2xta - Revision history

OCA at 10:38, 20 December 2023

2023-12-20T10:38:55Z

← Older revision		Revision as of 10:38, 20 December 2023
Line 3:		Line 3:
	<StructureSection load='2xta' size='340' side='right'caption='[[2xta]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='2xta' size='340' side='right'caption='[[2xta]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2xta]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Mycs2 Mycs2~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XTA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2XTA FirstGlance]. <br>		<table><tr><td colspan='2'>[[2xta]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycolicibacterium_smegmatis_MC2_155 Mycolicibacterium smegmatis MC2 155]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XTA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2XTA FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACO:ACETYL+COENZYME+*A'>ACO</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</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]] 2.2Å</td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2xt5\|2xt5]], [[2xt8\|2xt8]], [[2xt7\|2xt7]], [[2xt9\|2xt9]], [[2xt6\|2xt6]]</div></td></tr>		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACO:ACETYL+COENZYME+*A'>ACO</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/2-oxoglutarate_decarboxylase 2-oxoglutarate decarboxylase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.71 4.1.1.71] </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=2xta FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xta OCA], [https://pdbe.org/2xta PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2xta RCSB], [https://www.ebi.ac.uk/pdbsum/2xta PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2xta 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=2xta FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xta OCA], [https://pdbe.org/2xta PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2xta RCSB], [https://www.ebi.ac.uk/pdbsum/2xta PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2xta ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/KGD_MYCS2 KGD_MYCS2]] Shows three enzymatic activities that share a first common step, the attack of thiamine-PP on 2-oxoglutarate (alpha-ketoglutarate, KG), leading to the formation of an enamine-thiamine-PP intermediate upon decarboxylation. Thus, displays KGD activity, catalyzing the decarboxylation from five-carbon 2-oxoglutarate to four-carbon succinate semialdehyde (SSA). Also catalyzes C-C bond formation between the activated aldehyde formed after decarboxylation of alpha-ketoglutarate and the carbonyl of glyoxylate (GLX), to yield 2-hydroxy-3-oxoadipate (HOA), which spontaneously decarboxylates to form 5-hydroxylevulinate (HLA). And is also a component of the 2-oxoglutarate dehydrogenase (ODH) complex, that catalyzes the overall conversion of 2-oxoglutarate to succinyl-CoA and CO(2). The KG decarboxylase and KG dehydrogenase reactions provide two alternative, tightly regulated, pathways connecting the oxidative and reductive branches of the TCA cycle.<ref>PMID:19019160</ref> <ref>PMID:21867916</ref>		[https://www.uniprot.org/uniprot/KGD_MYCS2 KGD_MYCS2] Shows three enzymatic activities that share a first common step, the attack of thiamine-PP on 2-oxoglutarate (alpha-ketoglutarate, KG), leading to the formation of an enamine-thiamine-PP intermediate upon decarboxylation. Thus, displays KGD activity, catalyzing the decarboxylation from five-carbon 2-oxoglutarate to four-carbon succinate semialdehyde (SSA). Also catalyzes C-C bond formation between the activated aldehyde formed after decarboxylation of alpha-ketoglutarate and the carbonyl of glyoxylate (GLX), to yield 2-hydroxy-3-oxoadipate (HOA), which spontaneously decarboxylates to form 5-hydroxylevulinate (HLA). And is also a component of the 2-oxoglutarate dehydrogenase (ODH) complex, that catalyzes the overall conversion of 2-oxoglutarate to succinyl-CoA and CO(2). The KG decarboxylase and KG dehydrogenase reactions provide two alternative, tightly regulated, pathways connecting the oxidative and reductive branches of the TCA cycle.<ref>PMID:19019160</ref> <ref>PMID:21867916</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	~~[[Category: 2-oxoglutarate decarboxylase]]~~
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: ~~Mycs2~~]]		[[Category: Mycolicibacterium smegmatis MC2 155]]
	[[Category: Alzari~~, P M~~]]		[[Category: Alzari PM]]
	[[Category: Bellinzoni, M]]		[[Category: Bellinzoni M]]
	[[Category: Hare~~, H M.O~~]]		[[Category: O'Hare HM]]
	[[Category: Wagner, T]]		[[Category: Wagner T]]
	[[Category: Wehenkel~~, A M]]~~		[[Category: Wehenkel AM]]
	~~[[Category: Kdh]]~~
	~~[[Category: Kgd]]~~
	~~[[Category: Lyase~~]]

OCA at 12:16, 27 April 2022

2022-04-27T12:16:55Z

← Older revision		Revision as of 12:16, 27 April 2022
Line 3:		Line 3:
	<StructureSection load='2xta' size='340' side='right'caption='[[2xta]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='2xta' size='340' side='right'caption='[[2xta]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2xta]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Mycs2 Mycs2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XTA OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2XTA FirstGlance]. <br>		<table><tr><td colspan='2'>[[2xta]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycs2 Mycs2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XTA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2XTA FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACO:ACETYL+COENZYME+*A'>ACO</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACO:ACETYL+COENZYME+*A'>ACO</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2xt5\|2xt5]], [[2xt8\|2xt8]], [[2xt7\|2xt7]], [[2xt9\|2xt9]], [[2xt6\|2xt6]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2xt5\|2xt5]], [[2xt8\|2xt8]], [[2xt7\|2xt7]], [[2xt9\|2xt9]], [[2xt6\|2xt6]]</div></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/2-oxoglutarate_decarboxylase 2-oxoglutarate decarboxylase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.71 4.1.1.71] </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-oxoglutarate_decarboxylase 2-oxoglutarate decarboxylase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.71 4.1.1.71] </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=2xta FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xta OCA], [~~http~~://pdbe.org/2xta PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2xta RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2xta PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2xta 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=2xta FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xta OCA], [https://pdbe.org/2xta PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2xta RCSB], [https://www.ebi.ac.uk/pdbsum/2xta PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2xta ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[~~http~~://www.uniprot.org/uniprot/KGD_MYCS2 KGD_MYCS2]] Shows three enzymatic activities that share a first common step, the attack of thiamine-PP on 2-oxoglutarate (alpha-ketoglutarate, KG), leading to the formation of an enamine-thiamine-PP intermediate upon decarboxylation. Thus, displays KGD activity, catalyzing the decarboxylation from five-carbon 2-oxoglutarate to four-carbon succinate semialdehyde (SSA). Also catalyzes C-C bond formation between the activated aldehyde formed after decarboxylation of alpha-ketoglutarate and the carbonyl of glyoxylate (GLX), to yield 2-hydroxy-3-oxoadipate (HOA), which spontaneously decarboxylates to form 5-hydroxylevulinate (HLA). And is also a component of the 2-oxoglutarate dehydrogenase (ODH) complex, that catalyzes the overall conversion of 2-oxoglutarate to succinyl-CoA and CO(2). The KG decarboxylase and KG dehydrogenase reactions provide two alternative, tightly regulated, pathways connecting the oxidative and reductive branches of the TCA cycle.<ref>PMID:19019160</ref> <ref>PMID:21867916</ref>		[[https://www.uniprot.org/uniprot/KGD_MYCS2 KGD_MYCS2]] Shows three enzymatic activities that share a first common step, the attack of thiamine-PP on 2-oxoglutarate (alpha-ketoglutarate, KG), leading to the formation of an enamine-thiamine-PP intermediate upon decarboxylation. Thus, displays KGD activity, catalyzing the decarboxylation from five-carbon 2-oxoglutarate to four-carbon succinate semialdehyde (SSA). Also catalyzes C-C bond formation between the activated aldehyde formed after decarboxylation of alpha-ketoglutarate and the carbonyl of glyoxylate (GLX), to yield 2-hydroxy-3-oxoadipate (HOA), which spontaneously decarboxylates to form 5-hydroxylevulinate (HLA). And is also a component of the 2-oxoglutarate dehydrogenase (ODH) complex, that catalyzes the overall conversion of 2-oxoglutarate to succinyl-CoA and CO(2). The KG decarboxylase and KG dehydrogenase reactions provide two alternative, tightly regulated, pathways connecting the oxidative and reductive branches of the TCA cycle.<ref>PMID:19019160</ref> <ref>PMID:21867916</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 12:20, 22 July 2020

2020-07-22T12:20:11Z

← Older revision		Revision as of 12:20, 22 July 2020
Line 1:		Line 1:

	==Crystal structure of the SucA domain of Mycobacterium smegmatis alpha- ketoglutarate decarboxylase in complex with acetyl-CoA (triclinic form)==		==Crystal structure of the SucA domain of Mycobacterium smegmatis alpha- ketoglutarate decarboxylase in complex with acetyl-CoA (triclinic form)==
	<StructureSection load='2xta' size='340' side='right' caption='[[2xta]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='2xta' size='340' side='right'caption='[[2xta]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2xta]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycs2 Mycs2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XTA OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2XTA FirstGlance]. <br>		<table><tr><td colspan='2'>[[2xta]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycs2 Mycs2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XTA OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2XTA FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACO:ACETYL+COENZYME+*A'>ACO</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACO:ACETYL+COENZYME+*A'>ACO</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2xt5\|2xt5]], [[2xt8\|2xt8]], [[2xt7\|2xt7]], [[2xt9\|2xt9]], [[2xt6\|2xt6]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2xt5\|2xt5]], [[2xt8\|2xt8]], [[2xt7\|2xt7]], [[2xt9\|2xt9]], [[2xt6\|2xt6]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/2-oxoglutarate_decarboxylase 2-oxoglutarate decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.71 4.1.1.71] </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-oxoglutarate_decarboxylase 2-oxoglutarate decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.71 4.1.1.71] </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=2xta FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xta OCA], [http://pdbe.org/2xta PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2xta RCSB], [http://www.ebi.ac.uk/pdbsum/2xta PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2xta 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=2xta FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xta OCA], [http://pdbe.org/2xta PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2xta RCSB], [http://www.ebi.ac.uk/pdbsum/2xta PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2xta ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 25:		Line 25:
	</StructureSection>		</StructureSection>
	[[Category: 2-oxoglutarate decarboxylase]]		[[Category: 2-oxoglutarate decarboxylase]]
			[[Category: Large Structures]]
	[[Category: Mycs2]]		[[Category: Mycs2]]
	[[Category: Alzari, P M]]		[[Category: Alzari, P M]]

OCA at 08:55, 10 October 2018

2018-10-10T08:55:16Z

← Older revision		Revision as of 08:55, 10 October 2018
Line 1:		Line 1:

	==~~CRYSTAL STRUCTURE OF THE SUCA DOMAIN OF MYCOBACTERIUM SMEGMATIS ALPHA~~-~~KETOGLUTARATE DECARBOXYLASE IN COMPLEX WITH ACETYL~~-~~COA~~ (~~TRICLINIC FORM~~)==		==Crystal structure of the SucA domain of Mycobacterium smegmatis alpha- ketoglutarate decarboxylase in complex with acetyl-CoA (triclinic form)==
	<StructureSection load='2xta' size='340' side='right' caption='[[2xta]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='2xta' size='340' side='right' caption='[[2xta]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==

OCA at 15:48, 5 August 2016

2016-08-05T15:48:23Z

← Older revision		Revision as of 15:48, 5 August 2016
Line 1:		Line 1:

	==CRYSTAL STRUCTURE OF THE SUCA DOMAIN OF MYCOBACTERIUM SMEGMATIS ALPHA-KETOGLUTARATE DECARBOXYLASE IN COMPLEX WITH ACETYL-COA (TRICLINIC FORM)==		==CRYSTAL STRUCTURE OF THE SUCA DOMAIN OF MYCOBACTERIUM SMEGMATIS ALPHA-KETOGLUTARATE DECARBOXYLASE IN COMPLEX WITH ACETYL-COA (TRICLINIC FORM)==
	<StructureSection load='2xta' size='340' side='right' caption='[[2xta]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='2xta' size='340' side='right' caption='[[2xta]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2xta]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Mycobacterium_smegmatis Mycobacterium smegmatis~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XTA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2XTA FirstGlance]. <br>		<table><tr><td colspan='2'>[[2xta]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycs2 Mycs2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XTA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2XTA FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACO:ACETYL+COENZYME+*A'>ACO</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACO:ACETYL+COENZYME+*A'>ACO</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2xt5\|2xt5]], [[2xt8\|2xt8]], [[2xt7\|2xt7]], [[2xt9\|2xt9]], [[2xt6\|2xt6]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2xt5\|2xt5]], [[2xt8\|2xt8]], [[2xt7\|2xt7]], [[2xt9\|2xt9]], [[2xt6\|2xt6]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/2-oxoglutarate_decarboxylase 2-oxoglutarate decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.71 4.1.1.71] </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-oxoglutarate_decarboxylase 2-oxoglutarate decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.71 4.1.1.71] </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=2xta FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xta OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2xta RCSB], [http://www.ebi.ac.uk/pdbsum/2xta 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=2xta FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xta OCA], [http://pdbe.org/2xta PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2xta RCSB], [http://www.ebi.ac.uk/pdbsum/2xta PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2xta ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[[http://www.uniprot.org/uniprot/KGD_MYCS2 KGD_MYCS2]] Shows three enzymatic activities that share a first common step, the attack of thiamine-PP on 2-oxoglutarate (alpha-ketoglutarate, KG), leading to the formation of an enamine-thiamine-PP intermediate upon decarboxylation. Thus, displays KGD activity, catalyzing the decarboxylation from five-carbon 2-oxoglutarate to four-carbon succinate semialdehyde (SSA). Also catalyzes C-C bond formation between the activated aldehyde formed after decarboxylation of alpha-ketoglutarate and the carbonyl of glyoxylate (GLX), to yield 2-hydroxy-3-oxoadipate (HOA), which spontaneously decarboxylates to form 5-hydroxylevulinate (HLA). And is also a component of the 2-oxoglutarate dehydrogenase (ODH) complex, that catalyzes the overall conversion of 2-oxoglutarate to succinyl-CoA and CO(2). The KG decarboxylase and KG dehydrogenase reactions provide two alternative, tightly regulated, pathways connecting the oxidative and reductive branches of the TCA cycle.<ref>PMID:19019160</ref> <ref>PMID:21867916</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 16:		Line 19:
	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 2xta" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
Line 21:		Line 25:
	</StructureSection>		</StructureSection>
	[[Category: 2-oxoglutarate decarboxylase]]		[[Category: 2-oxoglutarate decarboxylase]]
	[[Category: ~~Mycobacterium smegmatis~~]]		[[Category: Mycs2]]
	[[Category: Alzari, P M]]		[[Category: Alzari, P M]]
	[[Category: Bellinzoni, M]]		[[Category: Bellinzoni, M]]

OCA at 21:17, 3 January 2015

2015-01-03T21:17:07Z

← Older revision		Revision as of 21:17, 3 January 2015
Line 2:		Line 2:
	<StructureSection load='2xta' size='340' side='right' caption='[[2xta]], [[Resolution\|resolution]] 2.20Å' scene=''>		<StructureSection load='2xta' size='340' side='right' caption='[[2xta]], [[Resolution\|resolution]] 2.20Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2xta]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycobacterium_smegmatis Mycobacterium smegmatis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XTA OCA]. <br>		<table><tr><td colspan='2'>[[2xta]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycobacterium_smegmatis Mycobacterium smegmatis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XTA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2XTA FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACO:ACETYL+COENZYME+*A'>ACO</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</scene><br>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACO:ACETYL+COENZYME+*A'>ACO</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</scene></td></tr>
	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2xt5\|2xt5]], [[2xt8\|2xt8]], [[2xt7\|2xt7]], [[2xt9\|2xt9]], [[2xt6\|2xt6]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2xt5\|2xt5]], [[2xt8\|2xt8]], [[2xt7\|2xt7]], [[2xt9\|2xt9]], [[2xt6\|2xt6]]</td></tr>
	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/~~Glucokinase Glucokinase~~], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.~~2 2~~.7.1.2] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/2-oxoglutarate_decarboxylase 2-oxoglutarate decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.71 4.1.1.71] </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=2xta FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xta OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2xta RCSB], [http://www.ebi.ac.uk/pdbsum/2xta 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=2xta FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xta OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2xta RCSB], [http://www.ebi.ac.uk/pdbsum/2xta PDBsum]</span></td></tr>
	<table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 14:		Line 14:
	Functional plasticity and allosteric regulation of alpha-ketoglutarate decarboxylase in central mycobacterial metabolism.,Wagner T, Bellinzoni M, Wehenkel A, O'Hare HM, Alzari PM Chem Biol. 2011 Aug 26;18(8):1011-20. PMID:21867916<ref>PMID:21867916</ref>		Functional plasticity and allosteric regulation of alpha-ketoglutarate decarboxylase in central mycobacterial metabolism.,Wagner T, Bellinzoni M, Wehenkel A, O'Hare HM, Alzari PM Chem Biol. 2011 Aug 26;18(8):1011-20. PMID:21867916<ref>PMID:21867916</ref>

	From ~~MEDLINEÂ®~~/~~PubMedÂ®~~, 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>
	== References ==		== References ==
Line 22:		Line 22:
	[[Category: 2-oxoglutarate decarboxylase]]		[[Category: 2-oxoglutarate decarboxylase]]
	[[Category: Mycobacterium smegmatis]]		[[Category: Mycobacterium smegmatis]]
	[[Category: Alzari, P M.]]		[[Category: Alzari, P M]]
	[[Category: Bellinzoni, M.]]		[[Category: Bellinzoni, M]]
	[[Category: Hare, H M.O.]]		[[Category: Hare, H M.O]]
	[[Category: Wagner, T.]]		[[Category: Wagner, T]]
	[[Category: Wehenkel, A M.]]		[[Category: Wehenkel, A M]]
	[[Category: Kdh]]		[[Category: Kdh]]
	[[Category: Kgd]]		[[Category: Kgd]]
	[[Category: Lyase]]		[[Category: Lyase]]

OCA at 07:43, 14 May 2014

2014-05-14T07:43:34Z

← Older revision		Revision as of 07:43, 14 May 2014
Line 1:		Line 1:
	[[~~Image~~:~~2xta~~.~~png~~\|~~left~~\|~~200px~~]]		==CRYSTAL STRUCTURE OF THE SUCA DOMAIN OF MYCOBACTERIUM SMEGMATIS ALPHA-KETOGLUTARATE DECARBOXYLASE IN COMPLEX WITH ACETYL-COA (TRICLINIC FORM)==
			<StructureSection load='2xta' size='340' side='right' caption='[[2xta]], [[Resolution\|resolution]] 2.20Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[2xta]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycobacterium_smegmatis Mycobacterium smegmatis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XTA OCA]. <br>
			</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACO:ACETYL+COENZYME+*A'>ACO</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</scene><br>
			<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2xt5\|2xt5]], [[2xt8\|2xt8]], [[2xt7\|2xt7]], [[2xt9\|2xt9]], [[2xt6\|2xt6]]</td></tr>
			<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glucokinase Glucokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.2 2.7.1.2] </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=2xta FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xta OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2xta RCSB], [http://www.ebi.ac.uk/pdbsum/2xta PDBsum]</span></td></tr>
			<table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			The alpha-ketoglutarate dehydrogenase (KDH) complex is a major regulatory point of aerobic energy metabolism. Mycobacterium tuberculosis was reported to lack KDH activity, and the putative KDH E1o component, alpha-ketoglutarate decarboxylase (KGD), was instead assigned as a decarboxylase or carboligase. Here, we show that this protein does in fact sustain KDH activity, as well as the additional two reactions, and these multifunctional properties are shared by the Escherichia coli homolog, SucA. We also show that the mycobacterial enzyme is finely regulated by an additional acyltransferase-like domain and by the action of acetyl-CoA, a powerful allosteric activator able to enhance the concerted protein motions observed during catalysis. Our results uncover the functional plasticity of a crucial node in bacterial metabolism, which may be important for M. tuberculosis during host infection.

	<!--		Functional plasticity and allosteric regulation of alpha-ketoglutarate decarboxylase in central mycobacterial metabolism.,Wagner T, Bellinzoni M, Wehenkel A, O'Hare HM, Alzari PM Chem Biol. 2011 Aug 26;18(8):1011-20. PMID:21867916<ref>PMID:21867916</ref>
	~~The line below this paragraph~~, ~~containing "STRUCTURE_2xta"~~, ~~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_2xta\| PDB=2xta \| SCENE= }}~~

	~~===CRYSTAL STRUCTURE OF THE SUCA DOMAIN OF MYCOBACTERIUM SMEGMATIS ALPHA-KETOGLUTARATE DECARBOXYLASE IN COMPLEX WITH ACETYL-COA (TRICLINIC FORM)===~~		From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
			</div>
			== References ==
	~~<!--~~		<references/>
	~~The line below this paragraph~~, ~~{{ABSTRACT_PUBMED_21867916}}, adds the Publication Abstract to~~ the ~~page~~		__TOC__
	~~(as it appears on PubMed at http://www~~.~~pubmed~~.~~gov), where 21867916 is the PubMed ID number~~.		</StructureSection>
	-->
	~~{{ABSTRACT_PUBMED_21867916}}~~

	~~==About this Structure==~~
	~~[[2xta]] is a 4 chain structure with sequence from [http:~~/~~/en.wikipedia.org/wiki/Mycobacterium_smegmatis Mycobacterium smegmatis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XTA OCA].~~

	==~~Reference~~==
	<~~ref group="xtra">PMID:021867916<~~/~~ref~~><~~references group="xtra"~~/>
	[[Category: 2-oxoglutarate decarboxylase]]		[[Category: 2-oxoglutarate decarboxylase]]
	[[Category: Mycobacterium smegmatis]]		[[Category: Mycobacterium smegmatis]]

OCA at 07:28, 30 October 2011

2011-10-30T07:28:29Z

← Older revision		Revision as of 07:28, 30 October 2011
Line 1:		Line 1:
	[[Image:2xta.~~jpg~~\|left\|200px]]		[[Image:2xta.png\|left\|200px]]

	<!--		<!--
Line 11:		Line 11:
	===CRYSTAL STRUCTURE OF THE SUCA DOMAIN OF MYCOBACTERIUM SMEGMATIS ALPHA-KETOGLUTARATE DECARBOXYLASE IN COMPLEX WITH ACETYL-COA (TRICLINIC FORM)===		===CRYSTAL STRUCTURE OF THE SUCA DOMAIN OF MYCOBACTERIUM SMEGMATIS ALPHA-KETOGLUTARATE DECARBOXYLASE IN COMPLEX WITH ACETYL-COA (TRICLINIC FORM)===


			<!--
			The line below this paragraph, {{ABSTRACT_PUBMED_21867916}}, adds the Publication Abstract to the page
			(as it appears on PubMed at http://www.pubmed.gov), where 21867916 is the PubMed ID number.
			-->
			{{ABSTRACT_PUBMED_21867916}}

	==About this Structure==		==About this Structure==
	[[2xta]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycobacterium_smegmatis Mycobacterium smegmatis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XTA OCA].		[[2xta]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycobacterium_smegmatis Mycobacterium smegmatis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XTA OCA].

			==Reference==
			<ref group="xtra">PMID:021867916</ref><references group="xtra"/>
	[[Category: 2-oxoglutarate decarboxylase]]		[[Category: 2-oxoglutarate decarboxylase]]
	[[Category: Mycobacterium smegmatis]]		[[Category: Mycobacterium smegmatis]]

OCA: Protected "2xta" [edit=sysop:move=sysop]

2011-06-15T06:24:22Z

Protected "2xta" [edit=sysop:move=sysop]

← Older revision	Revision as of 06:24, 15 June 2011
(No difference)

OCA at 06:24, 15 June 2011

2011-06-15T06:24:20Z

@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
+[[Image:2xta.jpg|left|200px]]
-The entry 2xta is ON HOLD  until Paper Publication
+<!--
-Authors: Wagner, T., Bellinzoni, M., Wehenkel, A.M., O'Hare, H.M., Alzari, P.M.
+===CRYSTAL STRUCTURE OF THE SUCA DOMAIN OF MYCOBACTERIUM SMEGMATIS ALPHA-KETOGLUTARATE DECARBOXYLASE IN COMPLEX WITH ACETYL-COA (TRICLINIC FORM)===
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Oct 13 10:25:21 2010''
+==About this Structure==