6u3w - Revision history

OCA at 07:43, 11 October 2023

OCA — Wed, 11 Oct 2023 07:43:42 GMT

←Older revision		Revision as of 07:43, 11 October 2023
Line 3:		Line 3:
	<StructureSection load='6u3w' size='340' side='right'caption='[[6u3w]], [[Resolution\|resolution]] 2.39Å' scene=''>		<StructureSection load='6u3w' size='340' side='right'caption='[[6u3w]], [[Resolution\|resolution]] 2.39Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6u3w]] is a 2 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=6U3W OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6U3W FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6u3w]] is a 2 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=6U3W OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6U3W 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></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]] 2.394Å</td></tr>
-	~~<tr~~ id~~='related'><td class~~="~~sblockLbl~~">~~<b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6tzt\|6tzt]]~~, [[~~6u3v~~\|~~6u3v~~]]</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></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~COP1, RET1, SEC33, SOO1, YDL145C, D1578 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=559292 Baker~~'~~s yeast]), SEC28, YIL076W ([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'>[https://proteopedia.org/fgij/fg.htm?mol=6u3w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6u3w OCA], [https://pdbe.org/6u3w PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6u3w RCSB], [https://www.ebi.ac.uk/pdbsum/6u3w PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6u3w ProSAT]</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=6u3w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6u3w OCA], [~~http~~://pdbe.org/6u3w PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6u3w RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6u3w PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6u3w ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[[http://www.uniprot.org/uniprot/COPA_YEAST COPA_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.<ref>PMID:17101773</ref> [[http://www.uniprot.org/uniprot/COPE_YEAST COPE_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. In mammals, the coatomer can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins; the complex also influences the Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors (By similarity).<ref>PMID:9463377</ref> <ref>PMID:17101773</ref>	+	[https://www.uniprot.org/uniprot/COPE_YEAST COPE_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. In mammals, the coatomer can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins; the complex also influences the Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors (By similarity).<ref>PMID:9463377</ref> <ref>PMID:17101773</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Baker's yeast]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Hughson, F M~~]]	+	[[Category: Saccharomyces cerevisiae S288C]]
-	[[Category: ~~Travis, S M~~]]	+	[[Category: Hughson FM]]
-	[[Category: ~~Transport protein~~]]	+	[[Category: Travis SM]]

OCA at 09:29, 27 November 2019

OCA — Wed, 27 Nov 2019 09:29:54 GMT

←Older revision		Revision as of 09:29, 27 November 2019
Line 3:		Line 3:
	<StructureSection load='6u3w' size='340' side='right'caption='[[6u3w]], [[Resolution\|resolution]] 2.39Å' scene=''>		<StructureSection load='6u3w' size='340' side='right'caption='[[6u3w]], [[Resolution\|resolution]] 2.39Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6u3w]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6U3W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6U3W FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6u3w]] is a 2 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=6U3W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6U3W 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></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6tzt\|6tzt]], [[6u3v\|6u3v]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6tzt\|6tzt]], [[6u3v\|6u3v]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">COP1, RET1, SEC33, SOO1, YDL145C, D1578 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast]), SEC28, YIL076W ([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=6u3w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6u3w OCA], [http://pdbe.org/6u3w PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6u3w RCSB], [http://www.ebi.ac.uk/pdbsum/6u3w PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6u3w ProSAT]</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=6u3w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6u3w OCA], [http://pdbe.org/6u3w PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6u3w RCSB], [http://www.ebi.ac.uk/pdbsum/6u3w PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6u3w ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/COPA_YEAST COPA_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.<ref>PMID:17101773</ref> [[http://www.uniprot.org/uniprot/COPE_YEAST COPE_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. In mammals, the coatomer can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins; the complex also influences the Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors (By similarity).<ref>PMID:9463377</ref> <ref>PMID:17101773</ref>		[[http://www.uniprot.org/uniprot/COPA_YEAST COPA_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.<ref>PMID:17101773</ref> [[http://www.uniprot.org/uniprot/COPE_YEAST COPE_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. In mammals, the coatomer can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins; the complex also influences the Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors (By similarity).<ref>PMID:9463377</ref> <ref>PMID:17101773</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Coat protein I (COPI)-coated vesicles mediate retrograde transport from the Golgi to the endoplasmic reticulum (ER), as well as transport within the Golgi. Major progress has been made in defining the structure of COPI coats, in vitro and in vivo, at resolutions as high as 9 A. Nevertheless, important questions remain unanswered, including what specific interactions stabilize COPI coats, how COPI vesicles recognize their target membranes, and how coat disassembly is coordinated with vesicle fusion and cargo delivery. Here, we use X-ray crystallography to identify a conserved site on the COPI subunit alpha-COP that binds to flexible, acidic sequences containing a single tryptophan residue. One such sequence, found within alpha-COP itself, mediates alpha-COP homo-oligomerization. Another such sequence is contained within the lasso of the ER-resident Dsl1 complex, where it helps mediate the tethering of Golgi-derived COPI vesicles at the ER membrane. Together, our findings suggest that alpha-COP homo-oligomerization plays a key role in COPI coat stability, with potential implications for the coordination of vesicle tethering, uncoating, and fusion.
		+
		+	Roles of singleton tryptophan motifs in COPI coat stability and vesicle tethering.,Travis SM, Kokona B, Fairman R, Hughson FM Proc Natl Acad Sci U S A. 2019 Nov 11. pii: 1909697116. doi:, 10.1073/pnas.1909697116. PMID:31712447<ref>PMID:31712447</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6u3w" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Baker's yeast]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Hughson, F M]]		[[Category: Hughson, F M]]
	[[Category: Travis, S M]]		[[Category: Travis, S M]]
	[[Category: Transport protein]]		[[Category: Transport protein]]

OCA at 11:14, 13 November 2019

OCA — Wed, 13 Nov 2019 11:14:51 GMT

←Older revision		Revision as of 11:14, 13 November 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6u3w is ~~ON HOLD until Paper Publication~~	+	==Crystal structure of yeast alpha/epsilon-COP of the COPI vesicular coat==
-		+	<StructureSection load='6u3w' size='340' side='right'caption='[[6u3w]], [[Resolution\|resolution]] 2.39Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6u3w]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6U3W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6U3W FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6tzt\|6tzt]], [[6u3v\|6u3v]]</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=6u3w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6u3w OCA], [http://pdbe.org/6u3w PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6u3w RCSB], [http://www.ebi.ac.uk/pdbsum/6u3w PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6u3w ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/COPA_YEAST COPA_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.<ref>PMID:17101773</ref> [[http://www.uniprot.org/uniprot/COPE_YEAST COPE_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. In mammals, the coatomer can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins; the complex also influences the Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors (By similarity).<ref>PMID:9463377</ref> <ref>PMID:17101773</ref>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Hughson, F M]]
		+	[[Category: Travis, S M]]
		+	[[Category: Transport protein]]

OCA at 08:09, 2 October 2019

OCA — Wed, 02 Oct 2019 08:09:57 GMT

←Older revision		Revision as of 08:09, 2 October 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6u3w is ON HOLD	+	The entry 6u3w is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6u3w" [edit=sysop:move=sysop]

OCA — Wed, 28 Aug 2019 14:07:39 GMT

Protected "6u3w" [edit=sysop:move=sysop]

←Older revision

Revision as of 14:07, 28 August 2019

OCA: New page: '''Unreleased structure''' The entry 6u3w is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 28 Aug 2019 14:07:38 GMT

New page: '''Unreleased structure''' The entry 6u3w is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6u3w is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]