5ktm - Revision history

OCA at 10:54, 27 September 2023

2023-09-27T10:54:18Z

←Older revision		Revision as of 10:54, 27 September 2023
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	<StructureSection load='5ktm' size='340' side='right'caption='[[5ktm]], [[Resolution\|resolution]] 1.44Å' scene=''>		<StructureSection load='5ktm' size='340' side='right'caption='[[5ktm]], [[Resolution\|resolution]] 1.44Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5ktm]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Pyrococcus_horikoshii~~ Pyrococcus horikoshii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KTM OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5KTM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5ktm]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_horikoshii_OT3 Pyrococcus horikoshii OT3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KTM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5KTM FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</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]] 1.44Å</td></tr>
-	~~<tr~~ id~~='related'><td class~~="~~sblockLbl~~">~~<b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5kts\|5kts]]~~, [[~~5ktt~~\|~~5ktt]], [[5ktr\|5ktr]], [[5kto\|5kto]], [[5ktn\|5ktn]], [[5ktp\|5ktp~~]]</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>nadA, PH0013 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~70601 Pyrococcus horikoshii])</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=5ktm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ktm OCA], [https://pdbe.org/5ktm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ktm RCSB], [https://www.ebi.ac.uk/pdbsum/5ktm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ktm ProSAT]</span></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[http://en.wikipedia.org/wiki/Quinolinate_synthase Quinolinate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.72 2.5.1.72]~~ </~~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=5ktm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ktm OCA], [~~http~~://pdbe.org/5ktm PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5ktm RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5ktm PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5ktm ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/NADA_PYRHO NADA_PYRHO]] Catalyzes the condensation of iminoaspartate with dihydroxyacetone phosphate to form quinolinate (By similarity).	+	[https://www.uniprot.org/uniprot/NADA_PYRHO NADA_PYRHO] Catalyzes the condensation of iminoaspartate with dihydroxyacetone phosphate to form quinolinate (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Pyrococcus horikoshii]]	+	[[Category: Pyrococcus horikoshii OT3]]
-	~~[[Category: Quinolinate synthase~~]]	+	[[Category: Ealick SE]]
-	[[Category: Ealick~~, S E~~]]	+	[[Category: Fenwick MK]]
-	[[Category: Fenwick~~, M K]]~~	+
-	~~[[Category: Biosynthetic enzyme]]~~	+
-	~~[[Category: Dehydratase]]~~	+
-	~~[[Category: Holoenzyme]]~~	+
-	~~[[Category: Iron-sulfur cluster]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 09:16, 4 December 2019

2019-12-04T09:16:09Z

←Older revision		Revision as of 09:16, 4 December 2019
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	==Crystal structure of Pyrococcus horikoshii quinolinate synthase (NadA) with a bound Fe4S4 cluster==		==Crystal structure of Pyrococcus horikoshii quinolinate synthase (NadA) with a bound Fe4S4 cluster==
-	<StructureSection load='5ktm' size='340' side='right' caption='[[5ktm]], [[Resolution\|resolution]] 1.44Å' scene=''>	+	<StructureSection load='5ktm' size='340' side='right'caption='[[5ktm]], [[Resolution\|resolution]] 1.44Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5ktm]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KTM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KTM FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5ktm]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrococcus_horikoshii Pyrococcus horikoshii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KTM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KTM FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5kts\|5kts]], [[5ktt\|5ktt]], [[5ktr\|5ktr]], [[5kto\|5kto]], [[5ktn\|5ktn]], [[5ktp\|5ktp]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5kts\|5kts]], [[5ktt\|5ktt]], [[5ktr\|5ktr]], [[5kto\|5kto]], [[5ktn\|5ktn]], [[5ktp\|5ktp]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">nadA, PH0013 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=70601 Pyrococcus horikoshii])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Quinolinate_synthase Quinolinate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.72 2.5.1.72] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Quinolinate_synthase Quinolinate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.72 2.5.1.72] </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=5ktm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ktm OCA], [http://pdbe.org/5ktm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ktm RCSB], [http://www.ebi.ac.uk/pdbsum/5ktm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ktm 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=5ktm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ktm OCA], [http://pdbe.org/5ktm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ktm RCSB], [http://www.ebi.ac.uk/pdbsum/5ktm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ktm ProSAT]</span></td></tr>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Pyrococcus horikoshii]]
	[[Category: Quinolinate synthase]]		[[Category: Quinolinate synthase]]
	[[Category: Ealick, S E]]		[[Category: Ealick, S E]]

OCA at 15:48, 27 July 2016

2016-07-27T15:48:31Z

←Older revision		Revision as of 15:48, 27 July 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5ktm is ~~ON HOLD~~	+	==Crystal structure of Pyrococcus horikoshii quinolinate synthase (NadA) with a bound Fe4S4 cluster==
		+	<StructureSection load='5ktm' size='340' side='right' caption='[[5ktm]], [[Resolution\|resolution]] 1.44Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5ktm]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KTM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KTM FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5kts\|5kts]], [[5ktt\|5ktt]], [[5ktr\|5ktr]], [[5kto\|5kto]], [[5ktn\|5ktn]], [[5ktp\|5ktp]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Quinolinate_synthase Quinolinate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.72 2.5.1.72] </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=5ktm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ktm OCA], [http://pdbe.org/5ktm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ktm RCSB], [http://www.ebi.ac.uk/pdbsum/5ktm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ktm ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/NADA_PYRHO NADA_PYRHO]] Catalyzes the condensation of iminoaspartate with dihydroxyacetone phosphate to form quinolinate (By similarity).
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The quinolinate synthase of prokaryotes and photosynthetic eukaryotes, NadA, contains a [4Fe-4S] cluster with unknown function. We report crystal structures of Pyrococcus horikoshii NadA in complex with dihydroxyacetone phosphate (DHAP), iminoaspartate analogues, and quinolinate. DHAP adopts a nearly planar conformation and chelates the [4Fe-4S] cluster via its keto and hydroxyl groups. The active site architecture suggests that the cluster acts as a Lewis acid in enediolate formation, like zinc in class II aldolases. The DHAP and putative iminoaspartate structures suggest a model for a condensed intermediate. The ensemble of structures suggests a two-state system, which may be exploited in early steps.

-	~~Authors~~:	+	Crystal Structures of the Iron-Sulfur Cluster-Dependent Quinolinate Synthase in Complex with Dihydroxyacetone Phosphate, Iminoaspartate Analogues, and Quinolinate.,Fenwick MK, Ealick SE Biochemistry. 2016 Jul 22. PMID:27404889<ref>PMID:27404889</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5ktm" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Quinolinate synthase]]
		+	[[Category: Ealick, S E]]
		+	[[Category: Fenwick, M K]]
		+	[[Category: Biosynthetic enzyme]]
		+	[[Category: Dehydratase]]
		+	[[Category: Holoenzyme]]
		+	[[Category: Iron-sulfur cluster]]
		+	[[Category: Transferase]]

OCA: Protected "5ktm" [edit=sysop:move=sysop]

2016-07-26T12:53:46Z

Protected "5ktm" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:53, 26 July 2016

OCA: New page: '''Unreleased structure''' The entry 5ktm is ON HOLD Authors: Description: Category: Unreleased Structures

2016-07-26T12:53:45Z

New page: '''Unreleased structure''' The entry 5ktm is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5ktm is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]