3rwm

From Proteopedia

(Difference between revisions)

Revision as of 11:26, 10 December 2016

Crystal Structure of Ypt32 in Complex with GppNHp

Structural highlights

3rwm is a 1 chain structure with sequence from Baker's yeast. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	,
Related:	3rwo
Gene:	YGL210W, YPT11, YPT32 (Baker's yeast)
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[YPT32_YEAST] Required for protein transport through the secretory pathway. Probably involved in regulation of secretory vesicle formation at the trans-Golgi compartment. Mediates the proper polarized localization of SEC2, a GEF for SEC4, but does not alter the exchange activity of SEC2 on SEC4. Plays a role in autophagy.^[1] ^[2] ^[3] ^[4] ^[5]

Publication Abstract from PubMed

Rab GTPases localize to distinct sub-cellular compartments and regulate vesicle trafficking in eukaryotic cells. Yeast Rabs Ypt31/32 and Sec4 have 68% homology and bind to common interactors, yet play distinct roles in the transport of exocytic vesicles. The structures of Ypt31/32 have not previously been reported in the uncomplexed state. We describe the crystal structures of GTP and GDP forms of Ypt32 to understand the molecular basis for Rab function. The structure of Ypt32(GTP) reveals that the switch II conformation is distinct from Sec4(GTP) in spite of a highly conserved amino acid sequence. Also, Ypt32(GDP) reveals a remarkable change in conformation of the switch II helix induced by binding to GDI, which has not been described previously.

The activation cycle of Rab GTPase Ypt32 reveals structural determinants of effector recruitment and GDI binding.,Sultana A, Jin Y, Dregger C, Franklin E, Weisman LS, Khan AR FEBS Lett. 2011 Oct 20. PMID:22024479^[6]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Ortiz D, Medkova M, Walch-Solimena C, Novick P. Ypt32 recruits the Sec4p guanine nucleotide exchange factor, Sec2p, to secretory vesicles; evidence for a Rab cascade in yeast. J Cell Biol. 2002 Jun 10;157(6):1005-15. Epub 2002 Jun 3. PMID:12045183 doi:http://dx.doi.org/10.1083/jcb.200201003
↑ Yamamoto K, Jigami Y. Mutation of TRS130, which encodes a component of the TRAPP II complex, activates transcription of OCH1 in Saccharomyces cerevisiae. Curr Genet. 2002 Nov;42(2):85-93. Epub 2002 Nov 16. PMID:12478387 doi:http://dx.doi.org/10.1007/s00294-002-0336-5
↑ Zou S, Chen Y, Liu Y, Segev N, Yu S, Liu Y, Min G, Ye M, Zeng Y, Zhu X, Hong B, Bjorn LO, Liang Y, Li S, Xie Z. Trs130 participates in autophagy through GTPases Ypt31/32 in Saccharomyces cerevisiae. Traffic. 2013 Feb;14(2):233-46. doi: 10.1111/tra.12024. Epub 2012 Nov 21. PMID:23078654 doi:http://dx.doi.org/10.1111/tra.12024
↑ Benli M, Doring F, Robinson DG, Yang X, Gallwitz D. Two GTPase isoforms, Ypt31p and Ypt32p, are essential for Golgi function in yeast. EMBO J. 1996 Dec 2;15(23):6460-75. PMID:8978673
↑ Jedd G, Mulholland J, Segev N. Two new Ypt GTPases are required for exit from the yeast trans-Golgi compartment. J Cell Biol. 1997 May 5;137(3):563-80. PMID:9151665
↑ Sultana A, Jin Y, Dregger C, Franklin E, Weisman LS, Khan AR. The activation cycle of Rab GTPase Ypt32 reveals structural determinants of effector recruitment and GDI binding. FEBS Lett. 2011 Oct 20. PMID:22024479 doi:10.1016/j.febslet.2011.10.013

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 See Also
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3rwm"

@@ Line 1: / Line 1: @@
 ==Crystal Structure of Ypt32 in Complex with GppNHp==
 <StructureSection load='3rwm' size='340' side='right' caption='[[3rwm]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3rwm]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RWM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RWM FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3rwm]] is a 1 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=3RWM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RWM FirstGlance]. <br>
 </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GNP:PHOSPHOAMINOPHOSPHONIC+ACID-GUANYLATE+ESTER'>GNP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
 <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3rwo|3rwo]]</td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">YGL210W, YPT11, YPT32 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4932 Saccharomyces cerevisiae])</td></tr>
+<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">YGL210W, YPT11, YPT32 ([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=3rwm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rwm OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3rwm RCSB], [http://www.ebi.ac.uk/pdbsum/3rwm 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=3rwm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rwm OCA], [http://pdbe.org/3rwm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3rwm RCSB], [http://www.ebi.ac.uk/pdbsum/3rwm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3rwm ProSAT]</span></td></tr>
 </table>
+== Function ==
+[[http://www.uniprot.org/uniprot/YPT32_YEAST YPT32_YEAST]] Required for protein transport through the secretory pathway. Probably involved in regulation of secretory vesicle formation at the trans-Golgi compartment. Mediates the proper polarized localization of SEC2, a GEF for SEC4, but does not alter the exchange activity of SEC2 on SEC4. Plays a role in autophagy.<ref>PMID:12045183</ref> <ref>PMID:12478387</ref> <ref>PMID:23078654</ref> <ref>PMID:8978673</ref> <ref>PMID:9151665</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 16: / Line 19: @@
 From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 </div>
+<div class="pdbe-citations 3rwm" style="background-color:#fffaf0;"></div>
 ==See Also==
@@ Line 23: / Line 27: @@
 __TOC__
 </StructureSection>
-[[Category: Saccharomyces cerevisiae]]
+[[Category: Baker's yeast]]
 [[Category: Dregger, C]]
 [[Category: Franklin, E]]

3rwm

From Proteopedia

Revision as of 11:26, 10 December 2016

Crystal Structure of Ypt32 in Complex with GppNHp

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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