3w1s - Revision history

OCA at 12:45, 8 November 2023

OCA — Wed, 08 Nov 2023 12:45:55 GMT

←Older revision		Revision as of 12:45, 8 November 2023
Line 3:		Line 3:
	<StructureSection load='3w1s' size='340' side='right'caption='[[3w1s]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='3w1s' size='340' side='right'caption='[[3w1s]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3w1s]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Baker's_yeast Baker's yeast~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3W1S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3W1S FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3w1s]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_S288C Saccharomyces cerevisiae S288C]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3W1S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3W1S FirstGlance]. <br>
-	</td></tr><tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>APG5, ATG5, Atg5(amino acids 1-284), P2601, YPL149W ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~559292 Baker's yeast]), APG15, APG16, ATG16, Atg16(amino acids 1~~-~~46)~~, ~~CVT11, SAP18, YM8520.08C, YMR159C (~~[~~https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast~~]~~), APG12, ATG12, Atg12(amino acids 100-186), YBR1506, YBR217W ([https://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=559292 Baker's yeast])~~</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]] 2.6Å</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=3w1s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w1s OCA], [https://pdbe.org/3w1s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3w1s RCSB], [https://www.ebi.ac.uk/pdbsum/3w1s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3w1s 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=3w1s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w1s OCA], [https://pdbe.org/3w1s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3w1s RCSB], [https://www.ebi.ac.uk/pdbsum/3w1s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3w1s ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/ATG5_YEAST ATG5_YEAST]] Involved in cytoplasm to vacuole transport (Cvt) and autophagy vesicles formation. Required for ATG8 association to the vesicle membranes.<ref>PMID:8921905</ref> <ref>PMID:8224160</ref> <ref>PMID:9759731</ref> <ref>PMID:10406794</ref> <ref>PMID:10712513</ref> <ref>PMID:11149920</ref> [[https://www.uniprot.org/uniprot/ATG12_YEAST ATG12_YEAST]] Ubiquitin-like protein involved in cytoplasm to vacuole transport (Cvt), autophagy vesicles formation, mitophagy, and nucleophagy. Conjugation with ATG5 through an ubiquitin-like conjugating system involving also ATG7 as an E1-like activating enzyme and ATG10 as an E2-like conjugating enzyme, is essential for its function. The ATG12-ATG5 conjugate acts as an E3-like enzyme which is required for lipidation of ATG8 and ATG8 association to the vesicle membranes. ATG12-ATG5 rearranges the ATG3 catalytic center and enhances its E2 activity.<ref>PMID:9759731</ref> <ref>PMID:8224160</ref> <ref>PMID:11149920</ref> [[https://www.uniprot.org/uniprot/ATG16_YEAST ATG16_YEAST]] Stabilizes the ATG5-ATG12 conjugate and mediates the formation of the 350 kDa complex, which is necessary for autophagy. Required for ATG8 localization to the pre-autophagosomal structure.<ref>PMID:8224160</ref> <ref>PMID:8663607</ref> <ref>PMID:10406794</ref> <ref>PMID:11689437</ref> <ref>PMID:11897782</ref>	+	[https://www.uniprot.org/uniprot/ATG5_YEAST ATG5_YEAST] Involved in cytoplasm to vacuole transport (Cvt) and autophagy vesicles formation. Required for ATG8 association to the vesicle membranes.<ref>PMID:8921905</ref> <ref>PMID:8224160</ref> <ref>PMID:9759731</ref> <ref>PMID:10406794</ref> <ref>PMID:10712513</ref> <ref>PMID:11149920</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: Baker's yeast]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Fujioka, Y]]	+	[[Category: Saccharomyces cerevisiae S288C]]
-	[[Category: Hanada, T]]	+	[[Category: Fujioka Y]]
-	[[Category: Inagaki, F]]	+	[[Category: Hanada T]]
-	[[Category: Noda~~, N N~~]]	+	[[Category: Inagaki F]]
-	[[Category: Ohsumi, Y]]	+	[[Category: Noda NN]]
-	~~[[Category: Atg3 binding]]~~	+	[[Category: Ohsumi Y]]
-	~~[[Category: E3-like]]~~	+
-	~~[[Category: Isopeptide bond between atg12 gly186 and atg5 lys149]]~~	+
-	~~[[Category: Ligase]]~~	+
-	~~[[Category: Ubiquitin fold~~]]	+

OCA at 05:18, 3 August 2022

OCA — Wed, 03 Aug 2022 05:18:39 GMT

←Older revision		Revision as of 05:18, 3 August 2022
Line 1:		Line 1:

	==Crystal structure of Saccharomyces cerevisiae Atg12-Atg5 conjugate bound to the N-terminal domain of Atg16==		==Crystal structure of Saccharomyces cerevisiae Atg12-Atg5 conjugate bound to the N-terminal domain of Atg16==
-	<StructureSection load='3w1s' size='340' side='right' caption='[[3w1s]], [[Resolution\|resolution]] 2.60Å' scene=''>	+	<StructureSection load='3w1s' size='340' side='right'caption='[[3w1s]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3w1s]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Baker's_yeast Baker's yeast]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3W1S OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3W1S FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3w1s]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Baker's_yeast Baker's yeast]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3W1S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3W1S FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">APG5, ATG5, Atg5(amino acids 1-284), P2601, YPL149W ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast]), APG15, APG16, ATG16, Atg16(amino acids 1-46), CVT11, SAP18, YM8520.08C, YMR159C ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast]), APG12, ATG12, Atg12(amino acids 100-186), YBR1506, YBR217W ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast])</td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">APG5, ATG5, Atg5(amino acids 1-284), P2601, YPL149W ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast]), APG15, APG16, ATG16, Atg16(amino acids 1-46), CVT11, SAP18, YM8520.08C, YMR159C ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast]), APG12, ATG12, Atg12(amino acids 100-186), YBR1506, YBR217W ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast])</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=3w1s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w1s OCA], [~~http~~://pdbe.org/3w1s PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3w1s RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3w1s PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3w1s 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=3w1s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w1s OCA], [https://pdbe.org/3w1s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3w1s RCSB], [https://www.ebi.ac.uk/pdbsum/3w1s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3w1s ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/ATG5_YEAST ATG5_YEAST]] Involved in cytoplasm to vacuole transport (Cvt) and autophagy vesicles formation. Required for ATG8 association to the vesicle membranes.<ref>PMID:8921905</ref> <ref>PMID:8224160</ref> <ref>PMID:9759731</ref> <ref>PMID:10406794</ref> <ref>PMID:10712513</ref> <ref>PMID:11149920</ref> [[~~http~~://www.uniprot.org/uniprot/ATG12_YEAST ATG12_YEAST]] Ubiquitin-like protein involved in cytoplasm to vacuole transport (Cvt), autophagy vesicles formation, mitophagy, and nucleophagy. Conjugation with ATG5 through an ubiquitin-like conjugating system involving also ATG7 as an E1-like activating enzyme and ATG10 as an E2-like conjugating enzyme, is essential for its function. The ATG12-ATG5 conjugate acts as an E3-like enzyme which is required for lipidation of ATG8 and ATG8 association to the vesicle membranes. ATG12-ATG5 rearranges the ATG3 catalytic center and enhances its E2 activity.<ref>PMID:9759731</ref> <ref>PMID:8224160</ref> <ref>PMID:11149920</ref> [[~~http~~://www.uniprot.org/uniprot/ATG16_YEAST ATG16_YEAST]] Stabilizes the ATG5-ATG12 conjugate and mediates the formation of the 350 kDa complex, which is necessary for autophagy. Required for ATG8 localization to the pre-autophagosomal structure.<ref>PMID:8224160</ref> <ref>PMID:8663607</ref> <ref>PMID:10406794</ref> <ref>PMID:11689437</ref> <ref>PMID:11897782</ref>	+	[[https://www.uniprot.org/uniprot/ATG5_YEAST ATG5_YEAST]] Involved in cytoplasm to vacuole transport (Cvt) and autophagy vesicles formation. Required for ATG8 association to the vesicle membranes.<ref>PMID:8921905</ref> <ref>PMID:8224160</ref> <ref>PMID:9759731</ref> <ref>PMID:10406794</ref> <ref>PMID:10712513</ref> <ref>PMID:11149920</ref> [[https://www.uniprot.org/uniprot/ATG12_YEAST ATG12_YEAST]] Ubiquitin-like protein involved in cytoplasm to vacuole transport (Cvt), autophagy vesicles formation, mitophagy, and nucleophagy. Conjugation with ATG5 through an ubiquitin-like conjugating system involving also ATG7 as an E1-like activating enzyme and ATG10 as an E2-like conjugating enzyme, is essential for its function. The ATG12-ATG5 conjugate acts as an E3-like enzyme which is required for lipidation of ATG8 and ATG8 association to the vesicle membranes. ATG12-ATG5 rearranges the ATG3 catalytic center and enhances its E2 activity.<ref>PMID:9759731</ref> <ref>PMID:8224160</ref> <ref>PMID:11149920</ref> [[https://www.uniprot.org/uniprot/ATG16_YEAST ATG16_YEAST]] Stabilizes the ATG5-ATG12 conjugate and mediates the formation of the 350 kDa complex, which is necessary for autophagy. Required for ATG8 localization to the pre-autophagosomal structure.<ref>PMID:8224160</ref> <ref>PMID:8663607</ref> <ref>PMID:10406794</ref> <ref>PMID:11689437</ref> <ref>PMID:11897782</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 20:		Line 20:

	==See Also==		==See Also==
-	*[[Autophagy-related protein\|Autophagy-related protein]]	+	*[[Autophagy-related protein 3D structures\|Autophagy-related protein 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 26:		Line 26:
	</StructureSection>		</StructureSection>
	[[Category: Baker's yeast]]		[[Category: Baker's yeast]]
		+	[[Category: Large Structures]]
	[[Category: Fujioka, Y]]		[[Category: Fujioka, Y]]
	[[Category: Hanada, T]]		[[Category: Hanada, T]]

OCA at 11:38, 5 August 2016

OCA — Fri, 05 Aug 2016 11:38:58 GMT

←Older revision		Revision as of 11:38, 5 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of Saccharomyces cerevisiae Atg12-Atg5 conjugate bound to the N-terminal domain of Atg16==		==Crystal structure of Saccharomyces cerevisiae Atg12-Atg5 conjugate bound to the N-terminal domain of Atg16==
	<StructureSection load='3w1s' size='340' side='right' caption='[[3w1s]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='3w1s' size='340' side='right' caption='[[3w1s]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3w1s]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Saccharomyces_cerevisiae_s288c Saccharomyces cerevisiae s288c~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3W1S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3W1S FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3w1s]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Baker's_yeast Baker's yeast]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3W1S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3W1S FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">APG5, ATG5, Atg5(amino acids 1-284), P2601, YPL149W ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 ~~Saccharomyces cerevisiae S288c~~]), APG15, APG16, ATG16, Atg16(amino acids 1-46), CVT11, SAP18, YM8520.08C, YMR159C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 ~~Saccharomyces cerevisiae S288c~~]), APG12, ATG12, Atg12(amino acids 100-186), YBR1506, YBR217W ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 ~~Saccharomyces cerevisiae S288c~~])</td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">APG5, ATG5, Atg5(amino acids 1-284), P2601, YPL149W ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast]), APG15, APG16, ATG16, Atg16(amino acids 1-46), CVT11, SAP18, YM8520.08C, YMR159C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast]), APG12, ATG12, Atg12(amino acids 100-186), YBR1506, YBR217W ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast])</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=3w1s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w1s OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3w1s RCSB], [http://www.ebi.ac.uk/pdbsum/3w1s PDBsum]</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=3w1s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w1s OCA], [http://pdbe.org/3w1s PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3w1s RCSB], [http://www.ebi.ac.uk/pdbsum/3w1s PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3w1s ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 16:		Line 17:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 3w1s" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Autophagy-related protein\|Autophagy-related protein]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Saccharomyces cerevisiae s288c~~]]	+	[[Category: Baker's yeast]]
	[[Category: Fujioka, Y]]		[[Category: Fujioka, Y]]
	[[Category: Hanada, T]]		[[Category: Hanada, T]]

OCA at 18:30, 25 December 2014

OCA — Thu, 25 Dec 2014 18:30:42 GMT

←Older revision		Revision as of 18:30, 25 December 2014
Line 6:		Line 6:
	<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=3w1s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w1s OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3w1s RCSB], [http://www.ebi.ac.uk/pdbsum/3w1s PDBsum]</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=3w1s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w1s OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3w1s RCSB], [http://www.ebi.ac.uk/pdbsum/3w1s PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/ATG5_YEAST ATG5_YEAST]] Involved in cytoplasm to vacuole transport (Cvt) and autophagy vesicles formation. Required for ATG8 association to the vesicle membranes.<ref>PMID:8921905</ref> <ref>PMID:8224160</ref> <ref>PMID:9759731</ref> <ref>PMID:10406794</ref> <ref>PMID:10712513</ref> <ref>PMID:11149920</ref> [[http://www.uniprot.org/uniprot/ATG12_YEAST ATG12_YEAST]] Ubiquitin-like protein involved in cytoplasm to vacuole transport (Cvt), autophagy vesicles formation, mitophagy, and nucleophagy. Conjugation with ATG5 through an ubiquitin-like conjugating system involving also ATG7 as an E1-like activating enzyme and ATG10 as an E2-like conjugating enzyme, is essential for its function. The ATG12-ATG5 conjugate acts as an E3-like enzyme which is required for lipidation of ATG8 and ATG8 association to the vesicle membranes. ATG12-ATG5 rearranges the ATG3 catalytic center and enhances its E2 activity.<ref>PMID:9759731</ref> <ref>PMID:8224160</ref> <ref>PMID:11149920</ref> [[http://www.uniprot.org/uniprot/ATG16_YEAST ATG16_YEAST]] Stabilizes the ATG5-ATG12 conjugate and mediates the formation of the 350 kDa complex, which is necessary for autophagy. Required for ATG8 localization to the pre-autophagosomal structure.<ref>PMID:8224160</ref> <ref>PMID:8663607</ref> <ref>PMID:10406794</ref> <ref>PMID:11689437</ref> <ref>PMID:11897782</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 07:33, 21 December 2014

OCA — Sun, 21 Dec 2014 07:33:18 GMT

←Older revision		Revision as of 07:33, 21 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_3w1s\| PDB=3w1s \| SCENE= }}~~	+	==Crystal structure of Saccharomyces cerevisiae Atg12-Atg5 conjugate bound to the N-terminal domain of Atg16==
-	===Crystal structure of Saccharomyces cerevisiae Atg12-Atg5 conjugate bound to the N-terminal domain of Atg16===	+	<StructureSection load='3w1s' size='340' side='right' caption='[[3w1s]], [[Resolution\|resolution]] 2.60Å' scene=''>
-	~~{{ABSTRACT_PUBMED_23238393}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3w1s]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_s288c Saccharomyces cerevisiae s288c]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3W1S OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3W1S FirstGlance]. <br>
		+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">APG5, ATG5, Atg5(amino acids 1-284), P2601, YPL149W ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Saccharomyces cerevisiae S288c]), APG15, APG16, ATG16, Atg16(amino acids 1-46), CVT11, SAP18, YM8520.08C, YMR159C ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Saccharomyces cerevisiae S288c]), APG12, ATG12, Atg12(amino acids 100-186), YBR1506, YBR217W ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Saccharomyces cerevisiae S288c])</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=3w1s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w1s OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3w1s RCSB], [http://www.ebi.ac.uk/pdbsum/3w1s PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Atg12 is conjugated to Atg5 through enzymatic reactions similar to ubiquitination. The Atg12-Atg5 conjugate functions as an E3-like enzyme to promote lipidation of Atg8, whereas lipidated Atg8 has essential roles in both autophagosome formation and selective cargo recognition during autophagy. However, the molecular role of Atg12 modification in these processes has remained elusive. Here, we report the crystal structure of the Atg12-Atg5 conjugate. In addition to the isopeptide linkage, Atg12 forms hydrophobic and hydrophilic interactions with Atg5, thereby fixing its position on Atg5. Structural comparison with unmodified Atg5 and mutational analyses showed that Atg12 modification neither induces a conformational change in Atg5 nor creates a functionally important architecture. Rather, Atg12 functions as a binding module for Atg3, the E2 enzyme for Atg8, thus endowing Atg5 with the ability to interact with Atg3 to facilitate Atg8 lipidation.

-	~~==Function==~~	+	Structure of the Atg12-Atg5 conjugate reveals a platform for stimulating Atg8-PE conjugation.,Noda NN, Fujioka Y, Hanada T, Ohsumi Y, Inagaki F EMBO Rep. 2012 Dec 14. doi: 10.1038/embor.2012.208. PMID:23238393<ref>PMID:23238393</ref>
-	~~[[http://www.uniprot.org/uniprot/ATG5_YEAST ATG5_YEAST]] Involved in cytoplasm to vacuole transport (Cvt) and autophagy vesicles formation. Required~~ for ~~ATG8 association to the vesicle membranes~~.<ref>PMID:8921905</ref> <ref>PMID:8224160</ref> <ref>PMID:9759731</ref> <ref>PMID:10406794</ref> <ref>PMID:10712513</ref> <ref>PMID:11149920</ref> [[http://www.uniprot.org/uniprot/ATG12_YEAST ATG12_YEAST]] Ubiquitin-like protein involved in cytoplasm to vacuole transport (Cvt), ~~autophagy vesicles formation~~, ~~mitophagy~~, ~~and nucleophagy. Conjugation with ATG5 through an ubiquitin-like conjugating system involving also ATG7 as an E1-like activating enzyme and ATG10 as an E2-like conjugating enzyme~~, ~~is essential for its function~~. ~~The ATG12-ATG5 conjugate acts as an E3-like enzyme which is required for lipidation of ATG8 and ATG8 association to the vesicle membranes~~. ~~ATG12-ATG5 rearranges the ATG3 catalytic center and enhances its E2 activity~~.~~<ref>PMID:9759731<~~/~~ref> <ref>PMID:8224160</ref> <ref>PMID:11149920</ref> [[http://www~~.~~uniprot~~.~~org/uniprot/ATG16_YEAST ATG16_YEAST]] Stabilizes the ATG5-ATG12 conjugate and mediates the formation of the 350 kDa complex, which is necessary for autophagy~~. ~~Required for ATG8 localization to the pre-autophagosomal structure.<ref>~~PMID:~~8224160</ref> <ref>PMID:8663607</ref> <ref>PMID:10406794</ref> <ref>PMID:11689437</ref>~~ <ref>PMID:~~11897782~~</ref>	+

-	~~==About this Structure==~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[3w1s]] is~~ a ~~3 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Saccharomyces_cerevisiae_s288c Saccharomyces cerevisiae s288c]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3W1S OCA].~~	+	</div>
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	~~<ref group="xtra">PMID:023238393</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Saccharomyces cerevisiae s288c]]		[[Category: Saccharomyces cerevisiae s288c]]
-	[[Category: Fujioka, Y.]]	+	[[Category: Fujioka, Y]]
-	[[Category: Hanada, T.]]	+	[[Category: Hanada, T]]
-	[[Category: Inagaki, F.]]	+	[[Category: Inagaki, F]]
-	[[Category: Noda, N N.]]	+	[[Category: Noda, N N]]
-	[[Category: Ohsumi, Y.]]	+	[[Category: Ohsumi, Y]]
	[[Category: Atg3 binding]]		[[Category: Atg3 binding]]
	[[Category: E3-like]]		[[Category: E3-like]]

OCA at 08:04, 30 June 2013

OCA — Sun, 30 Jun 2013 08:04:22 GMT

←Older revision		Revision as of 08:04, 30 June 2013
Line 1:		Line 1:
-	[[Image:3w1s.jpg\|left\|200px]]
-
	{{STRUCTURE_3w1s\| PDB=3w1s \| SCENE= }}		{{STRUCTURE_3w1s\| PDB=3w1s \| SCENE= }}
-
	===Crystal structure of Saccharomyces cerevisiae Atg12-Atg5 conjugate bound to the N-terminal domain of Atg16===		===Crystal structure of Saccharomyces cerevisiae Atg12-Atg5 conjugate bound to the N-terminal domain of Atg16===
-
	{{ABSTRACT_PUBMED_23238393}}		{{ABSTRACT_PUBMED_23238393}}
		+
		+	==Function==
		+	[[http://www.uniprot.org/uniprot/ATG5_YEAST ATG5_YEAST]] Involved in cytoplasm to vacuole transport (Cvt) and autophagy vesicles formation. Required for ATG8 association to the vesicle membranes.<ref>PMID:8921905</ref> <ref>PMID:8224160</ref> <ref>PMID:9759731</ref> <ref>PMID:10406794</ref> <ref>PMID:10712513</ref> <ref>PMID:11149920</ref> [[http://www.uniprot.org/uniprot/ATG12_YEAST ATG12_YEAST]] Ubiquitin-like protein involved in cytoplasm to vacuole transport (Cvt), autophagy vesicles formation, mitophagy, and nucleophagy. Conjugation with ATG5 through an ubiquitin-like conjugating system involving also ATG7 as an E1-like activating enzyme and ATG10 as an E2-like conjugating enzyme, is essential for its function. The ATG12-ATG5 conjugate acts as an E3-like enzyme which is required for lipidation of ATG8 and ATG8 association to the vesicle membranes. ATG12-ATG5 rearranges the ATG3 catalytic center and enhances its E2 activity.<ref>PMID:9759731</ref> <ref>PMID:8224160</ref> <ref>PMID:11149920</ref> [[http://www.uniprot.org/uniprot/ATG16_YEAST ATG16_YEAST]] Stabilizes the ATG5-ATG12 conjugate and mediates the formation of the 350 kDa complex, which is necessary for autophagy. Required for ATG8 localization to the pre-autophagosomal structure.<ref>PMID:8224160</ref> <ref>PMID:8663607</ref> <ref>PMID:10406794</ref> <ref>PMID:11689437</ref> <ref>PMID:11897782</ref>

	==About this Structure==		==About this Structure==
	[[3w1s]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_s288c Saccharomyces cerevisiae s288c]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3W1S OCA].		[[3w1s]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_s288c Saccharomyces cerevisiae s288c]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3W1S OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:023238393</ref><references group="xtra"/><references/>
	[[Category: Saccharomyces cerevisiae s288c]]		[[Category: Saccharomyces cerevisiae s288c]]
	[[Category: Fujioka, Y.]]		[[Category: Fujioka, Y.]]

OCA at 09:29, 2 January 2013

OCA — Wed, 02 Jan 2013 09:29:00 GMT

←Older revision		Revision as of 09:29, 2 January 2013
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:3w1s.jpg\|left\|200px]]

-	~~The entry~~ 3w1s ~~is ON HOLD~~ ~~until Paper Publication~~	+	{{STRUCTURE_3w1s\| PDB=3w1s \| SCENE= }}

-	~~Authors: Noda,~~ N~~.N., Fujioka, Y., Hanada, T., Ohsumi, Y., Inagaki, F.~~	+	===Crystal structure of Saccharomyces cerevisiae Atg12-Atg5 conjugate bound to the N-terminal domain of Atg16===

-	~~Description: Crystal~~ structure ~~of autophagy~~-~~related protein complex~~	+	{{ABSTRACT_PUBMED_23238393}}
		+
		+	==About this Structure==
		+	[[3w1s]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_s288c Saccharomyces cerevisiae s288c]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3W1S OCA].
		+	[[Category: Saccharomyces cerevisiae s288c]]
		+	[[Category: Fujioka, Y.]]
		+	[[Category: Hanada, T.]]
		+	[[Category: Inagaki, F.]]
		+	[[Category: Noda, N N.]]
		+	[[Category: Ohsumi, Y.]]
		+	[[Category: Atg3 binding]]
		+	[[Category: E3-like]]
		+	[[Category: Isopeptide bond between atg12 gly186 and atg5 lys149]]
		+	[[Category: Ligase]]
		+	[[Category: Ubiquitin fold]]

OCA at 10:17, 5 December 2012

OCA — Wed, 05 Dec 2012 10:17:23 GMT

←Older revision		Revision as of 10:17, 5 December 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3w1s is ON HOLD	+	The entry 3w1s is ON HOLD until Paper Publication

	Authors: Noda, N.N., Fujioka, Y., Hanada, T., Ohsumi, Y., Inagaki, F.		Authors: Noda, N.N., Fujioka, Y., Hanada, T., Ohsumi, Y., Inagaki, F.

	Description: Crystal structure of autophagy-related protein complex		Description: Crystal structure of autophagy-related protein complex

OCA: Protected "3w1s" [edit=sysop:move=sysop]

OCA — Wed, 28 Nov 2012 13:50:56 GMT

Protected "3w1s" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:50, 28 November 2012

OCA: New page: '''Unreleased structure''' The entry 3w1s is ON HOLD Authors: Noda, N.N., Fujioka, Y., Hanada, T., Ohsumi, Y., Inagaki, F. Description: Crystal structure of autophagy-related protein c...

OCA — Wed, 28 Nov 2012 13:50:55 GMT

New page: '''Unreleased structure''' The entry 3w1s is ON HOLD Authors: Noda, N.N., Fujioka, Y., Hanada, T., Ohsumi, Y., Inagaki, F. Description: Crystal structure of autophagy-related protein c...

New page

'''Unreleased structure'''

The entry 3w1s is ON HOLD

Authors: Noda, N.N., Fujioka, Y., Hanada, T., Ohsumi, Y., Inagaki, F.

Description: Crystal structure of autophagy-related protein complex