5kpr - Revision history

OCA at 10:51, 27 September 2023

OCA — Wed, 27 Sep 2023 10:51:01 GMT

←Older revision		Revision as of 10:51, 27 September 2023
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	<StructureSection load='5kpr' size='340' side='right'caption='[[5kpr]], [[Resolution\|resolution]] 1.83Å' scene=''>		<StructureSection load='5kpr' size='340' side='right'caption='[[5kpr]], [[Resolution\|resolution]] 1.83Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5kpr]] is a 1 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=5KPR OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5KPR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5kpr]] is a 1 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=5KPR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5KPR FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PAU:PANTOTHENOIC+ACID'>PAU</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]] 1.827Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5kpt\|5kpt]], [[5kpz\|5kpz]], [[5kq8\|5kq8]], [[5kqd\|5kqd]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PAU:PANTOTHENOIC+ACID'>PAU</scene></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PANK3 ([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'>[https://proteopedia.org/fgij/fg.htm?mol=5kpr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kpr OCA], [https://pdbe.org/5kpr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5kpr RCSB], [https://www.ebi.ac.uk/pdbsum/5kpr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5kpr 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/Pantothenate_kinase Pantothenate kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.33 2.7.1.33] </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=5kpr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kpr OCA], [~~http~~://pdbe.org/5kpr PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5kpr RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5kpr PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5kpr ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/PANK3_HUMAN PANK3_HUMAN]] Plays a role in the physiological regulation of the intracellular CoA concentration (By similarity).	+	[https://www.uniprot.org/uniprot/PANK3_HUMAN PANK3_HUMAN] Plays a role in the physiological regulation of the intracellular CoA concentration (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 28:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Pantothenate kinase]]~~	+	[[Category: White SW]]
-	[[Category: White~~, S W~~]]	+	[[Category: Yun M]]
-	[[Category: Yun, M]]	+
-	~~[[Category: Complex]]~~	+
-	~~[[Category: Pank]]~~	+
-	~~[[Category: Substrate]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 06:31, 5 August 2020

OCA — Wed, 05 Aug 2020 06:31:19 GMT

←Older revision		Revision as of 06:31, 5 August 2020
Line 1:		Line 1:

	==PANK3-AMPPNP-Pantothenate complex==		==PANK3-AMPPNP-Pantothenate complex==
-	<StructureSection load='5kpr' size='340' side='right' caption='[[5kpr]], [[Resolution\|resolution]] 1.83Å' scene=''>	+	<StructureSection load='5kpr' size='340' side='right'caption='[[5kpr]], [[Resolution\|resolution]] 1.83Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5kpr]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KPR OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5KPR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5kpr]] is a 1 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=5KPR OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5KPR FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PAU:PANTOTHENOIC+ACID'>PAU</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PAU:PANTOTHENOIC+ACID'>PAU</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5kpt\|5kpt]], [[5kpz\|5kpz]], [[5kq8\|5kq8]], [[5kqd\|5kqd]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5kpt\|5kpt]], [[5kpz\|5kpz]], [[5kq8\|5kq8]], [[5kqd\|5kqd]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PANK3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pantothenate_kinase Pantothenate kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.33 2.7.1.33] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pantothenate_kinase Pantothenate kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.33 2.7.1.33] </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=5kpr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kpr OCA], [http://pdbe.org/5kpr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kpr RCSB], [http://www.ebi.ac.uk/pdbsum/5kpr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kpr 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=5kpr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kpr OCA], [http://pdbe.org/5kpr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kpr RCSB], [http://www.ebi.ac.uk/pdbsum/5kpr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kpr ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 20:		Line 21:
	</div>		</div>
	<div class="pdbe-citations 5kpr" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5kpr" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Pantothenate kinase 3D structures\|Pantothenate kinase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Pantothenate kinase]]		[[Category: Pantothenate kinase]]
	[[Category: White, S W]]		[[Category: White, S W]]

OCA at 05:02, 9 September 2016

OCA — Fri, 09 Sep 2016 05:02:34 GMT

←Older revision		Revision as of 05:02, 9 September 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5kpr is ~~ON HOLD until Paper~~ Publication	+	==PANK3-AMPPNP-Pantothenate complex==
		+	<StructureSection load='5kpr' size='340' side='right' caption='[[5kpr]], [[Resolution\|resolution]] 1.83Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5kpr]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KPR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KPR FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANP:PHOSPHOAMINOPHOSPHONIC+ACID-ADENYLATE+ESTER'>ANP</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PAU:PANTOTHENOIC+ACID'>PAU</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5kpt\|5kpt]], [[5kpz\|5kpz]], [[5kq8\|5kq8]], [[5kqd\|5kqd]]</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Pantothenate_kinase Pantothenate kinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.33 2.7.1.33] </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=5kpr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kpr OCA], [http://pdbe.org/5kpr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kpr RCSB], [http://www.ebi.ac.uk/pdbsum/5kpr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kpr ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PANK3_HUMAN PANK3_HUMAN]] Plays a role in the physiological regulation of the intracellular CoA concentration (By similarity).
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Pantothenate kinase is the master regulator of CoA biosynthesis, and is feedback inhibited by acetyl-CoA. Comparison of the human PANK3-acetyl-CoA complex to the structures of PANK3 in four catalytically relevant complexes, AMPPNP-Mg2+, AMPPNP-Mg2+-pantothenate, ADP-Mg2+-phosphopantothenate, and AMPPN-Mg2+ revealed a large conformational change in the dimeric enzyme. The amino-terminal nucleotide binding domain rotates to close the active site, and this allows the P-loop to engage ATP and facilitates required substrate/product interactions at the active site. Biochemical analyses showed that the transition between the inactive and active conformations, as assessed by the binding of either ATP-Mg2+ or acyl-CoA to PANK3 is highly cooperative indicating that both protomers move in concert. PANK3(G19V) cannot bind ATP, and biochemical analyses of an engineered PANK3/PANK3(G19V) heterodimer confirmed that the two active sites are functionally coupled. The communication between the two protomers is mediated by an alpha-helix that interacts with the ATP binding site at its amino terminus and with the substrate/inhibitor binding site of the opposite protomer at its carboxy terminus. The two alpha-helices within the dimer together with the bound ligands create a ring that stabilizes the assembly in either the active, closed conformation or the inactive, open conformation. Thus, both active sites of the dimeric mammalian pantothenate kinases coordinately switch between the on and off states in response to intracellular concentrations of ATP and its key negative regulators, acetyl(acyl)-CoA.

-	~~Authors~~:	+	Allosteric Regulation of Mammalian Pantothenate Kinase.,Subramanian C, Yun MK, Yao J, Sharma LK, Lee RE, White SW, Jackowski S, Rock CO J Biol Chem. 2016 Aug 23. pii: jbc.M116.748061. PMID:27555321<ref>PMID:27555321</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5kpr" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Pantothenate kinase]]
		+	[[Category: White, S W]]
		+	[[Category: Yun, M]]
		+	[[Category: Complex]]
		+	[[Category: Pank]]
		+	[[Category: Substrate]]
		+	[[Category: Transferase]]

OCA at 01:55, 4 August 2016

OCA — Thu, 04 Aug 2016 01:55:44 GMT

←Older revision		Revision as of 01:55, 4 August 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5kpr is ON HOLD	+	The entry 5kpr is ON HOLD until Paper Publication

	Authors:		Authors:

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

OCA — Thu, 14 Jul 2016 09:33:40 GMT

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

←Older revision

Revision as of 09:33, 14 July 2016

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

OCA — Thu, 14 Jul 2016 09:33:38 GMT

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

New page

'''Unreleased structure'''

The entry 5kpr is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]