Wallon G, Kryger G, Lovett ST, Oshima T, Ringe D, Petsko GA J Mol Biol. 1997 Mar 14;266(5):1016-31. PMID:9086278<ref>PMID:9086278</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1cm7" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Isopropylmalate dehydrogenase\|Isopropylmalate dehydrogenase]]		*[[Isopropylmalate dehydrogenase\|Isopropylmalate dehydrogenase]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 23:27, 27 December 2023

OCA — Wed, 27 Dec 2023 23:27:41 GMT

←Older revision		Revision as of 23:27, 27 December 2023
Line 3:		Line 3:
	<StructureSection load='1cm7' size='340' side='right'caption='[[1cm7]], [[Resolution\|resolution]] 2.06Å' scene=''>		<StructureSection load='1cm7' size='340' side='right'caption='[[1cm7]], [[Resolution\|resolution]] 2.06Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1cm7]] is a 2 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=1CM7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1CM7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1cm7]] 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=1CM7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1CM7 FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>LEUB ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~562~~ "~~Bacillus coli~~" ~~Migula 1895~~])</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]] 2.06Å</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=1cm7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cm7 OCA], [https://pdbe.org/1cm7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1cm7 RCSB], [https://www.ebi.ac.uk/pdbsum/1cm7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1cm7 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=1cm7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cm7 OCA], [https://pdbe.org/1cm7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1cm7 RCSB], [https://www.ebi.ac.uk/pdbsum/1cm7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1cm7 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/LEU3_ECOLI LEU3_ECOLI]] Catalyzes the oxidation of 3-carboxy-2-hydroxy-4-methylpentanoate (3-isopropylmalate) to 3-carboxy-4-methyl-2-oxopentanoate. The product decarboxylates to 4-methyl-2 oxopentanoate.[HAMAP-Rule:MF_01033]	+	[https://www.uniprot.org/uniprot/LEU3_ECOLI LEU3_ECOLI] Catalyzes the oxidation of 3-carboxy-2-hydroxy-4-methylpentanoate (3-isopropylmalate) to 3-carboxy-4-methyl-2-oxopentanoate. The product decarboxylates to 4-methyl-2 oxopentanoate.[HAMAP-Rule:MF_01033]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Bacillus~~ coli ~~migula 1895~~]]	+	[[Category: Escherichia coli]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Kryger, G]]	+	[[Category: Kryger G]]
-	[[Category: Lovett~~, S T~~]]	+	[[Category: Lovett ST]]
-	[[Category: Oshima, T]]	+	[[Category: Oshima T]]
-	[[Category: Petsko~~, G A~~]]	+	[[Category: Petsko GA]]
-	[[Category: Ringe, D]]	+	[[Category: Ringe D]]
-	[[Category: Wallon, G]]	+	[[Category: Wallon G]]
-	~~[[Category: Dehydrogenase]]~~	+
-	~~[[Category: Leucine biosynthetic pathway]]~~	+
-	~~[[Category: Nad-dependant enzyme]]~~	+
-	~~[[Category: Oxidoreductase~~]]	+

OCA at 15:17, 3 March 2021

OCA — Wed, 03 Mar 2021 15:17:31 GMT

←Older revision		Revision as of 15:17, 3 March 2021
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	<StructureSection load='1cm7' size='340' side='right'caption='[[1cm7]], [[Resolution\|resolution]] 2.06Å' scene=''>		<StructureSection load='1cm7' size='340' side='right'caption='[[1cm7]], [[Resolution\|resolution]] 2.06Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1cm7]] 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=1CM7 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1CM7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1cm7]] is a 2 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=1CM7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1CM7 FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">LEUB ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">LEUB ([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=1cm7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cm7 OCA], [~~http~~://pdbe.org/1cm7 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1cm7 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1cm7 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1cm7 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=1cm7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cm7 OCA], [https://pdbe.org/1cm7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1cm7 RCSB], [https://www.ebi.ac.uk/pdbsum/1cm7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1cm7 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/LEU3_ECOLI LEU3_ECOLI]] Catalyzes the oxidation of 3-carboxy-2-hydroxy-4-methylpentanoate (3-isopropylmalate) to 3-carboxy-4-methyl-2-oxopentanoate. The product decarboxylates to 4-methyl-2 oxopentanoate.[HAMAP-Rule:MF_01033]	+	[[https://www.uniprot.org/uniprot/LEU3_ECOLI LEU3_ECOLI]] Catalyzes the oxidation of 3-carboxy-2-hydroxy-4-methylpentanoate (3-isopropylmalate) to 3-carboxy-4-methyl-2-oxopentanoate. The product decarboxylates to 4-methyl-2 oxopentanoate.[HAMAP-Rule:MF_01033]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 07:07, 29 May 2019

OCA — Wed, 29 May 2019 07:07:59 GMT

←Older revision		Revision as of 07:07, 29 May 2019
Line 1:		Line 1:

	==3-ISOPROPYLMALATE DEHYDROGENASE FROM ESCHERICHIA COLI==		==3-ISOPROPYLMALATE DEHYDROGENASE FROM ESCHERICHIA COLI==
-	<StructureSection load='1cm7' size='340' side='right' caption='[[1cm7]], [[Resolution\|resolution]] 2.06Å' scene=''>	+	<StructureSection load='1cm7' size='340' side='right'caption='[[1cm7]], [[Resolution\|resolution]] 2.06Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1cm7]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CM7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1CM7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1cm7]] 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=1CM7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1CM7 FirstGlance]. <br>
-	</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=1cm7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cm7 OCA], [http://pdbe.org/1cm7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1cm7 RCSB], [http://www.ebi.ac.uk/pdbsum/1cm7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1cm7 ProSAT]</span></td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">LEUB ([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=1cm7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cm7 OCA], [http://pdbe.org/1cm7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1cm7 RCSB], [http://www.ebi.ac.uk/pdbsum/1cm7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1cm7 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 12:		Line 13:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/cm/1cm7_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/cm/1cm7_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 34:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillus coli migula 1895]]
		+	[[Category: Large Structures]]
	[[Category: Kryger, G]]		[[Category: Kryger, G]]
	[[Category: Lovett, S T]]		[[Category: Lovett, S T]]

OCA at 11:18, 24 August 2017

OCA — Thu, 24 Aug 2017 11:18:16 GMT

←Older revision		Revision as of 11:18, 24 August 2017
Line 1:		Line 1:
		+
	==3-ISOPROPYLMALATE DEHYDROGENASE FROM ESCHERICHIA COLI==		==3-ISOPROPYLMALATE DEHYDROGENASE FROM ESCHERICHIA COLI==
	<StructureSection load='1cm7' size='340' side='right' caption='[[1cm7]], [[Resolution\|resolution]] 2.06Å' scene=''>		<StructureSection load='1cm7' size='340' side='right' caption='[[1cm7]], [[Resolution\|resolution]] 2.06Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1cm7]] 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=1CM7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1CM7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1cm7]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CM7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1CM7 FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">LEUB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</td></tr>	+	</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=1cm7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cm7 OCA], [http://pdbe.org/1cm7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1cm7 RCSB], [http://www.ebi.ac.uk/pdbsum/1cm7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1cm7 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=1cm7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cm7 OCA], [http://pdbe.org/1cm7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1cm7 RCSB], [http://www.ebi.ac.uk/pdbsum/1cm7 PDBsum]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
Line 16:		Line 16:
	<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=1cm7 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 34:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Bacillus coli migula 1895]]
	[[Category: Kryger, G]]		[[Category: Kryger, G]]
	[[Category: Lovett, S T]]		[[Category: Lovett, S T]]

OCA at 10:37, 11 September 2015

OCA — Fri, 11 Sep 2015 10:37:05 GMT

←Older revision		Revision as of 10:37, 11 September 2015
Line 2:		Line 2:
	<StructureSection load='1cm7' size='340' side='right' caption='[[1cm7]], [[Resolution\|resolution]] 2.06Å' scene=''>		<StructureSection load='1cm7' size='340' side='right' caption='[[1cm7]], [[Resolution\|resolution]] 2.06Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1cm7]] 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=1CM7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1CM7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1cm7]] 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=1CM7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1CM7 FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">LEUB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 ~~Escherichia~~ coli])</td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">LEUB ([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=1cm7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cm7 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1cm7 RCSB], [http://www.ebi.ac.uk/pdbsum/1cm7 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=1cm7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cm7 OCA], [http://pdbe.org/1cm7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1cm7 RCSB], [http://www.ebi.ac.uk/pdbsum/1cm7 PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 26:		Line 26:
	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 1cm7" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 33:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Escherichia~~ coli]]	+	[[Category: Bacillus coli migula 1895]]
	[[Category: Kryger, G]]		[[Category: Kryger, G]]
	[[Category: Lovett, S T]]		[[Category: Lovett, S T]]

OCA at 15:19, 25 December 2014

OCA — Thu, 25 Dec 2014 15:19:02 GMT

←Older revision		Revision as of 15:19, 25 December 2014
Line 6:		Line 6:
	<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=1cm7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cm7 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1cm7 RCSB], [http://www.ebi.ac.uk/pdbsum/1cm7 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=1cm7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cm7 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1cm7 RCSB], [http://www.ebi.ac.uk/pdbsum/1cm7 PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/LEU3_ECOLI LEU3_ECOLI]] Catalyzes the oxidation of 3-carboxy-2-hydroxy-4-methylpentanoate (3-isopropylmalate) to 3-carboxy-4-methyl-2-oxopentanoate. The product decarboxylates to 4-methyl-2 oxopentanoate.[HAMAP-Rule:MF_01033]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 18:30, 22 December 2014

OCA — Mon, 22 Dec 2014 18:30:03 GMT

←Older revision		Revision as of 18:30, 22 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1cm7]] 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=1CM7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1CM7 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1cm7]] 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=1CM7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1CM7 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">LEUB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">LEUB ([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=1cm7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cm7 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1cm7 RCSB], [http://www.ebi.ac.uk/pdbsum/1cm7 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=1cm7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cm7 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1cm7 RCSB], [http://www.ebi.ac.uk/pdbsum/1cm7 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:
	</StructureSection>		</StructureSection>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
-	[[Category: Kryger, G.]]	+	[[Category: Kryger, G]]
-	[[Category: Lovett, S T.]]	+	[[Category: Lovett, S T]]
-	[[Category: Oshima, T.]]	+	[[Category: Oshima, T]]
-	[[Category: Petsko, G A.]]	+	[[Category: Petsko, G A]]
-	[[Category: Ringe, D.]]	+	[[Category: Ringe, D]]
-	[[Category: Wallon, G.]]	+	[[Category: Wallon, G]]
	[[Category: Dehydrogenase]]		[[Category: Dehydrogenase]]
	[[Category: Leucine biosynthetic pathway]]		[[Category: Leucine biosynthetic pathway]]
	[[Category: Nad-dependant enzyme]]		[[Category: Nad-dependant enzyme]]
	[[Category: Oxidoreductase]]		[[Category: Oxidoreductase]]

OCA at 09:22, 27 August 2014

OCA — Wed, 27 Aug 2014 09:22:13 GMT

←Older revision		Revision as of 09:22, 27 August 2014
Line 1:		Line 1:
-	[[~~Image~~:1cm7.~~png\|left~~\|200px]]	+	==3-ISOPROPYLMALATE DEHYDROGENASE FROM ESCHERICHIA COLI==
		+	<StructureSection load='1cm7' size='340' side='right' caption='[[1cm7]], [[Resolution\|resolution]] 2.06Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1cm7]] 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=1CM7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1CM7 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">LEUB ([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=1cm7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cm7 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1cm7 RCSB], [http://www.ebi.ac.uk/pdbsum/1cm7 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/cm/1cm7_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 basis of protein stability has been investigated by the structural comparison of themophilic enzymes with their mesophilic counterparts. A number of characteristics have been found that can contribute to the stabilization of thermophilic proteins, but no one is uniquely capable of imparting thermostability. The crystal structure of 3-isopropylmalate dehydrogenase (IPMDH) from the mesophiles Escherichia coli and Salmonella typhimurium have been determined by the method of molecular replacement using the known structure of the homologous Thermus thermophilus enzyme. The structure of the E. coli enzyme was refined at a resolution of 2.1 A to an R-factor of 17.3%, that of the S. typhimurium enzyme at 1.7 A resolution to an R-factor of 19.8%. The three structures were compared to elucidate the basis of the higher thermostability of the T. thermophilus enzyme. A mutant that created a cavity in the hydrophobic core of the thermophilic enzyme was designed to investigate the importance of packing density for thermostability. The structure of this mutant was analyzed. The main stabilizing features in the thermophilic enzyme are an increased number of salt bridges, additional hydrogen bonds, a proportionately larger and more hydrophobic subunit interface, shortened N and C termini and a larger number of proline residues. The mutation in the hydrophobic core of T. thermophilus IPMDH resulted in a cavity of 32 A3, but no significant effect on the activity and thermostability of the mutant was observed.

-	~~{{STRUCTURE_1cm7\| PDB=1cm7 \| SCENE= }}~~	+	Crystal structures of Escherichia coli and Salmonella typhimurium 3-isopropylmalate dehydrogenase and comparison with their thermophilic counterpart from Thermus thermophilus.,Wallon G, Kryger G, Lovett ST, Oshima T, Ringe D, Petsko GA J Mol Biol. 1997 Mar 14;266(5):1016-31. PMID:9086278<ref>PMID:9086278</ref>

-	~~===3-ISOPROPYLMALATE DEHYDROGENASE FROM ESCHERICHIA COLI===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_9086278}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1cm7]] 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=1CM7 OCA].~~	+

	==See Also==		==See Also==
	*[[Isopropylmalate dehydrogenase\|Isopropylmalate dehydrogenase]]		*[[Isopropylmalate dehydrogenase\|Isopropylmalate dehydrogenase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:009086278<~~/~~ref~~><~~ref group="xtra">PMID:019154118</ref><references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
	[[Category: Kryger, G.]]		[[Category: Kryger, G.]]

OCA at 18:14, 20 October 2012

OCA — Sat, 20 Oct 2012 18:14:29 GMT

←Older revision		Revision as of 18:14, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[1cm7]] is a 2 chain structure ~~of [[Isopropylmalate dehydrogenase]]~~ 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=1CM7 OCA].	+	[[1cm7]] 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=1CM7 OCA].

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