7l4i - Revision history

OCA at 15:37, 18 October 2023

OCA — Wed, 18 Oct 2023 15:37:39 GMT

←Older revision		Revision as of 15:37, 18 October 2023
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	<StructureSection load='7l4i' size='340' side='right'caption='[[7l4i]], [[Resolution\|resolution]] 2.58Å' scene=''>		<StructureSection load='7l4i' size='340' side='right'caption='[[7l4i]], [[Resolution\|resolution]] 2.58Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7l4i]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7L4I OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7L4I FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7l4i]] 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=7L4I OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7L4I FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]] 2.58Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>PPM1H, ARHCL1, KIAA1157, URCC2 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~9606 HUMAN])</td~~><~~/tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[https://en.wikipedia.org/wiki/Phosphoprotein_phosphatase Phosphoprotein phosphatase], with EC number [https://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'>[https://proteopedia.org/fgij/fg.htm?mol=7l4i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7l4i OCA], [https://pdbe.org/7l4i PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7l4i RCSB], [https://www.ebi.ac.uk/pdbsum/7l4i PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7l4i 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=7l4i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7l4i OCA], [https://pdbe.org/7l4i PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7l4i RCSB], [https://www.ebi.ac.uk/pdbsum/7l4i PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7l4i ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/PPM1H_HUMAN PPM1H_HUMAN]] Dephosphorylates CDKN1B at 'Thr-187', thus removing a signal for proteasomal degradation.<ref>PMID:22586611</ref>	+	[https://www.uniprot.org/uniprot/PPM1H_HUMAN PPM1H_HUMAN] Dephosphorylates CDKN1B at 'Thr-187', thus removing a signal for proteasomal degradation.<ref>PMID:22586611</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: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: Phosphoprotein phosphatase]]~~	+	[[Category: Khan AR]]
-	[[Category: Khan~~, A R~~]]	+	[[Category: Waschbusch D]]
-	[[Category: Waschbusch, D]]	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Lrrk2 kinase]]~~	+
-	~~[[Category: Membrane trafficking]]~~	+
-	~~[[Category: Pp2c/ppm family]]~~	+
-	~~[[Category: Rab gtpase~~]]	+

OCA at 11:02, 16 February 2022

OCA — Wed, 16 Feb 2022 11:02:16 GMT

←Older revision		Revision as of 11:02, 16 February 2022
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	==Crystal structure of a substrate-trapping variant of PPM1H phosphatase==		==Crystal structure of a substrate-trapping variant of PPM1H phosphatase==
-	<StructureSection load='7l4i' size='340' side='right'caption='[[7l4i]]' scene=''>	+	<StructureSection load='7l4i' size='340' side='right'caption='[[7l4i]], [[Resolution\|resolution]] 2.58Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7L4I OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7L4I FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7l4i]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7L4I OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7L4I FirstGlance]. <br>
-	</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=7l4i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7l4i OCA], [https://pdbe.org/7l4i PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7l4i RCSB], [https://www.ebi.ac.uk/pdbsum/7l4i PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7l4i ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PPM1H, ARHCL1, KIAA1157, URCC2 ([https://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'>[https://en.wikipedia.org/wiki/Phosphoprotein_phosphatase Phosphoprotein phosphatase], with EC number [https://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'>[https://proteopedia.org/fgij/fg.htm?mol=7l4i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7l4i OCA], [https://pdbe.org/7l4i PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7l4i RCSB], [https://www.ebi.ac.uk/pdbsum/7l4i PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7l4i ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[https://www.uniprot.org/uniprot/PPM1H_HUMAN PPM1H_HUMAN]] Dephosphorylates CDKN1B at 'Thr-187', thus removing a signal for proteasomal degradation.<ref>PMID:22586611</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	LRRK2 serine/threonine kinase is associated with inherited Parkinson's disease. LRRK2 phosphorylates a subset of Rab GTPases within their switch 2 motif to control their interactions with effectors. Recent work has shown that the metal-dependent protein phosphatase PPM1H counteracts LRRK2 by dephosphorylating Rabs. PPM1H is highly selective for LRRK2 phosphorylated Rabs, and closely related PPM1J exhibits no activity towards substrates such as Rab8a phosphorylated at Thr72 (pThr72). Here, we have identified the molecular determinant of PPM1H specificity for Rabs. The crystal structure of PPM1H reveals a structurally conserved phosphatase fold that strikingly has evolved a 110-residue flap domain adjacent to the active site. The flap domain distantly resembles tudor domains that interact with histones in the context of epigenetics. Cellular assays, crosslinking and 3-D modelling suggest that the flap domain encodes the docking motif for phosphorylated Rabs. Consistent with this hypothesis, a PPM1J chimaera with the PPM1H flap domain dephosphorylates pThr72 of Rab8a both in vitro and in cellular assays. Therefore, PPM1H has acquired a Rab-specific interaction domain within a conserved phosphatase fold.
		+
		+	Structural basis for the specificity of PPM1H phosphatase for Rab GTPases.,Waschbusch D, Berndsen K, Lis P, Knebel A, Lam YP, Alessi DR, Khan AR EMBO Rep. 2021 Nov 4;22(11):e52675. doi: 10.15252/embr.202152675. Epub 2021 Sep, 28. PMID:34580980<ref>PMID:34580980</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7l4i" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Khan AR]]	+	[[Category: Phosphoprotein phosphatase]]
-	[[Category: Waschbusch D]]	+	[[Category: Khan, A R]]
		+	[[Category: Waschbusch, D]]
		+	[[Category: Hydrolase]]
		+	[[Category: Lrrk2 kinase]]
		+	[[Category: Membrane trafficking]]
		+	[[Category: Pp2c/ppm family]]
		+	[[Category: Rab gtpase]]

OCA at 10:19, 4 August 2021

OCA — Wed, 04 Aug 2021 10:19:21 GMT

←Older revision		Revision as of 10:19, 4 August 2021
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-	'''Unreleased structure'''

-	~~The entry~~ 7l4i ~~is ON HOLD until Paper Publication~~	+	==Crystal structure of a substrate-trapping variant of PPM1H phosphatase==
-		+	<StructureSection load='7l4i' size='340' side='right'caption='[[7l4i]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7L4I OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7L4I FirstGlance]. <br>
-	~~Description~~:	+	</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=7l4i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7l4i OCA], [https://pdbe.org/7l4i PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7l4i RCSB], [https://www.ebi.ac.uk/pdbsum/7l4i PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7l4i ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Khan AR]]
		+	[[Category: Waschbusch D]]

OCA at 06:52, 20 January 2021

OCA — Wed, 20 Jan 2021 06:52:53 GMT

←Older revision		Revision as of 06:52, 20 January 2021
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7l4i is ON HOLD	+	The entry 7l4i is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "7l4i" [edit=sysop:move=sysop]

OCA — Wed, 30 Dec 2020 05:30:11 GMT

Protected "7l4i" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:30, 30 December 2020

OCA: New page: '''Unreleased structure''' The entry 7l4i is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 30 Dec 2020 05:30:10 GMT

New page: '''Unreleased structure''' The entry 7l4i is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7l4i is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]