6abw - Revision history

OCA at 09:24, 22 November 2023

2023-11-22T09:24:24Z

←Older revision		Revision as of 09:24, 22 November 2023
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	==Crystal structure of citrate synthase (Msed_0281) from Metallosphaera sedula in complex with acetyl-CoA==		==Crystal structure of citrate synthase (Msed_0281) from Metallosphaera sedula in complex with acetyl-CoA==
-	<StructureSection load='6abw' size='340' side='right' caption='[[6abw]], [[Resolution\|resolution]] 1.72Å' scene=''>	+	<StructureSection load='6abw' size='340' side='right'caption='[[6abw]], [[Resolution\|resolution]] 1.72Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6abw]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Mets5 Mets5~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ABW OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6ABW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6abw]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Metallosphaera_sedula_DSM_5348 Metallosphaera sedula DSM 5348]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ABW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6ABW 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=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]] 1.72Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>Msed_0281 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~399549 METS5])</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=GOL:GLYCEROL'>GOL</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>[http://en.wikipedia.org/wiki/Citrate_synthase_(unknown_stereospecificity) Citrate synthase (unknown stereospecificity)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.3.16 2.3.3.16] </~~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=6abw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6abw OCA], [https://pdbe.org/6abw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6abw RCSB], [https://www.ebi.ac.uk/pdbsum/6abw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6abw ProSAT]</span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6abw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6abw OCA], [~~http~~://pdbe.org/6abw PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6abw RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6abw PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6abw ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A4YDF6_METS5 A4YDF6_METS5]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 6abw" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6abw" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Citrate Synthase 3D structures\|Citrate Synthase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Mets5~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Kim, K J~~]]	+	[[Category: Metallosphaera sedula DSM 5348]]
-	[[Category: ~~Lee, S H~~]]	+	[[Category: Kim K-J]]
-	[[Category: ~~Citrate synthase]]~~	+	[[Category: Lee S-H]]
-	~~[[Category: Metallosphaera sedula]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 09:24, 30 January 2019

2019-01-30T09:24:07Z

←Older revision		Revision as of 09:24, 30 January 2019
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	<StructureSection load='6abw' size='340' side='right' caption='[[6abw]], [[Resolution\|resolution]] 1.72Å' scene=''>		<StructureSection load='6abw' size='340' side='right' caption='[[6abw]], [[Resolution\|resolution]] 1.72Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6abw]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ABW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6ABW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6abw]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mets5 Mets5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ABW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6ABW 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=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=ACO:ACETYL+COENZYME+*A'>ACO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Msed_0281 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=399549 METS5])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Citrate_synthase_(unknown_stereospecificity) Citrate synthase (unknown stereospecificity)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.3.16 2.3.3.16] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Citrate_synthase_(unknown_stereospecificity) Citrate synthase (unknown stereospecificity)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.3.16 2.3.3.16] </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=6abw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6abw OCA], [http://pdbe.org/6abw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6abw RCSB], [http://www.ebi.ac.uk/pdbsum/6abw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6abw ProSAT]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6abw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6abw OCA], [http://pdbe.org/6abw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6abw RCSB], [http://www.ebi.ac.uk/pdbsum/6abw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6abw ProSAT]</span></td></tr>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Mets5]]
	[[Category: Kim, K J]]		[[Category: Kim, K J]]
	[[Category: Lee, S H]]		[[Category: Lee, S H]]

OCA at 12:00, 16 January 2019

2019-01-16T12:00:13Z

←Older revision		Revision as of 12:00, 16 January 2019
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-	'''Unreleased structure'''

-	~~The entry~~ 6abw is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of citrate synthase (Msed_0281) from Metallosphaera sedula in complex with acetyl-CoA==
		+	<StructureSection load='6abw' size='340' side='right' caption='[[6abw]], [[Resolution\|resolution]] 1.72Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6abw]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ABW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6ABW 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=GOL:GLYCEROL'>GOL</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Citrate_synthase_(unknown_stereospecificity) Citrate synthase (unknown stereospecificity)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.3.16 2.3.3.16] </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=6abw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6abw OCA], [http://pdbe.org/6abw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6abw RCSB], [http://www.ebi.ac.uk/pdbsum/6abw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6abw ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Metallosphaera sedula is a thermoacidophilic archaeon that has carbon fixation ability using the 3-hydroxypropionate/4-hydroxybutyrate(3-HP/4-HB) cycle, and has an incomplete TCA cycle to produce necessary biosynthetic precursors. The citrate synthase from M. sedula (MsCS) is an enzyme involved in the first step of the incomplete TCA cycle, catalyzing the conversion of oxaloacetate and acetyl-CoA into citrate and coenzyme A. To investigate the molecular mechanism of MsCS, we determined its crystal structure at 1.8A resolution. As other known CSs, MsCS functions as a dimer, and each monomer consists of two domains, a large domain and a small domain. We also determined the structure of the complex with acetyl-CoA and revealed the acetyl-CoA binding mode of MsCS. Structural comparison of MsCS with another CS in complex with oxaloacetate enabled us to predict the oxaloacetate binding site. Moreover, we performed inhibitory kinetic analyses of MsCS, and showed that the protein is inhibited by citrate and ATP by competitive and non-competitive inhibition modes, respectively, but not by NADH. Based on these results, we suggest that MsCS belongs to the type-I CS with structural and biochemical properties similar to those of CSs involved in the conventional TCA cycle.

-	~~Authors:~~ Lee, S.-H., ~~Kim, K~~.-J.	+	Crystal structure and biochemical properties of msed_0281, the citrate synthase from Metallosphaera sedula.,Lee SH, Kim KJ Biochem Biophys Res Commun. 2019 Jan 2. pii: S0006-291X(18)32860-2. doi:, 10.1016/j.bbrc.2018.12.172. PMID:30611567<ref>PMID:30611567</ref>

-	~~Description: Crystal structure~~ of ~~citrate synthase (Msed_0281) from Metallosphaera sedula in complex with acetyl-CoA~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	[[Category: Kim, K.-J]]	+	<div class="pdbe-citations 6abw" style="background-color:#fffaf0;"></div>
-	[[Category: Lee, S.-H]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Kim, K J]]
		+	[[Category: Lee, S H]]
		+	[[Category: Citrate synthase]]
		+	[[Category: Metallosphaera sedula]]
		+	[[Category: Transferase]]

OCA at 08:34, 5 September 2018

2018-09-05T08:34:23Z

←Older revision		Revision as of 08:34, 5 September 2018
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6abw is ON HOLD	+	The entry 6abw is ON HOLD until Paper Publication

	Authors: Lee, S.-H., Kim, K.-J.		Authors: Lee, S.-H., Kim, K.-J.

OCA: Protected "6abw" [edit=sysop:move=sysop]

2018-08-01T16:54:40Z

Protected "6abw" [edit=sysop:move=sysop]

←Older revision

Revision as of 16:54, 1 August 2018

OCA: New page: '''Unreleased structure''' The entry 6abw is ON HOLD Authors: Lee, S.-H., Kim, K.-J. Description: Crystal structure of citrate synthase (Msed_0281) from Metallosphaera sedula in comple...

2018-08-01T16:54:39Z

New page: '''Unreleased structure''' The entry 6abw is ON HOLD Authors: Lee, S.-H., Kim, K.-J. Description: Crystal structure of citrate synthase (Msed_0281) from Metallosphaera sedula in comple...

New page

'''Unreleased structure'''

The entry 6abw is ON HOLD

Authors: Lee, S.-H., Kim, K.-J.

Description: Crystal structure of citrate synthase (Msed_0281) from Metallosphaera sedula in complex with acetyl-CoA
[[Category: Unreleased Structures]]
[[Category: Kim, K.-J]]
[[Category: Lee, S.-H]]