3blf - Revision history

OCA at 14:47, 1 November 2023

OCA — Wed, 01 Nov 2023 14:47:54 GMT

←Older revision		Revision as of 14:47, 1 November 2023
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	<StructureSection load='3blf' size='340' side='right'caption='[[3blf]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='3blf' size='340' side='right'caption='[[3blf]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3blf]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"leptospira_icteroides"_noguchi_1919 "leptospira icteroides" noguchi 1919~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BLF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BLF FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3blf]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Leptospira_interrogans Leptospira interrogans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BLF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BLF FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=PYR:PYRUVIC+ACID'>PYR</scene>~~, ~~<scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 2.6Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>~~[[~~Related_structure~~\|~~Related:~~]]~~</b></td><td class="sblockDat"><div style='overflow: auto~~; ~~max-height: 3em;'>[[3ble\|3ble]], [[3bli\|3bli]]</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PYR:PYRUVIC+ACID'>PYR</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>cimA ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~173~~ "~~Leptospira icteroides~~" ~~Noguchi 1919])</td~~><~~/tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[https://en.wikipedia.org/wiki/2-isopropylmalate_synthase 2-isopropylmalate synthase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.3.13 2.3.3.13]~~ </~~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=3blf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3blf OCA], [https://pdbe.org/3blf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3blf RCSB], [https://www.ebi.ac.uk/pdbsum/3blf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3blf 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=3blf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3blf OCA], [https://pdbe.org/3blf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3blf RCSB], [https://www.ebi.ac.uk/pdbsum/3blf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3blf ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/CIMA_LEPIN CIMA_LEPIN] Catalyzes the condensation of pyruvate and acetyl-coenzyme A to form (R)-citramalate (PubMed:15292141, PubMed:18498255, PubMed:19351325). Shows strict substrate specificity for pyruvate. Cannot use alpha-ketoisovalerate, alpha-ketobutyrate, alpha-ketoisocaproate, alpha-ketoglutarate or glyoxylate (PubMed:15292141, PubMed:18498255).<ref>PMID:15292141</ref> <ref>PMID:18498255</ref> <ref>PMID:19351325</ref>
	== 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: Leptospira icteroides noguchi 1919]]
-	[[Category: 2-isopropylmalate synthase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Ma, J~~]]	+	[[Category: Leptospira interrogans]]
-	[[Category: ~~Zhang, P~~]]	+	[[Category: Ma J]]
-	[[Category: ~~Acyltransferase]]~~	+	[[Category: Zhang P]]
-	~~[[Category: Amino-acid biosynthesis]]~~	+
-	~~[[Category: Branched-chain amino acid biosynthesis]]~~	+
-	~~[[Category: Leucine biosynthesis]]~~	+
-	~~[[Category: Licmsn]]~~	+
-	~~[[Category: Substrate specificity]]~~	+
-	~~[[Category: Tim barrel]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 10:46, 12 January 2022

OCA — Wed, 12 Jan 2022 10:46:05 GMT

←Older revision		Revision as of 10:46, 12 January 2022
Line 1:		Line 1:

	==Crystal structure of the catalytic domain of LiCMS in complexed with pyruvate==		==Crystal structure of the catalytic domain of LiCMS in complexed with pyruvate==
-	<StructureSection load='3blf' size='340' side='right' caption='[[3blf]], [[Resolution\|resolution]] 2.60Å' scene=''>	+	<StructureSection load='3blf' size='340' side='right'caption='[[3blf]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3blf]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"leptospira_icteroides"_noguchi_1919 "leptospira icteroides" noguchi 1919]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BLF OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3BLF FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3blf]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"leptospira_icteroides"_noguchi_1919 "leptospira icteroides" noguchi 1919]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BLF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BLF FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PYR:PYRUVIC+ACID'>PYR</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PYR:PYRUVIC+ACID'>PYR</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ble\|3ble]], [[3bli\|3bli]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3ble\|3ble]], [[3bli\|3bli]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cimA ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=173 "Leptospira icteroides" Noguchi 1919])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cimA ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=173 "Leptospira icteroides" Noguchi 1919])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/2-isopropylmalate_synthase 2-isopropylmalate synthase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.3.13 2.3.3.13] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/2-isopropylmalate_synthase 2-isopropylmalate synthase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.3.13 2.3.3.13] </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=3blf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3blf OCA], [~~http~~://pdbe.org/3blf PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3blf RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3blf PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3blf 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=3blf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3blf OCA], [https://pdbe.org/3blf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3blf RCSB], [https://www.ebi.ac.uk/pdbsum/3blf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3blf ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bl/3blf_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bl/3blf_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 35:		Line 35:
	[[Category: Leptospira icteroides noguchi 1919]]		[[Category: Leptospira icteroides noguchi 1919]]
	[[Category: 2-isopropylmalate synthase]]		[[Category: 2-isopropylmalate synthase]]
		+	[[Category: Large Structures]]
	[[Category: Ma, J]]		[[Category: Ma, J]]
	[[Category: Zhang, P]]		[[Category: Zhang, P]]

OCA at 08:06, 25 October 2017

OCA — Wed, 25 Oct 2017 08:06:01 GMT

←Older revision		Revision as of 08:06, 25 October 2017
Line 1:		Line 1:
		+
	==Crystal structure of the catalytic domain of LiCMS in complexed with pyruvate==		==Crystal structure of the catalytic domain of LiCMS in complexed with pyruvate==
	<StructureSection load='3blf' size='340' side='right' caption='[[3blf]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='3blf' size='340' side='right' caption='[[3blf]], [[Resolution\|resolution]] 2.60Å' scene=''>
Line 7:		Line 8:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cimA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=173 "Leptospira icteroides" Noguchi 1919])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cimA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=173 "Leptospira icteroides" Noguchi 1919])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/2-isopropylmalate_synthase 2-isopropylmalate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.3.13 2.3.3.13] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/2-isopropylmalate_synthase 2-isopropylmalate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.3.13 2.3.3.13] </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=3blf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3blf OCA], [http://pdbe.org/3blf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3blf RCSB], [http://www.ebi.ac.uk/pdbsum/3blf 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=3blf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3blf OCA], [http://pdbe.org/3blf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3blf RCSB], [http://www.ebi.ac.uk/pdbsum/3blf PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3blf ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 15:49, 9 February 2016

OCA — Tue, 09 Feb 2016 15:49:47 GMT

←Older revision		Revision as of 15:49, 9 February 2016
Line 2:		Line 2:
	<StructureSection load='3blf' size='340' side='right' caption='[[3blf]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='3blf' size='340' side='right' caption='[[3blf]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3blf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Leptospira_interrogans Leptospira interrogans~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BLF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BLF FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3blf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"leptospira_icteroides"_noguchi_1919 "leptospira icteroides" noguchi 1919]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BLF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BLF FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PYR:PYRUVIC+ACID'>PYR</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PYR:PYRUVIC+ACID'>PYR</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ble\|3ble]], [[3bli\|3bli]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ble\|3ble]], [[3bli\|3bli]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cimA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=173 Leptospira ~~interrogans~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cimA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=173 "Leptospira icteroides" Noguchi 1919])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/2-isopropylmalate_synthase 2-isopropylmalate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.3.13 2.3.3.13] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/2-isopropylmalate_synthase 2-isopropylmalate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.3.13 2.3.3.13] </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=3blf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3blf OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3blf RCSB], [http://www.ebi.ac.uk/pdbsum/3blf 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=3blf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3blf OCA], [http://pdbe.org/3blf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3blf RCSB], [http://www.ebi.ac.uk/pdbsum/3blf PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 17:		Line 17:
	<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=3blf ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 27:		Line 27:
	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 3blf" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Leptospira icteroides noguchi 1919]]
	[[Category: 2-isopropylmalate synthase]]		[[Category: 2-isopropylmalate synthase]]
-	[[Category: Leptospira interrogans]]
	[[Category: Ma, J]]		[[Category: Ma, J]]
	[[Category: Zhang, P]]		[[Category: Zhang, P]]

OCA at 09:46, 20 January 2015

OCA — Tue, 20 Jan 2015 09:46:01 GMT

←Older revision		Revision as of 09:46, 20 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3blf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Leptospira_interrogans Leptospira interrogans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BLF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BLF FirstGlance]. <br>		<table><tr><td colspan='2'>[[3blf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Leptospira_interrogans Leptospira interrogans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BLF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BLF FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PYR:PYRUVIC+ACID'>PYR</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PYR:PYRUVIC+ACID'>PYR</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ble\|3ble]], [[3bli\|3bli]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ble\|3ble]], [[3bli\|3bli]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cimA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=173 Leptospira interrogans])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cimA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=173 Leptospira interrogans])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/2-isopropylmalate_synthase 2-isopropylmalate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.3.13 2.3.3.13] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/2-isopropylmalate_synthase 2-isopropylmalate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.3.13 2.3.3.13] </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=3blf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3blf OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3blf RCSB], [http://www.ebi.ac.uk/pdbsum/3blf 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=3blf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3blf OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3blf RCSB], [http://www.ebi.ac.uk/pdbsum/3blf 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 33:		Line 33:
	[[Category: 2-isopropylmalate synthase]]		[[Category: 2-isopropylmalate synthase]]
	[[Category: Leptospira interrogans]]		[[Category: Leptospira interrogans]]
-	[[Category: Ma, J.]]	+	[[Category: Ma, J]]
-	[[Category: Zhang, P.]]	+	[[Category: Zhang, P]]
	[[Category: Acyltransferase]]		[[Category: Acyltransferase]]
	[[Category: Amino-acid biosynthesis]]		[[Category: Amino-acid biosynthesis]]

OCA at 21:31, 2 October 2014

OCA — Thu, 02 Oct 2014 21:31:58 GMT

←Older revision		Revision as of 21:31, 2 October 2014
Line 1:		Line 1:
-	[[~~Image:~~3blf.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of the catalytic domain of LiCMS in complexed with pyruvate==
		+	<StructureSection load='3blf' size='340' side='right' caption='[[3blf]], [[Resolution\|resolution]] 2.60Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3blf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Leptospira_interrogans Leptospira interrogans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BLF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3BLF FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PYR:PYRUVIC+ACID'>PYR</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3ble\|3ble]], [[3bli\|3bli]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">cimA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=173 Leptospira interrogans])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/2-isopropylmalate_synthase 2-isopropylmalate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.3.13 2.3.3.13] </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=3blf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3blf OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3blf RCSB], [http://www.ebi.ac.uk/pdbsum/3blf 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/bl/3blf_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 ==
		+	Leptospira interrogans is the causative agent for leptospirosis, a zoonotic disease of global importance. In contrast with most other micro-organisms, L. interrogans employs a pyruvate pathway to synthesize isoleucine and LiCMS (L. interrogans citramalate synthase) catalyses the first reaction of the pathway which converts pyruvate and acetyl-CoA into citramalate, thus making it an attractive target for the development of antibacterial agents. We report here the crystal structures of the catalytic domain of LiCMS and its complexes with substrates, and kinetic and mutagenesis studies of LiCMS, which together reveal the molecular basis of the high substrate specificity and the catalytic mechanism of LiCMS. The catalytic domain consists of a TIM barrel flanked by an extended C-terminal region. It forms a homodimer in the crystal structure, and the active site is located at the centre of the TIM barrel near the C-terminal ends of the beta-strands and is composed of conserved residues of the beta-strands of one subunit and the C-terminal region of the other. The substrate specificity of LiCMS towards pyruvate against other alpha-oxo acids is dictated primarily by residues Leu(81), Leu(104) and Tyr(144), which form a hydrophobic pocket to accommodate the C(2)-methyl group of pyruvate. The catalysis follows the typical aldol condensation reaction, in which Glu(146) functions as a catalytic base to activate the methyl group of acetyl-CoA to form an enolated acetyl-CoA intermediate and Arg(16) as a general acid to stabilize the intermediate.

-	~~{{STRUCTURE_3blf\| PDB=3blf \| SCENE= }}~~	+	Molecular basis of the substrate specificity and the catalytic mechanism of citramalate synthase from Leptospira interrogans.,Ma J, Zhang P, Zhang Z, Zha M, Xu H, Zhao G, Ding J Biochem J. 2008 Oct 1;415(1):45-56. PMID:18498255<ref>PMID:18498255</ref>

-	~~===Crystal structure~~ of the ~~catalytic domain of LiCMS in complexed with pyruvate===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_18498255}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[3blf]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Leptospira_interrogans Leptospira interrogans]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3BLF OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:018498255<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: 2-isopropylmalate synthase]]		[[Category: 2-isopropylmalate synthase]]
	[[Category: Leptospira interrogans]]		[[Category: Leptospira interrogans]]

OCA: Protected "3blf" [edit=sysop:move=sysop]

OCA — Mon, 07 Jan 2013 19:02:32 GMT

Protected "3blf" [edit=sysop:move=sysop]

←Older revision

Revision as of 19:02, 7 January 2013

OCA at 19:02, 7 January 2013

OCA — Mon, 07 Jan 2013 19:02:30 GMT

←Older revision		Revision as of 19:02, 7 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:3blf.png\|left\|200px]]		[[Image:3blf.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3blf", 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_3blf\| PDB=3blf \| SCENE= }}		{{STRUCTURE_3blf\| PDB=3blf \| SCENE= }}

	===Crystal structure of the catalytic domain of LiCMS in complexed with pyruvate===		===Crystal structure of the catalytic domain of LiCMS in complexed with pyruvate===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18498255}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18498255 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_18498255}}		{{ABSTRACT_PUBMED_18498255}}

	==About this Structure==		==About this Structure==
-	~~3BLF~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Leptospira_interrogans Leptospira interrogans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BLF OCA].	+	[[3blf]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Leptospira_interrogans Leptospira interrogans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BLF OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~18498255~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:018498255</ref><references group="xtra"/>
	[[Category: 2-isopropylmalate synthase]]		[[Category: 2-isopropylmalate synthase]]
	[[Category: Leptospira interrogans]]		[[Category: Leptospira interrogans]]
Line 36:		Line 24:
	[[Category: Tim barrel]]		[[Category: Tim barrel]]
	[[Category: Transferase]]		[[Category: Transferase]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 10:57:37 2009''

OCA at 08:57, 17 February 2009

OCA — Tue, 17 Feb 2009 08:57:39 GMT

←Older revision		Revision as of 08:57, 17 February 2009
Line 1:		Line 1:
	{{Seed}}		{{Seed}}
-	[[Image:3blf.~~jpg~~\|left\|200px]]	+	[[Image:3blf.png\|left\|200px]]

	<!--		<!--
Line 23:		Line 23:

	==Reference==		==Reference==
-	Molecular basis of the substrate specificity and the catalytic mechanism of citramalate synthase from Leptospira interrogans., Ma J, Zhang P, Zhang Z, Zha M, Xu H, Zhao G, Ding J, Biochem J. 2008 Oct 1;415(1):45-56. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/18498255 18498255]~~	+	<ref group="xtra">PMID:18498255</ref><references group="xtra"/>
	[[Category: 2-isopropylmalate synthase]]		[[Category: 2-isopropylmalate synthase]]
	[[Category: Leptospira interrogans]]		[[Category: Leptospira interrogans]]
Line 37:		Line 37:
	[[Category: Transferase]]		[[Category: Transferase]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed Nov 12~~ 10:45:~~43 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 10:57:37 2009''

OCA at 08:45, 12 November 2008

OCA — Wed, 12 Nov 2008 08:45:44 GMT

←Older revision		Revision as of 08:45, 12 November 2008
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3blf.jpg\|left\|200px]]

-	The ~~entry 3blf~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3blf", 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_3blf\| PDB=3blf \| SCENE= }}

-	~~Authors: Zhang, P., Ma, J., Zhang, Z., Zhao, G., Ding, J.~~	+	===Crystal structure of the catalytic domain of LiCMS in complexed with pyruvate===

-	Description: Crystal structure of the catalytic domian of LiCMS in complexed with pyruvate

		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_18498255}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 18498255 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_18498255}}

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed ~~Jun 11 09~~:26:37 2008''	+	==About this Structure==
		+	3BLF is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Leptospira_interrogans Leptospira interrogans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BLF OCA].
		+
		+	==Reference==
		+	Molecular basis of the substrate specificity and the catalytic mechanism of citramalate synthase from Leptospira interrogans., Ma J, Zhang P, Zhang Z, Zha M, Xu H, Zhao G, Ding J, Biochem J. 2008 Oct 1;415(1):45-56. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18498255 18498255]
		+	[[Category: 2-isopropylmalate synthase]]
		+	[[Category: Leptospira interrogans]]
		+	[[Category: Ma, J.]]
		+	[[Category: Zhang, P.]]
		+	[[Category: Acyltransferase]]
		+	[[Category: Amino-acid biosynthesis]]
		+	[[Category: Branched-chain amino acid biosynthesis]]
		+	[[Category: Leucine biosynthesis]]
		+	[[Category: Licmsn]]
		+	[[Category: Substrate specificity]]
		+	[[Category: Tim barrel]]
		+	[[Category: Transferase]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Nov 12 10:45:43 2008''