6cni - Revision history

OCA at 15:07, 4 October 2023

OCA — Wed, 04 Oct 2023 15:07:58 GMT

←Older revision		Revision as of 15:07, 4 October 2023
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	==Crystal structure of H105A PGAM5 dimer==		==Crystal structure of H105A PGAM5 dimer==
-	<StructureSection load='6cni' size='340' side='right' caption='[[6cni]], [[Resolution\|resolution]] 1.70Å' scene=''>	+	<StructureSection load='6cni' size='340' side='right'caption='[[6cni]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6cni]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CNI OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6CNI FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6cni]] is a 2 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=6CNI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6CNI FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=NA:SODIUM+ION'>NA</scene~~>, ~~<scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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]] 1.7Å</td></tr>
-	<tr id='~~activity~~'><td class="sblockLbl"><b>~~Activity~~:</b></td><td class="sblockDat"><~~span class~~='~~plainlinks~~'>~~[http:~~/~~/en.wikipedia.org/wiki/Phosphoprotein_phosphatase Phosphoprotein phosphatase]~~, ~~with EC number [http~~:~~//www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.16 3.1.3.16]~~ </~~span~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></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=6cni FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cni OCA], [~~http~~://pdbe.org/6cni PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6cni RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6cni PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6cni 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=6cni FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cni OCA], [https://pdbe.org/6cni PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6cni RCSB], [https://www.ebi.ac.uk/pdbsum/6cni PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6cni ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/PGAM5_HUMAN PGAM5_HUMAN]] Displays phosphatase activity for serine/threonine residues, and, dephosphorylates and activates MAP3K5 kinase. Has apparently no phosphoglycerate mutase activity. May be regulator of mitochondrial dynamics. Substrate for a KEAP1-dependent ubiquitin ligase complex. Contributes to the repression of NFE2L2-dependent gene expression. Acts as a central mediator for programmed necrosis induced by TNF, by reactive oxygen species and by calcium ionophore.<ref>PMID:18387606</ref> <ref>PMID:19590015</ref> <ref>PMID:22265414</ref>	+	[https://www.uniprot.org/uniprot/PGAM5_HUMAN PGAM5_HUMAN] Displays phosphatase activity for serine/threonine residues, and, dephosphorylates and activates MAP3K5 kinase. Has apparently no phosphoglycerate mutase activity. May be regulator of mitochondrial dynamics. Substrate for a KEAP1-dependent ubiquitin ligase complex. Contributes to the repression of NFE2L2-dependent gene expression. Acts as a central mediator for programmed necrosis induced by TNF, by reactive oxygen species and by calcium ionophore.<ref>PMID:18387606</ref> <ref>PMID:19590015</ref> <ref>PMID:22265414</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Phosphoprotein phosphatase~~]]	+	[[Category: Homo sapiens]]
-	[[Category: ~~Agnew, C~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Jura, N~~]]	+	[[Category: Agnew C]]
-	[[Category: ~~Ruiz, K~~]]	+	[[Category: Jura N]]
-	[[Category: ~~Mitophagy]]~~	+	[[Category: Ruiz K]]
-	~~[[Category: Phosphatase]]~~	+
-	~~[[Category: Signaling protein~~]]	+

OCA at 09:26, 13 February 2019

OCA — Wed, 13 Feb 2019 09:26:49 GMT

←Older revision		Revision as of 09:26, 13 February 2019
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-	'''Unreleased structure'''

-	~~The entry~~ 6cni is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Crystal structure of H105A PGAM5 dimer==
		+	<StructureSection load='6cni' size='340' side='right' caption='[[6cni]], [[Resolution\|resolution]] 1.70Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6cni]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6CNI OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6CNI FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Phosphoprotein_phosphatase Phosphoprotein phosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.3.16 3.1.3.16] </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=6cni FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6cni OCA], [http://pdbe.org/6cni PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6cni RCSB], [http://www.ebi.ac.uk/pdbsum/6cni PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6cni ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PGAM5_HUMAN PGAM5_HUMAN]] Displays phosphatase activity for serine/threonine residues, and, dephosphorylates and activates MAP3K5 kinase. Has apparently no phosphoglycerate mutase activity. May be regulator of mitochondrial dynamics. Substrate for a KEAP1-dependent ubiquitin ligase complex. Contributes to the repression of NFE2L2-dependent gene expression. Acts as a central mediator for programmed necrosis induced by TNF, by reactive oxygen species and by calcium ionophore.<ref>PMID:18387606</ref> <ref>PMID:19590015</ref> <ref>PMID:22265414</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	PGAM5 is a mitochondrial protein phosphatase whose genetic ablation in mice results in mitochondria-related disorders, including neurodegeneration. Functions of PGAM5 include regulation of mitophagy, cell death, metabolism and aging. However, mechanisms regulating PGAM5 activation and signaling are poorly understood. Using electron cryo-microscopy, we show that PGAM5 forms dodecamers in solution. We also present a crystal structure of PGAM5 that reveals the determinants of dodecamer formation. Furthermore, we observe PGAM5 dodecamer assembly into filaments both in vitro and in cells. We find that PGAM5 oligomerization into a dodecamer is not only essential for catalytic activation, but this form also plays a structural role on mitochondrial membranes, which is independent of phosphatase activity. Together, these findings suggest that modulation of the oligomerization of PGAM5 may be a regulatory switch of potential therapeutic interest.

-	~~Authors~~:	+	Functional role of PGAM5 multimeric assemblies and their polymerization into filaments.,Ruiz K, Thaker TM, Agnew C, Miller-Vedam L, Trenker R, Herrera C, Ingaramo M, Toso D, Frost A, Jura N Nat Commun. 2019 Jan 31;10(1):531. doi: 10.1038/s41467-019-08393-w. PMID:30705304<ref>PMID:30705304</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 6cni" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Phosphoprotein phosphatase]]
		+	[[Category: Agnew, C]]
		+	[[Category: Jura, N]]
		+	[[Category: Ruiz, K]]
		+	[[Category: Mitophagy]]
		+	[[Category: Phosphatase]]
		+	[[Category: Signaling protein]]

OCA at 04:38, 4 April 2018

OCA — Wed, 04 Apr 2018 04:38:49 GMT

←Older revision		Revision as of 04:38, 4 April 2018
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	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors:		Authors:

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

OCA — Wed, 14 Mar 2018 05:12:52 GMT

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

←Older revision

Revision as of 05:12, 14 March 2018

OCA: New page: '''Unreleased structure''' The entry 6cni is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 14 Mar 2018 05:12:51 GMT

New page: '''Unreleased structure''' The entry 6cni is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6cni is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]