6qgq - Revision history

OCA at 12:00, 24 January 2024

OCA — Wed, 24 Jan 2024 12:00:33 GMT

←Older revision		Revision as of 12:00, 24 January 2024
Line 3:		Line 3:
	<StructureSection load='6qgq' size='340' side='right'caption='[[6qgq]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='6qgq' size='340' side='right'caption='[[6qgq]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6qgq]] is a 4 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=6QGQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6QGQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6qgq]] is a 4 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=6QGQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6QGQ FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>~~, ~~<scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</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]] 2.601Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max-height: 3em;~~'>~~[[6qgo\|6qgo]], [[6qgn\|6qgn]]~~</~~div~~><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">LYPLA1, APT1, LPL1 ([https://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=6qgq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qgq OCA], [https://pdbe.org/6qgq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6qgq RCSB], [https://www.ebi.ac.uk/pdbsum/6qgq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6qgq 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=6qgq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qgq OCA], [https://pdbe.org/6qgq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6qgq RCSB], [https://www.ebi.ac.uk/pdbsum/6qgq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6qgq ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/LYPA1_HUMAN LYPA1_HUMAN]] Hydrolyzes fatty acids from S-acylated cysteine residues in proteins such as trimeric G alpha proteins or HRAS. Has depalmitoylating activity and also low lysophospholipase activity.<ref>PMID:20418879</ref>	+	[https://www.uniprot.org/uniprot/LYPA1_HUMAN LYPA1_HUMAN] Hydrolyzes fatty acids from S-acylated cysteine residues in proteins such as trimeric G alpha proteins or HRAS. Has depalmitoylating activity and also low lysophospholipase activity.<ref>PMID:20418879</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 27:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Audagnotto, M]]	+	[[Category: Audagnotto M]]
-	[[Category: ~~Goot, G Van der~~]]	+	[[Category: Dal Peraro M]]
-	[[Category: Ho, S]]	+	[[Category: Ho S]]
-	[[Category: Marcaida~~, M J]]~~	+	[[Category: Marcaida MJ]]
-	~~[[Category: Peraro, M Dal~~]]	+	[[Category: Pojer F]]
-	[[Category: Pojer, F]]	+	[[Category: Van der Goot G]]
-	[[Category: ~~Acyl-protein thioesterase]]~~	+
-	~~[[Category: Depalmitoylation]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Palmitic acid~~]]	+

OCA at 10:41, 31 March 2021

OCA — Wed, 31 Mar 2021 10:41:22 GMT

←Older revision		Revision as of 10:41, 31 March 2021
Line 11:		Line 11:
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/LYPA1_HUMAN LYPA1_HUMAN]] Hydrolyzes fatty acids from S-acylated cysteine residues in proteins such as trimeric G alpha proteins or HRAS. Has depalmitoylating activity and also low lysophospholipase activity.<ref>PMID:20418879</ref>		[[https://www.uniprot.org/uniprot/LYPA1_HUMAN LYPA1_HUMAN]] Hydrolyzes fatty acids from S-acylated cysteine residues in proteins such as trimeric G alpha proteins or HRAS. Has depalmitoylating activity and also low lysophospholipase activity.<ref>PMID:20418879</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Many biochemical reactions require controlled recruitment of proteins to membranes. This is largely regulated by posttranslational modifications. A frequent one is S-acylation, which consists of the addition of acyl chains and can be reversed by poorly understood acyl protein thioesterases (APTs). Using a panel of computational and experimental approaches, we dissect the mode of action of the major cellular thioesterase APT2 (LYPLA2). We show that soluble APT2 is vulnerable to proteasomal degradation, from which membrane binding protects it. Interaction with membranes requires three consecutive steps: electrostatic attraction, insertion of a hydrophobic loop and S-acylation by the palmitoyltransferases ZDHHC3 or ZDHHC7. Once bound, APT2 is predicted to deform the lipid bilayer to extract the acyl chain bound to its substrate and capture it in a hydrophobic pocket to allow hydrolysis. This molecular understanding of APT2 paves the way to understand the dynamics of APT2-mediated deacylation of substrates throughout the endomembrane system.
		+
		+	Palmitoylated acyl protein thioesterase APT2 deforms membranes to extract substrate acyl chains.,Abrami L, Audagnotto M, Ho S, Marcaida MJ, Mesquita FS, Anwar MU, Sandoz PA, Fonti G, Pojer F, Dal Peraro M, van der Goot FG Nat Chem Biol. 2021 Apr;17(4):438-447. doi: 10.1038/s41589-021-00753-2. Epub 2021, Mar 11. PMID:33707782<ref>PMID:33707782</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6qgq" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==

OCA at 06:52, 17 March 2021

OCA — Wed, 17 Mar 2021 06:52:01 GMT

←Older revision		Revision as of 06:52, 17 March 2021
Line 3:		Line 3:
	<StructureSection load='6qgq' size='340' side='right'caption='[[6qgq]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='6qgq' size='340' side='right'caption='[[6qgq]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6qgq]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QGQ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6QGQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6qgq]] is a 4 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=6QGQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6QGQ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6qgo\|6qgo]], [[6qgn\|6qgn]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[6qgo\|6qgo]], [[6qgn\|6qgn]]</div></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=6qgq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qgq OCA], [~~http~~://pdbe.org/6qgq PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6qgq RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6qgq PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6qgq ProSAT]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">LYPLA1, APT1, LPL1 ([https://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=6qgq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qgq OCA], [https://pdbe.org/6qgq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6qgq RCSB], [https://www.ebi.ac.uk/pdbsum/6qgq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6qgq ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/LYPA1_HUMAN LYPA1_HUMAN]] Hydrolyzes fatty acids from S-acylated cysteine residues in proteins such as trimeric G alpha proteins or HRAS. Has depalmitoylating activity and also low lysophospholipase activity.<ref>PMID:20418879</ref>	+	[[https://www.uniprot.org/uniprot/LYPA1_HUMAN LYPA1_HUMAN]] Hydrolyzes fatty acids from S-acylated cysteine residues in proteins such as trimeric G alpha proteins or HRAS. Has depalmitoylating activity and also low lysophospholipase activity.<ref>PMID:20418879</ref>
		+
		+	==See Also==
		+	*[[Thioesterase 3D structures\|Thioesterase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Audagnotto, M]]		[[Category: Audagnotto, M]]

OCA at 08:04, 5 February 2020

OCA — Wed, 05 Feb 2020 08:04:40 GMT

←Older revision		Revision as of 08:04, 5 February 2020
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6qgq is ~~ON HOLD until Paper Publication~~	+	==Crystal structure of APT1 C2S mutant bound to palmitic acid.==
-		+	<StructureSection load='6qgq' size='340' side='right'caption='[[6qgq]], [[Resolution\|resolution]] 2.60Å' scene=''>
-	~~Authors~~: ~~Audagnotto~~, M., ~~Marcaida, M~~.J., ~~Ho, S~~., ~~Pojer, F~~., ~~Van der Goot, G~~., ~~Dal Peraro, M~~.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6qgq]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QGQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6QGQ FirstGlance]. <br>
-	~~Description~~: ~~Crystal structure of APT1 C2S mutant bound to palmitic acid~~.	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PLM:PALMITIC+ACID'>PLM</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6qgo\|6qgo]], [[6qgn\|6qgn]]</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=6qgq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qgq OCA], [http://pdbe.org/6qgq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6qgq RCSB], [http://www.ebi.ac.uk/pdbsum/6qgq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6qgq ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/LYPA1_HUMAN LYPA1_HUMAN]] Hydrolyzes fatty acids from S-acylated cysteine residues in proteins such as trimeric G alpha proteins or HRAS. Has depalmitoylating activity and also low lysophospholipase activity.<ref>PMID:20418879</ref>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Audagnotto, M]]		[[Category: Audagnotto, M]]
		+	[[Category: Goot, G Van der]]
		+	[[Category: Ho, S]]
		+	[[Category: Marcaida, M J]]
		+	[[Category: Peraro, M Dal]]
	[[Category: Pojer, F]]		[[Category: Pojer, F]]
-	[[Category: ~~Marcaida, M.J~~]]	+	[[Category: Acyl-protein thioesterase]]
-	[[Category: ~~Van Der Goot, G~~]]	+	[[Category: Depalmitoylation]]
-	[[Category: ~~Ho, S~~]]	+	[[Category: Hydrolase]]
-	[[Category: ~~Dal Peraro, M~~]]	+	[[Category: Palmitic acid]]

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

OCA — Wed, 30 Jan 2019 06:55:29 GMT

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

←Older revision

Revision as of 06:55, 30 January 2019

OCA: New page: '''Unreleased structure''' The entry 6qgq is ON HOLD until Paper Publication Authors: Audagnotto, M., Marcaida, M.J., Ho, S., Pojer, F., Van der Goot, G., Dal Peraro, M. Description: C...

OCA — Wed, 30 Jan 2019 06:55:28 GMT

New page: '''Unreleased structure''' The entry 6qgq is ON HOLD until Paper Publication Authors: Audagnotto, M., Marcaida, M.J., Ho, S., Pojer, F., Van der Goot, G., Dal Peraro, M. Description: C...

New page

'''Unreleased structure'''

The entry 6qgq is ON HOLD until Paper Publication

Authors: Audagnotto, M., Marcaida, M.J., Ho, S., Pojer, F., Van der Goot, G., Dal Peraro, M.

Description: Crystal structure of APT1 C2S mutant bound to palmitic acid.
[[Category: Unreleased Structures]]
[[Category: Audagnotto, M]]
[[Category: Pojer, F]]
[[Category: Marcaida, M.J]]
[[Category: Van Der Goot, G]]
[[Category: Ho, S]]
[[Category: Dal Peraro, M]]