5fjz - Revision history

OCA at 06:54, 19 July 2023

2023-07-19T06:54:35Z

←Older revision		Revision as of 06:54, 19 July 2023
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	<StructureSection load='5fjz' size='340' side='right'caption='[[5fjz]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='5fjz' size='340' side='right'caption='[[5fjz]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5fjz]] is a 8 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Atcc_18824 Atcc 18824~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FJZ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5FJZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5fjz]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FJZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5FJZ FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~[[5fjw\|5fjw]]~~, [[~~5fjx~~\|~~5fjx]], [[5fk0\|5fk0~~]]</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]] 1.9Å</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=5fjz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fjz OCA], [~~http~~://pdbe.org/5fjz PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5fjz RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5fjz PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5fjz 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=5fjz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fjz OCA], [https://pdbe.org/5fjz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5fjz RCSB], [https://www.ebi.ac.uk/pdbsum/5fjz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5fjz ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/COPD_YEAST COPD_YEAST]] The coatomer is a cytosolic protein complex that binds to dilysine motifs and reversibly associates with Golgi non-clathrin-coated vesicles, which further mediate biosynthetic protein transport from the ER, via the Golgi up to the trans Golgi network. Coatomer complex is required for budding from Golgi membranes, and is essential for the retrograde Golgi-to-ER transport of dilysine-tagged proteins (By similarity). [[http://www.uniprot.org/uniprot/DSL1_YEAST DSL1_YEAST]] Required for protein transport between the Golgi and the endoplasmic reticulum. May tether coatomer-coated retrograde transport vesicles to the ER membrane through interaction with coatomer as well as the SNARE complex. May contribute to the stabilization of the SNARE complex.<ref>PMID:11260526</ref> <ref>PMID:11493604</ref> <ref>PMID:11739780</ref>	+	[https://www.uniprot.org/uniprot/COPD_YEAST COPD_YEAST] The coatomer is a cytosolic protein complex that binds to dilysine motifs and reversibly associates with Golgi non-clathrin-coated vesicles, which further mediate biosynthetic protein transport from the ER, via the Golgi up to the trans Golgi network. Coatomer complex is required for budding from Golgi membranes, and is essential for the retrograde Golgi-to-ER transport of dilysine-tagged proteins (By similarity).
	<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: Atcc 18824]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Evans, P R~~]]	+	[[Category: Saccharomyces cerevisiae]]
-	[[Category: ~~Owen, D J~~]]	+	[[Category: Evans PR]]
-	[[Category: ~~Suckling, R J~~]]	+	[[Category: Owen DJ]]
-	[[Category: ~~Cop-i]]~~	+	[[Category: Suckling RJ]]
-	~~[[Category: Protein transport]]~~	+
-	~~[[Category: Vesicle coat protein~~]]	+

OCA at 07:23, 6 May 2020

2020-05-06T07:23:02Z

←Older revision		Revision as of 07:23, 6 May 2020
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	==Yeast delta-COP-I mu-homology domain complexed with Dsl1 WxWxV peptide==		==Yeast delta-COP-I mu-homology domain complexed with Dsl1 WxWxV peptide==
-	<StructureSection load='5fjz' size='340' side='right' caption='[[5fjz]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='5fjz' size='340' side='right'caption='[[5fjz]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5fjz]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FJZ OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5FJZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5fjz]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FJZ OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5FJZ FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5fjw\|5fjw]], [[5fjx\|5fjx]], [[5fk0\|5fk0]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5fjw\|5fjw]], [[5fjx\|5fjx]], [[5fk0\|5fk0]]</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=5fjz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fjz OCA], [http://pdbe.org/5fjz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5fjz RCSB], [http://www.ebi.ac.uk/pdbsum/5fjz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5fjz 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=5fjz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fjz OCA], [http://pdbe.org/5fjz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5fjz RCSB], [http://www.ebi.ac.uk/pdbsum/5fjz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5fjz ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	</StructureSection>		</StructureSection>
	[[Category: Atcc 18824]]		[[Category: Atcc 18824]]
		+	[[Category: Large Structures]]
	[[Category: Evans, P R]]		[[Category: Evans, P R]]
	[[Category: Owen, D J]]		[[Category: Owen, D J]]

OCA at 14:15, 16 November 2017

2017-11-16T14:15:20Z

←Older revision		Revision as of 14:15, 16 November 2017
Line 1:		Line 1:
		+
	==Yeast delta-COP-I mu-homology domain complexed with Dsl1 WxWxV peptide==		==Yeast delta-COP-I mu-homology domain complexed with Dsl1 WxWxV peptide==
	<StructureSection load='5fjz' size='340' side='right' caption='[[5fjz]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='5fjz' size='340' side='right' caption='[[5fjz]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5fjz]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FJZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5FJZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5fjz]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FJZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5FJZ FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5fjw\|5fjw]], [[5fjx\|5fjx]], [[5fk0\|5fk0]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5fjw\|5fjw]], [[5fjx\|5fjx]], [[5fk0\|5fk0]]</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=5fjz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fjz OCA], [http://pdbe.org/5fjz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5fjz RCSB], [http://www.ebi.ac.uk/pdbsum/5fjz 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=5fjz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fjz OCA], [http://pdbe.org/5fjz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5fjz RCSB], [http://www.ebi.ac.uk/pdbsum/5fjz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5fjz ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 21:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Atcc 18824]]
	[[Category: Evans, P R]]		[[Category: Evans, P R]]
	[[Category: Owen, D J]]		[[Category: Owen, D J]]

OCA at 10:03, 2 December 2015

2015-12-02T10:03:49Z

←Older revision		Revision as of 10:03, 2 December 2015
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Yeast delta-COP-I mu-homology domain complexed with Dsl1 WxWxV peptide==
		+	<StructureSection load='5fjz' size='340' side='right' caption='[[5fjz]], [[Resolution\|resolution]] 1.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5fjz]] is a 8 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5FJZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5FJZ FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5fjw\|5fjw]], [[5fjx\|5fjx]], [[5fk0\|5fk0]]</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=5fjz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5fjz OCA], [http://pdbe.org/5fjz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5fjz RCSB], [http://www.ebi.ac.uk/pdbsum/5fjz PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/COPD_YEAST COPD_YEAST]] The coatomer is a cytosolic protein complex that binds to dilysine motifs and reversibly associates with Golgi non-clathrin-coated vesicles, which further mediate biosynthetic protein transport from the ER, via the Golgi up to the trans Golgi network. Coatomer complex is required for budding from Golgi membranes, and is essential for the retrograde Golgi-to-ER transport of dilysine-tagged proteins (By similarity). [[http://www.uniprot.org/uniprot/DSL1_YEAST DSL1_YEAST]] Required for protein transport between the Golgi and the endoplasmic reticulum. May tether coatomer-coated retrograde transport vesicles to the ER membrane through interaction with coatomer as well as the SNARE complex. May contribute to the stabilization of the SNARE complex.<ref>PMID:11260526</ref> <ref>PMID:11493604</ref> <ref>PMID:11739780</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Coatomer consists of two subcomplexes: the membrane-targeting, ADP ribosylation factor 1 (Arf1):GTP-binding betagammadeltazeta-COP F-subcomplex, which is related to the adaptor protein (AP) clathrin adaptors, and the cargo-binding alphabeta'epsilon-COP B-subcomplex. We present the structure of the C-terminal mu-homology domain of the yeast delta-COP subunit in complex with the WxW motif from its binding partner, the endoplasmic reticulum-localized Dsl1 tether. The motif binds at a site distinct from that used by the homologous AP mu subunits to bind YxxPhi cargo motifs with its two tryptophan residues sitting in compatible pockets. We also show that the Saccharomyces cerevisiae Arf GTPase-activating protein (GAP) homolog Gcs1p uses a related WxxF motif at its extreme C terminus to bind to delta-COP at the same site in the same way. Mutations designed on the basis of the structure in conjunction with isothermal titration calorimetry confirm the mode of binding and show that mammalian delta-COP binds related tryptophan-based motifs such as that from ArfGAP1 in a similar manner. We conclude that delta-COP subunits bind Wxn(1-6)[WF] motifs within unstructured regions of proteins that influence the lifecycle of COPI-coated vesicles; this conclusion is supported by the observation that, in the context of a sensitizing domain deletion in Dsl1p, mutating the tryptophan-based motif-binding site in yeast causes defects in both growth and carboxypeptidase Y trafficking/processing.

-	~~The entry 5fjz is ON HOLD~~	+	Structural basis for the binding of tryptophan-based motifs by delta-COP.,Suckling RJ, Poon PP, Travis SM, Majoul IV, Hughson FM, Evans PR, Duden R, Owen DJ Proc Natl Acad Sci U S A. 2015 Nov 17;112(46):14242-7. doi:, 10.1073/pnas.1506186112. Epub 2015 Nov 2. PMID:26578768<ref>PMID:26578768</ref>

-	~~Authors: Suckling~~, R.J.~~, Evans, P.R., Owen, D.J~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description: Yeast delta~~-~~COP~~-~~I mu-homology domain complexed with Dsl1 WxWxV peptide~~	+	<div class="pdbe-citations 5fjz" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Unreleased Structures~~]]	+	== References ==
-	[[Category: ~~Suckling~~, R.J]]	+	<references/>
-	[[Category: ~~Owen~~, D.J]]	+	__TOC__
-	[[Category: ~~Evans, P.R~~]]	+	</StructureSection>
		+	[[Category: Evans, P R]]
		+	[[Category: Owen, D J]]
		+	[[Category: Suckling, R J]]
		+	[[Category: Cop-i]]
		+	[[Category: Protein transport]]
		+	[[Category: Vesicle coat protein]]

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

2015-10-22T04:39:37Z

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

←Older revision

Revision as of 04:39, 22 October 2015

OCA: New page: '''Unreleased structure''' The entry 5fjz is ON HOLD Authors: Suckling, R.J., Evans, P.R., Owen, D.J. Description: Yeast delta-COP-I mu-homology domain complexed with Dsl1 WxWxV peptid...

2015-10-22T04:39:36Z

New page: '''Unreleased structure''' The entry 5fjz is ON HOLD Authors: Suckling, R.J., Evans, P.R., Owen, D.J. Description: Yeast delta-COP-I mu-homology domain complexed with Dsl1 WxWxV peptid...

New page

'''Unreleased structure'''

The entry 5fjz is ON HOLD

Authors: Suckling, R.J., Evans, P.R., Owen, D.J.

Description: Yeast delta-COP-I mu-homology domain complexed with Dsl1 WxWxV peptide
[[Category: Unreleased Structures]]
[[Category: Suckling, R.J]]
[[Category: Owen, D.J]]
[[Category: Evans, P.R]]