3dc1 - Revision history

OCA at 15:06, 1 November 2023

2023-11-01T15:06:38Z

←Older revision		Revision as of 15:06, 1 November 2023
Line 3:		Line 3:
	<StructureSection load='3dc1' size='340' side='right'caption='[[3dc1]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='3dc1' size='340' side='right'caption='[[3dc1]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3dc1]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DC1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DC1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3dc1]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DC1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DC1 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=AKG:2~~-~~OXOGLUTARIC+ACID'>AKG</scene>~~, ~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</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]] 2.5Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=LLP:(2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5-(PHOSPHONOOXYMETHYL)PYRIDIN-4-YL]METHYLIDENEAMINO]HEXANOIC+ACID'>LLP</scene>~~</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AKG:2-OXOGLUTARIC+ACID'>AKG</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=LLP:(2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5-(PHOSPHONOOXYMETHYL)PYRIDIN-4-YL]METHYLIDENEAMINO]HEXANOIC+ACID'>LLP</scene></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AADAT, KAT2 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])~~</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=3dc1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dc1 OCA], [https://pdbe.org/3dc1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3dc1 RCSB], [https://www.ebi.ac.uk/pdbsum/3dc1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3dc1 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=3dc1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dc1 OCA], [https://pdbe.org/3dc1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3dc1 RCSB], [https://www.ebi.ac.uk/pdbsum/3dc1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3dc1 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/AADAT_HUMAN AADAT_HUMAN]] Transaminase with broad substrate specificity. Has transaminase activity towards aminoadipate, kynurenine, methionine and glutamate. Shows activity also towards tryptophan, aspartate and hydroxykynurenine. Accepts a variety of oxo-acids as amino-group acceptors, with a preference for 2-oxoglutarate, 2-oxocaproic acid, phenylpyruvate and alpha-oxo-gamma-methiol butyric acid. Can also use glyoxylate as amino-group acceptor (in vitro).<ref>PMID:18620547</ref>	+	[https://www.uniprot.org/uniprot/AADAT_HUMAN AADAT_HUMAN] Transaminase with broad substrate specificity. Has transaminase activity towards aminoadipate, kynurenine, methionine and glutamate. Shows activity also towards tryptophan, aspartate and hydroxykynurenine. Accepts a variety of oxo-acids as amino-group acceptors, with a preference for 2-oxoglutarate, 2-oxocaproic acid, phenylpyruvate and alpha-oxo-gamma-methiol butyric acid. Can also use glyoxylate as amino-group acceptor (in vitro).<ref>PMID:18620547</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: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Cai, T]]	+	[[Category: Cai T]]
-	[[Category: Han, Q]]	+	[[Category: Han Q]]
-	[[Category: Li, J]]	+	[[Category: Li J]]
-	[[Category: Robinson, H]]	+	[[Category: Robinson H]]
-	[[Category: Tagle~~, D A]]~~	+	[[Category: Tagle DA]]
-	~~[[Category: Alpha & beta protein]]~~	+
-	~~[[Category: Aminotransferase]]~~	+
-	~~[[Category: Mitochondrion]]~~	+
-	~~[[Category: Multifunctional enzyme]]~~	+
-	~~[[Category: Plp-dependent transferase]]~~	+
-	~~[[Category: Pyridoxal phosphate]]~~	+
-	~~[[Category: Transferase]]~~	+
-	~~[[Category: Transit peptide~~]]	+

OCA at 07:59, 2 February 2022

2022-02-02T07:59:57Z

←Older revision		Revision as of 07:59, 2 February 2022
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	==Crystal structure of kynurenine aminotransferase II complex with alpha-ketoglutarate==		==Crystal structure of kynurenine aminotransferase II complex with alpha-ketoglutarate==
-	<StructureSection load='3dc1' size='340' side='right' caption='[[3dc1]], [[Resolution\|resolution]] 2.50Å' scene=''>	+	<StructureSection load='3dc1' size='340' side='right'caption='[[3dc1]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3dc1]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DC1 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3DC1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3dc1]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DC1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DC1 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AKG:2-OXOGLUTARIC+ACID'>AKG</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AKG:2-OXOGLUTARIC+ACID'>AKG</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=LLP:(2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5-(PHOSPHONOOXYMETHYL)PYRIDIN-4-YL]METHYLIDENEAMINO]HEXANOIC+ACID'>LLP</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=LLP:(2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5-(PHOSPHONOOXYMETHYL)PYRIDIN-4-YL]METHYLIDENEAMINO]HEXANOIC+ACID'>LLP</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AADAT, KAT2 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AADAT, KAT2 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=3dc1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dc1 OCA], [~~http~~://pdbe.org/3dc1 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3dc1 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3dc1 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3dc1 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=3dc1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dc1 OCA], [https://pdbe.org/3dc1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3dc1 RCSB], [https://www.ebi.ac.uk/pdbsum/3dc1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3dc1 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/AADAT_HUMAN AADAT_HUMAN]] Transaminase with broad substrate specificity. Has transaminase activity towards aminoadipate, kynurenine, methionine and glutamate. Shows activity also towards tryptophan, aspartate and hydroxykynurenine. Accepts a variety of oxo-acids as amino-group acceptors, with a preference for 2-oxoglutarate, 2-oxocaproic acid, phenylpyruvate and alpha-oxo-gamma-methiol butyric acid. Can also use glyoxylate as amino-group acceptor (in vitro).<ref>PMID:18620547</ref>	+	[[https://www.uniprot.org/uniprot/AADAT_HUMAN AADAT_HUMAN]] Transaminase with broad substrate specificity. Has transaminase activity towards aminoadipate, kynurenine, methionine and glutamate. Shows activity also towards tryptophan, aspartate and hydroxykynurenine. Accepts a variety of oxo-acids as amino-group acceptors, with a preference for 2-oxoglutarate, 2-oxocaproic acid, phenylpyruvate and alpha-oxo-gamma-methiol butyric acid. Can also use glyoxylate as amino-group acceptor (in vitro).<ref>PMID:18620547</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Cai, T]]		[[Category: Cai, T]]
	[[Category: Han, Q]]		[[Category: Han, Q]]

OCA at 09:17, 14 November 2018

2018-11-14T09:17:57Z

←Older revision		Revision as of 09:17, 14 November 2018
Line 1:		Line 1:
		+
	==Crystal structure of kynurenine aminotransferase II complex with alpha-ketoglutarate==		==Crystal structure of kynurenine aminotransferase II complex with alpha-ketoglutarate==
	<StructureSection load='3dc1' size='340' side='right' caption='[[3dc1]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='3dc1' size='340' side='right' caption='[[3dc1]], [[Resolution\|resolution]] 2.50Å' scene=''>
Line 6:		Line 7:
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=LLP:(2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5-(PHOSPHONOOXYMETHYL)PYRIDIN-4-YL]METHYLIDENEAMINO]HEXANOIC+ACID'>LLP</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=LLP:(2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5-(PHOSPHONOOXYMETHYL)PYRIDIN-4-YL]METHYLIDENEAMINO]HEXANOIC+ACID'>LLP</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AADAT, KAT2 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AADAT, KAT2 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=3dc1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dc1 OCA], [http://pdbe.org/3dc1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3dc1 RCSB], [http://www.ebi.ac.uk/pdbsum/3dc1 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=3dc1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dc1 OCA], [http://pdbe.org/3dc1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3dc1 RCSB], [http://www.ebi.ac.uk/pdbsum/3dc1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3dc1 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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/dc/3dc1_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/dc/3dc1_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 04:07, 7 February 2016

2016-02-07T04:07:48Z

←Older revision		Revision as of 04:07, 7 February 2016
Line 2:		Line 2:
	<StructureSection load='3dc1' size='340' side='right' caption='[[3dc1]], [[Resolution\|resolution]] 2.50Å' scene=''>		<StructureSection load='3dc1' size='340' side='right' caption='[[3dc1]], [[Resolution\|resolution]] 2.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3dc1]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Homo_sapiens Homo sapiens~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DC1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3DC1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3dc1]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DC1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3DC1 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AKG:2-OXOGLUTARIC+ACID'>AKG</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AKG:2-OXOGLUTARIC+ACID'>AKG</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=LLP:2-~~LYSINE(~~3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-~~YLMETHANE)~~'>LLP</scene></td></tr>	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=LLP:(2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5-(PHOSPHONOOXYMETHYL)PYRIDIN-4-YL]METHYLIDENEAMINO]HEXANOIC+ACID'>LLP</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AADAT, KAT2 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 ~~Homo sapiens~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AADAT, KAT2 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=3dc1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dc1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3dc1 RCSB], [http://www.ebi.ac.uk/pdbsum/3dc1 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=3dc1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dc1 OCA], [http://pdbe.org/3dc1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3dc1 RCSB], [http://www.ebi.ac.uk/pdbsum/3dc1 PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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=3dc1 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 3dc1" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: Cai, T]]		[[Category: Cai, T]]
	[[Category: Han, Q]]		[[Category: Han, Q]]

OCA at 07:44, 24 December 2014

2014-12-24T07:44:07Z

←Older revision		Revision as of 07:44, 24 December 2014
Line 8:		Line 8:
	<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=3dc1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dc1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3dc1 RCSB], [http://www.ebi.ac.uk/pdbsum/3dc1 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=3dc1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dc1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3dc1 RCSB], [http://www.ebi.ac.uk/pdbsum/3dc1 PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/AADAT_HUMAN AADAT_HUMAN]] Transaminase with broad substrate specificity. Has transaminase activity towards aminoadipate, kynurenine, methionine and glutamate. Shows activity also towards tryptophan, aspartate and hydroxykynurenine. Accepts a variety of oxo-acids as amino-group acceptors, with a preference for 2-oxoglutarate, 2-oxocaproic acid, phenylpyruvate and alpha-oxo-gamma-methiol butyric acid. Can also use glyoxylate as amino-group acceptor (in vitro).<ref>PMID:18620547</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 07:58, 12 November 2014

2014-11-12T07:58:52Z

←Older revision		Revision as of 07:58, 12 November 2014
Line 1:		Line 1:
-	[[~~Image:~~3dc1.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of kynurenine aminotransferase II complex with alpha-ketoglutarate==
		+	<StructureSection load='3dc1' size='340' side='right' caption='[[3dc1]], [[Resolution\|resolution]] 2.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3dc1]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DC1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3DC1 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AKG:2-OXOGLUTARIC+ACID'>AKG</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=LLP:2-LYSINE(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHANE)'>LLP</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AADAT, KAT2 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</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=3dc1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dc1 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3dc1 RCSB], [http://www.ebi.ac.uk/pdbsum/3dc1 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/dc/3dc1_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 ==
		+	KAT (kynurenine aminotransferase) II is a primary enzyme in the brain for catalysing the transamination of kynurenine to KYNA (kynurenic acid). KYNA is the only known endogenous antagonist of the N-methyl-D-aspartate receptor. The enzyme also catalyses the transamination of aminoadipate to alpha-oxoadipate; therefore it was initially named AADAT (aminoadipate aminotransferase). As an endotoxin, aminoadipate influences various elements of glutamatergic neurotransmission and kills primary astrocytes in the brain. A number of studies dealing with the biochemical and functional characteristics of this enzyme exist in the literature, but a systematic assessment of KAT II addressing its substrate profile and kinetic properties has not been performed. The present study examines the biochemical and structural characterization of a human KAT II/AADAT. Substrate screening of human KAT II revealed that the enzyme has a very broad substrate specificity, is capable of catalysing the transamination of 16 out of 24 tested amino acids and could utilize all 16 tested alpha-oxo acids as amino-group acceptors. Kinetic analysis of human KAT II demonstrated its catalytic efficiency for individual amino-group donors and acceptors, providing information as to its preferred substrate affinity. Structural analysis of the human KAT II complex with alpha-oxoglutaric acid revealed a conformational change of an N-terminal fraction, residues 15-33, that is able to adapt to different substrate sizes, which provides a structural basis for its broad substrate specificity.

-	~~{{STRUCTURE_3dc1\| PDB=3dc1 \| SCENE= }}~~	+	Substrate specificity and structure of human aminoadipate aminotransferase/kynurenine aminotransferase II.,Han Q, Cai T, Tagle DA, Robinson H, Li J Biosci Rep. 2008 Aug;28(4):205-15. PMID:18620547<ref>PMID:18620547</ref>

-	~~===Crystal structure~~ of ~~kynurenine aminotransferase II complex with alpha-ketoglutarate===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_18620547}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[3dc1]] is a 4 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Homo_sapiens Homo sapiens]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3DC1 OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:018620547<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Cai, T.]]	+	[[Category: Cai, T]]
-	[[Category: Han, Q.]]	+	[[Category: Han, Q]]
-	[[Category: Li, J.]]	+	[[Category: Li, J]]
-	[[Category: Robinson, H.]]	+	[[Category: Robinson, H]]
-	[[Category: Tagle, D A.]]	+	[[Category: Tagle, D A]]
	[[Category: Alpha & beta protein]]		[[Category: Alpha & beta protein]]
	[[Category: Aminotransferase]]		[[Category: Aminotransferase]]

OCA: Protected "3dc1" [edit=sysop:move=sysop]

2013-01-07T18:30:11Z

Protected "3dc1" [edit=sysop:move=sysop]

←Older revision

Revision as of 18:30, 7 January 2013

OCA at 18:30, 7 January 2013

2013-01-07T18:30:09Z

←Older revision		Revision as of 18:30, 7 January 2013
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-	{{Seed}}
	[[Image:3dc1.png\|left\|200px]]		[[Image:3dc1.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3dc1", creates the "Structure Box" on the page.
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	{{STRUCTURE_3dc1\| PDB=3dc1 \| SCENE= }}		{{STRUCTURE_3dc1\| PDB=3dc1 \| SCENE= }}

	===Crystal structure of kynurenine aminotransferase II complex with alpha-ketoglutarate===		===Crystal structure of kynurenine aminotransferase II complex with alpha-ketoglutarate===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_18620547}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 18620547 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_18620547}}		{{ABSTRACT_PUBMED_18620547}}

	==About this Structure==		==About this Structure==
-	~~3DC1~~ is a 4 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DC1 OCA].	+	[[3dc1]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DC1 OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~18620547~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:018620547</ref><references group="xtra"/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Cai, T.]]		[[Category: Cai, T.]]
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	[[Category: Tagle, D A.]]		[[Category: Tagle, D A.]]
	[[Category: Alpha & beta protein]]		[[Category: Alpha & beta protein]]
-	[[Category: Alternative splicing]]
	[[Category: Aminotransferase]]		[[Category: Aminotransferase]]
	[[Category: Mitochondrion]]		[[Category: Mitochondrion]]
Line 39:		Line 26:
	[[Category: Transferase]]		[[Category: Transferase]]
	[[Category: Transit peptide]]		[[Category: Transit peptide]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 11:07:12 2009''

OCA at 09:07, 16 February 2009

2009-02-16T09:07:15Z

←Older revision		Revision as of 09:07, 16 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	3DC1 is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DC1 OCA].	+	3DC1 is a 4 chains structure of sequences from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DC1 OCA].

	==Reference==		==Reference==
-	~~Substrate specificity and structure of human aminoadipate aminotransferase/kynurenine aminotransferase II., Han Q, Cai T, Tagle DA, Robinson H, Li J, Biosci Rep. 2008 Aug;28(4):205-15.~~ PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/18620547 18620547]~~	+	<ref group="xtra">PMID:18620547</ref><references group="xtra"/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Single protein]]
	[[Category: Cai, T.]]		[[Category: Cai, T.]]
	[[Category: Han, Q.]]		[[Category: Han, Q.]]
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	[[Category: Transit peptide]]		[[Category: Transit peptide]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed Sep 10 09:~~11:~~31 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 11:07:12 2009''

OCA at 06:11, 10 September 2008

2008-09-10T06:11:31Z

←Older revision		Revision as of 06:11, 10 September 2008
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3dc1.png\|left\|200px]]

-	The ~~entry 3dc1~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3dc1", 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_3dc1\| PDB=3dc1 \| SCENE= }}

-	~~Authors: Han, Q., Cai, T., Tagle, D.A., Robinson, H., Li, J.~~	+	===Crystal structure of kynurenine aminotransferase II complex with alpha-ketoglutarate===

-	Description: Crystal structure of kynurenine aminotransferase II complex with alpha-ketoglutarate

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Fri Jul 11 13~~:06:14 2008''	+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_18620547}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 18620547 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_18620547}}
		+
		+	==About this Structure==
		+	3DC1 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DC1 OCA].
		+
		+	==Reference==
		+	Substrate specificity and structure of human aminoadipate aminotransferase/kynurenine aminotransferase II., Han Q, Cai T, Tagle DA, Robinson H, Li J, Biosci Rep. 2008 Aug;28(4):205-15. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18620547 18620547]
		+	[[Category: Homo sapiens]]
		+	[[Category: Single protein]]
		+	[[Category: Cai, T.]]
		+	[[Category: Han, Q.]]
		+	[[Category: Li, J.]]
		+	[[Category: Robinson, H.]]
		+	[[Category: Tagle, D A.]]
		+	[[Category: Alpha & beta protein]]
		+	[[Category: Alternative splicing]]
		+	[[Category: Aminotransferase]]
		+	[[Category: Mitochondrion]]
		+	[[Category: Multifunctional enzyme]]
		+	[[Category: Plp-dependent transferase]]
		+	[[Category: Pyridoxal phosphate]]
		+	[[Category: Transferase]]
		+	[[Category: Transit peptide]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 10 09:11:31 2008''