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| | ==Structure of a C-terminal fragment of its Vps53 subunit suggests similarity of GARP to a family of tethering complexes== | | ==Structure of a C-terminal fragment of its Vps53 subunit suggests similarity of GARP to a family of tethering complexes== |
| - | <StructureSection load='3ns4' size='340' side='right' caption='[[3ns4]], [[Resolution|resolution]] 2.90Å' scene=''> | + | <StructureSection load='3ns4' size='340' side='right'caption='[[3ns4]], [[Resolution|resolution]] 2.90Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[3ns4]] is a 1 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=3NS4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3NS4 FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[3ns4]] is a 1 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=3NS4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3NS4 FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BA:BARIUM+ION'>BA</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]] 2.9Å</td></tr> |
| - | <tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr> | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BA:BARIUM+ION'>BA</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">VPS53, YJL029C, J1258 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 ATCC 18824])</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=3ns4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ns4 OCA], [https://pdbe.org/3ns4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ns4 RCSB], [https://www.ebi.ac.uk/pdbsum/3ns4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ns4 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=3ns4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ns4 OCA], [http://pdbe.org/3ns4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ns4 RCSB], [http://www.ebi.ac.uk/pdbsum/3ns4 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3ns4 ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/VPS53_YEAST VPS53_YEAST]] Involved in retrograde transport from early and late endosomes to late Golgi by linking the vesicle through the t-SNARE TGL1 to the Golgi, leading to the membrane fusion between late Golgi and endosomal vesicles.<ref>PMID:10637310</ref> <ref>PMID:11689439</ref> <ref>PMID:12377769</ref> <ref>PMID:12446664</ref> <ref>PMID:12686613</ref> | + | [https://www.uniprot.org/uniprot/VPS53_YEAST VPS53_YEAST] Involved in retrograde transport from early and late endosomes to late Golgi by linking the vesicle through the t-SNARE TGL1 to the Golgi, leading to the membrane fusion between late Golgi and endosomal vesicles.<ref>PMID:10637310</ref> <ref>PMID:11689439</ref> <ref>PMID:12377769</ref> <ref>PMID:12446664</ref> <ref>PMID:12686613</ref> |
| | == Evolutionary Conservation == | | == Evolutionary Conservation == |
| | [[Image:Consurf_key_small.gif|200px|right]] | | [[Image:Consurf_key_small.gif|200px|right]] |
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| | <jmolCheckbox> | | <jmolCheckbox> |
| | <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ns/3ns4_consurf.spt"</scriptWhenChecked> | | <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ns/3ns4_consurf.spt"</scriptWhenChecked> |
| - | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked> | + | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked> |
| | <text>to colour the structure by Evolutionary Conservation</text> | | <text>to colour the structure by Evolutionary Conservation</text> |
| | </jmolCheckbox> | | </jmolCheckbox> |
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| | ==See Also== | | ==See Also== |
| - | *[[Vacuolar protein sorting-associated protein|Vacuolar protein sorting-associated protein]] | + | *[[Vacuolar protein sorting-associated protein 3D structures|Vacuolar protein sorting-associated protein 3D structures]] |
| | == References == | | == References == |
| | <references/> | | <references/> |
| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Atcc 18824]] | + | [[Category: Large Structures]] |
| - | [[Category: Reinisch, K M]] | + | [[Category: Saccharomyces cerevisiae]] |
| - | [[Category: Vasan, N]] | + | [[Category: Reinisch KM]] |
| - | [[Category: Arl1]] | + | [[Category: Vasan N]] |
| - | [[Category: Garp complex component]]
| + | |
| - | [[Category: Helical bundle]]
| + | |
| - | [[Category: Membrane tethering complex]]
| + | |
| - | [[Category: Membrane traffic]]
| + | |
| - | [[Category: Protein binding]]
| + | |
| - | [[Category: Vps51]]
| + | |
| - | [[Category: Vps52]]
| + | |
| - | [[Category: Vps54]]
| + | |
| Structural highlights
Function
VPS53_YEAST Involved in retrograde transport from early and late endosomes to late Golgi by linking the vesicle through the t-SNARE TGL1 to the Golgi, leading to the membrane fusion between late Golgi and endosomal vesicles.[1] [2] [3] [4] [5]
Evolutionary Conservation
Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.
Publication Abstract from PubMed
The Golgi-associated retrograde protein (GARP) complex is a membrane-tethering complex that functions in traffic from endosomes to the trans-Golgi network. Here we present the structure of a C-terminal fragment of the Vps53 subunit, important for binding endosome-derived vesicles, at a resolution of 2.9 A. We show that the C terminus consists of two alpha-helical bundles arranged in tandem, and we identify a highly conserved surface patch, which may play a role in vesicle recognition. Mutations of the surface result in defects in membrane traffic. The fold of the Vps53 C terminus is strongly reminiscent of proteins that belong to three other tethering complexes--Dsl1, conserved oligomeric Golgi, and the exocyst--thought to share a common evolutionary origin. Thus, the structure of the Vps53 C terminus suggests that GARP belongs to this family of complexes.
Structure of a C-terminal fragment of its Vps53 subunit suggests similarity of Golgi-associated retrograde protein (GARP) complex to a family of tethering complexes.,Vasan N, Hutagalung A, Novick P, Reinisch KM Proc Natl Acad Sci U S A. 2010 Aug 10;107(32):14176-81. Epub 2010 Jul 26. PMID:20660722[6]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Conibear E, Stevens TH. Vps52p, Vps53p, and Vps54p form a novel multisubunit complex required for protein sorting at the yeast late Golgi. Mol Biol Cell. 2000 Jan;11(1):305-23. PMID:10637310
- ↑ Siniossoglou S, Pelham HR. An effector of Ypt6p binds the SNARE Tlg1p and mediates selective fusion of vesicles with late Golgi membranes. EMBO J. 2001 Nov 1;20(21):5991-8. PMID:11689439 doi:10.1093/emboj/20.21.5991
- ↑ Siniossoglou S, Pelham HR. Vps51p links the VFT complex to the SNARE Tlg1p. J Biol Chem. 2002 Dec 13;277(50):48318-24. Epub 2002 Oct 10. PMID:12377769 doi:10.1074/jbc.M209428200
- ↑ Reggiori F, Wang CW, Stromhaug PE, Shintani T, Klionsky DJ. Vps51 is part of the yeast Vps fifty-three tethering complex essential for retrograde traffic from the early endosome and Cvt vesicle completion. J Biol Chem. 2003 Feb 14;278(7):5009-20. Epub 2002 Nov 20. PMID:12446664 doi:10.1074/jbc.M210436200
- ↑ Conibear E, Cleck JN, Stevens TH. Vps51p mediates the association of the GARP (Vps52/53/54) complex with the late Golgi t-SNARE Tlg1p. Mol Biol Cell. 2003 Apr;14(4):1610-23. PMID:12686613 doi:10.1091/mbc.E02-10-0654
- ↑ Vasan N, Hutagalung A, Novick P, Reinisch KM. Structure of a C-terminal fragment of its Vps53 subunit suggests similarity of Golgi-associated retrograde protein (GARP) complex to a family of tethering complexes. Proc Natl Acad Sci U S A. 2010 Aug 10;107(32):14176-81. Epub 2010 Jul 26. PMID:20660722 doi:10.1073/pnas.1009419107
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