1kko - Revision history

OCA at 08:01, 3 April 2024

OCA — Wed, 03 Apr 2024 08:01:08 GMT

←Older revision		Revision as of 08:01, 3 April 2024
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	<StructureSection load='1kko' size='340' side='right'caption='[[1kko]], [[Resolution\|resolution]] 1.33Å' scene=''>		<StructureSection load='1kko' size='340' side='right'caption='[[1kko]], [[Resolution\|resolution]] 1.33Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1kko]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Atcc_25405 Atcc 25405~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KKO OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1KKO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1kko]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Citrobacter_amalonaticus Citrobacter amalonaticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KKO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1KKO FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<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]] 1.33Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;~~'>~~[[1kkr\|1kkr]]~~</~~div></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=1kko FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kko OCA], [https://pdbe.org/1kko PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1kko RCSB], [https://www.ebi.ac.uk/pdbsum/1kko PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1kko ProSAT]</span></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MAL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=35703 ATCC 25405])</td></tr>~~	+
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Methylaspartate_ammonia-lyase Methylaspartate ammonia-lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.3.1.2 4.3.1.2] </span></td></tr>	+
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=1kko FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kko OCA], [~~http~~://pdbe.org/1kko PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1kko RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1kko PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1kko ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/MAAL_CITAM MAAL_CITAM] Involved in the methylaspartate cycle. Catalyzes the formation of the alpha,beta-unsaturated bond by the reversible anti elimination of ammonia from L-threo-beta-methylaspartate (L-threo-(2S,3S)-3-methylaspartate) to give mesaconate (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 21:		Line 20:
	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1kko 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=1kko ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Methylaspartate ammonia lyase (MAL) catalyzes the magnesium-dependent reversible alpha,beta-elimination of ammonia from L-threo-(2S,3S)-3-methylaspartic acid to mesaconic acid. The 1.3 A MAD crystal structure of the dimeric Citrobacter amalonaticus MAL shows that each subunit comprises two domains, one of which adopts the classical TIM barrel fold, with the active site at the C-terminal end of the barrel. Despite very low sequence similarity, the structure of MAL is closely related to those of representative members of the enolase superfamily, indicating that the mechanism of MAL involves the initial abstraction of a proton alpha to the 3-carboxyl of (2S,3S)-3-methylasparic acid to yield an enolic intermediate. This analysis resolves the conflict that had linked MAL to the histidine and phenylalanine ammonia lyase family of enzymes.
-
-	Insights into enzyme evolution revealed by the structure of methylaspartate ammonia lyase.,Levy CW, Buckley PA, Sedelnikova S, Kato Y, Asano Y, Rice DW, Baker PJ Structure. 2002 Jan;10(1):105-13. PMID:11796115<ref>PMID:11796115</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1kko" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Atcc 25405~~]]	+	[[Category: Citrobacter amalonaticus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Methylaspartate ammonia-lyase]]~~	+	[[Category: Asano Y]]
-	[[Category: Asano, Y]]	+	[[Category: Baker PJ]]
-	[[Category: Baker~~, P J~~]]	+	[[Category: Buckley PA]]
-	[[Category: Buckley~~, P A~~]]	+	[[Category: Kato Y]]
-	[[Category: Kato, Y]]	+	[[Category: Levy CW]]
-	[[Category: Levy~~, C W~~]]	+	[[Category: Rice DW]]
-	[[Category: Rice~~, D W~~]]	+	[[Category: Sedelnikova S]]
-	[[Category: Sedelnikova, S]]	+
-	~~[[Category: Enolase superfamily]]~~	+
-	~~[[Category: Lyase]]~~	+
-	~~[[Category: Methylaspartate ammonia lyase]]~~	+
-	~~[[Category: Tim barrel~~]]	+

OCA at 07:46, 25 November 2020

OCA — Wed, 25 Nov 2020 07:46:27 GMT

←Older revision		Revision as of 07:46, 25 November 2020
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	==CRYSTAL STRUCTURE OF CITROBACTER AMALONATICUS METHYLASPARTATE AMMONIA LYASE==		==CRYSTAL STRUCTURE OF CITROBACTER AMALONATICUS METHYLASPARTATE AMMONIA LYASE==
-	<StructureSection load='1kko' size='340' side='right' caption='[[1kko]], [[Resolution\|resolution]] 1.33Å' scene=''>	+	<StructureSection load='1kko' size='340' side='right'caption='[[1kko]], [[Resolution\|resolution]] 1.33Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1kko]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_25405 Atcc 25405]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KKO OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1KKO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1kko]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_25405 Atcc 25405]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KKO OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1KKO FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><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" id="ligandDat"><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=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1kkr\|1kkr]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1kkr\|1kkr]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MAL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=35703 ATCC 25405])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MAL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=35703 ATCC 25405])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Methylaspartate_ammonia-lyase Methylaspartate ammonia-lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.3.1.2 4.3.1.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Methylaspartate_ammonia-lyase Methylaspartate ammonia-lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.3.1.2 4.3.1.2] </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=1kko FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kko OCA], [http://pdbe.org/1kko PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1kko RCSB], [http://www.ebi.ac.uk/pdbsum/1kko PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1kko ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=1kko FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kko OCA], [http://pdbe.org/1kko PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1kko RCSB], [http://www.ebi.ac.uk/pdbsum/1kko PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1kko ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 35:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Atcc 25405]]		[[Category: Atcc 25405]]
		+	[[Category: Large Structures]]
	[[Category: Methylaspartate ammonia-lyase]]		[[Category: Methylaspartate ammonia-lyase]]
	[[Category: Asano, Y]]		[[Category: Asano, Y]]

OCA at 21:51, 24 January 2018

OCA — Wed, 24 Jan 2018 21:51:33 GMT

←Older revision		Revision as of 21:51, 24 January 2018
Line 1:		Line 1:
		+
	==CRYSTAL STRUCTURE OF CITROBACTER AMALONATICUS METHYLASPARTATE AMMONIA LYASE==		==CRYSTAL STRUCTURE OF CITROBACTER AMALONATICUS METHYLASPARTATE AMMONIA LYASE==
	<StructureSection load='1kko' size='340' side='right' caption='[[1kko]], [[Resolution\|resolution]] 1.33Å' scene=''>		<StructureSection load='1kko' size='340' side='right' caption='[[1kko]], [[Resolution\|resolution]] 1.33Å' scene=''>
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	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MAL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=35703 ATCC 25405])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MAL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=35703 ATCC 25405])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Methylaspartate_ammonia-lyase Methylaspartate ammonia-lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.3.1.2 4.3.1.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Methylaspartate_ammonia-lyase Methylaspartate ammonia-lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.3.1.2 4.3.1.2] </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=1kko FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kko OCA], [http://pdbe.org/1kko PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1kko RCSB], [http://www.ebi.ac.uk/pdbsum/1kko 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=1kko FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kko OCA], [http://pdbe.org/1kko PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1kko RCSB], [http://www.ebi.ac.uk/pdbsum/1kko PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1kko ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 14:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/kk/1kko_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/kk/1kko_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>

OCA at 17:50, 7 February 2016

OCA — Sun, 07 Feb 2016 17:50:49 GMT

←Older revision		Revision as of 17:50, 7 February 2016
Line 18:		Line 18:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1kko ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 03:47, 10 September 2015

OCA — Thu, 10 Sep 2015 03:47:13 GMT

←Older revision		Revision as of 03:47, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1kko' size='340' side='right' caption='[[1kko]], [[Resolution\|resolution]] 1.33Å' scene=''>		<StructureSection load='1kko' size='340' side='right' caption='[[1kko]], [[Resolution\|resolution]] 1.33Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1kko]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Citrobacter_amalonaticus Citrobacter amalonaticus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KKO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1KKO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1kko]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_25405 Atcc 25405]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KKO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1KKO FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><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=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=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1kkr\|1kkr]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1kkr\|1kkr]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MAL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=35703 ~~Citrobacter amalonaticus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MAL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=35703 ATCC 25405])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Methylaspartate_ammonia-lyase Methylaspartate ammonia-lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.3.1.2 4.3.1.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Methylaspartate_ammonia-lyase Methylaspartate ammonia-lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.3.1.2 4.3.1.2] </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=1kko FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kko OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1kko RCSB], [http://www.ebi.ac.uk/pdbsum/1kko 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=1kko FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kko OCA], [http://pdbe.org/1kko PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1kko RCSB], [http://www.ebi.ac.uk/pdbsum/1kko PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 28:		Line 28:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 1kko" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Citrobacter amalonaticus~~]]	+	[[Category: Atcc 25405]]
	[[Category: Methylaspartate ammonia-lyase]]		[[Category: Methylaspartate ammonia-lyase]]
	[[Category: Asano, Y]]		[[Category: Asano, Y]]

OCA at 17:12, 5 January 2015

OCA — Mon, 05 Jan 2015 17:12:29 GMT

←Older revision		Revision as of 17:12, 5 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1kko]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Citrobacter_amalonaticus Citrobacter amalonaticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KKO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1KKO FirstGlance]. <br>		<table><tr><td colspan='2'>[[1kko]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Citrobacter_amalonaticus Citrobacter amalonaticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KKO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1KKO FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1kkr\|1kkr]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1kkr\|1kkr]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MAL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=35703 Citrobacter amalonaticus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MAL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=35703 Citrobacter amalonaticus])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Methylaspartate_ammonia-lyase Methylaspartate ammonia-lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.3.1.2 4.3.1.2] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Methylaspartate_ammonia-lyase Methylaspartate ammonia-lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.3.1.2 4.3.1.2] </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=1kko FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kko OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1kko RCSB], [http://www.ebi.ac.uk/pdbsum/1kko 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=1kko FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kko OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1kko RCSB], [http://www.ebi.ac.uk/pdbsum/1kko 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 34:		Line 34:
	[[Category: Citrobacter amalonaticus]]		[[Category: Citrobacter amalonaticus]]
	[[Category: Methylaspartate ammonia-lyase]]		[[Category: Methylaspartate ammonia-lyase]]
-	[[Category: Asano, Y.]]	+	[[Category: Asano, Y]]
-	[[Category: Baker, P J.]]	+	[[Category: Baker, P J]]
-	[[Category: Buckley, P A.]]	+	[[Category: Buckley, P A]]
-	[[Category: Kato, Y.]]	+	[[Category: Kato, Y]]
-	[[Category: Levy, C W.]]	+	[[Category: Levy, C W]]
-	[[Category: Rice, D W.]]	+	[[Category: Rice, D W]]
-	[[Category: Sedelnikova, S.]]	+	[[Category: Sedelnikova, S]]
	[[Category: Enolase superfamily]]		[[Category: Enolase superfamily]]
	[[Category: Lyase]]		[[Category: Lyase]]
	[[Category: Methylaspartate ammonia lyase]]		[[Category: Methylaspartate ammonia lyase]]
	[[Category: Tim barrel]]		[[Category: Tim barrel]]

OCA at 14:39, 28 September 2014

OCA — Sun, 28 Sep 2014 14:39:38 GMT

←Older revision		Revision as of 14:39, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1kko.~~png~~\|~~left~~\|200px]]	+	==CRYSTAL STRUCTURE OF CITROBACTER AMALONATICUS METHYLASPARTATE AMMONIA LYASE==
		+	<StructureSection load='1kko' size='340' side='right' caption='[[1kko]], [[Resolution\|resolution]] 1.33Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1kko]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Citrobacter_amalonaticus Citrobacter amalonaticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KKO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1KKO FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1kkr\|1kkr]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MAL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=35703 Citrobacter amalonaticus])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Methylaspartate_ammonia-lyase Methylaspartate ammonia-lyase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.3.1.2 4.3.1.2] </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=1kko FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kko OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1kko RCSB], [http://www.ebi.ac.uk/pdbsum/1kko 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/kk/1kko_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 ==
		+	Methylaspartate ammonia lyase (MAL) catalyzes the magnesium-dependent reversible alpha,beta-elimination of ammonia from L-threo-(2S,3S)-3-methylaspartic acid to mesaconic acid. The 1.3 A MAD crystal structure of the dimeric Citrobacter amalonaticus MAL shows that each subunit comprises two domains, one of which adopts the classical TIM barrel fold, with the active site at the C-terminal end of the barrel. Despite very low sequence similarity, the structure of MAL is closely related to those of representative members of the enolase superfamily, indicating that the mechanism of MAL involves the initial abstraction of a proton alpha to the 3-carboxyl of (2S,3S)-3-methylasparic acid to yield an enolic intermediate. This analysis resolves the conflict that had linked MAL to the histidine and phenylalanine ammonia lyase family of enzymes.

-	~~{{STRUCTURE_1kko\| PDB=1kko \| SCENE= }}~~	+	Insights into enzyme evolution revealed by the structure of methylaspartate ammonia lyase.,Levy CW, Buckley PA, Sedelnikova S, Kato Y, Asano Y, Rice DW, Baker PJ Structure. 2002 Jan;10(1):105-13. PMID:11796115<ref>PMID:11796115</ref>

-	~~===CRYSTAL STRUCTURE OF CITROBACTER AMALONATICUS METHYLASPARTATE AMMONIA LYASE===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_11796115}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1kko]] is~~ a ~~2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Citrobacter_amalonaticus Citrobacter amalonaticus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1KKO OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:011796115<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Citrobacter amalonaticus]]		[[Category: Citrobacter amalonaticus]]
	[[Category: Methylaspartate ammonia-lyase]]		[[Category: Methylaspartate ammonia-lyase]]

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

OCA — Wed, 05 Dec 2012 21:30:27 GMT

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

←Older revision

Revision as of 21:30, 5 December 2012

OCA at 21:30, 5 December 2012

OCA — Wed, 05 Dec 2012 21:30:23 GMT

←Older revision		Revision as of 21:30, 5 December 2012
Line 1:		Line 1:
-	{{Seed}}
	[[Image:1kko.png\|left\|200px]]		[[Image:1kko.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1kko", 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_1kko\| PDB=1kko \| SCENE= }}		{{STRUCTURE_1kko\| PDB=1kko \| SCENE= }}

	===CRYSTAL STRUCTURE OF CITROBACTER AMALONATICUS METHYLASPARTATE AMMONIA LYASE===		===CRYSTAL STRUCTURE OF CITROBACTER AMALONATICUS METHYLASPARTATE AMMONIA LYASE===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_11796115}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 11796115 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_11796115}}		{{ABSTRACT_PUBMED_11796115}}

	==About this Structure==		==About this Structure==
-	~~1KKO~~ is a 2 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Citrobacter_amalonaticus Citrobacter amalonaticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KKO OCA].	+	[[1kko]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Citrobacter_amalonaticus Citrobacter amalonaticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KKO OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~11796115~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:011796115</ref><references group="xtra"/>
	[[Category: Citrobacter amalonaticus]]		[[Category: Citrobacter amalonaticus]]
	[[Category: Methylaspartate ammonia-lyase]]		[[Category: Methylaspartate ammonia-lyase]]
Line 34:		Line 22:
	[[Category: Sedelnikova, S.]]		[[Category: Sedelnikova, S.]]
	[[Category: Enolase superfamily]]		[[Category: Enolase superfamily]]
		+	[[Category: Lyase]]
	[[Category: Methylaspartate ammonia lyase]]		[[Category: Methylaspartate ammonia lyase]]
	[[Category: Tim barrel]]		[[Category: Tim barrel]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 15:32:43 2009''

OCA at 13:32, 16 February 2009

OCA — Mon, 16 Feb 2009 13:32:44 GMT

←Older revision		Revision as of 13:32, 16 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	1KKO is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Citrobacter_amalonaticus Citrobacter amalonaticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KKO OCA].	+	1KKO is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Citrobacter_amalonaticus Citrobacter amalonaticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KKO OCA].

	==Reference==		==Reference==
-	~~Insights into enzyme evolution revealed by the structure of methylaspartate ammonia lyase., Levy CW, Buckley PA, Sedelnikova S, Kato Y, Asano Y, Rice DW, Baker PJ, Structure. 2002 Jan;10(1):105-13.~~ PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/11796115 11796115]~~	+	<ref group="xtra">PMID:11796115</ref><references group="xtra"/>
	[[Category: Citrobacter amalonaticus]]		[[Category: Citrobacter amalonaticus]]
	[[Category: Methylaspartate ammonia-lyase]]		[[Category: Methylaspartate ammonia-lyase]]
-	[[Category: Single protein]]
	[[Category: Asano, Y.]]		[[Category: Asano, Y.]]
	[[Category: Baker, P J.]]		[[Category: Baker, P J.]]
Line 38:		Line 37:
	[[Category: Tim barrel]]		[[Category: Tim barrel]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed Jul 2 10~~:28:~~56 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 15:32:43 2009''