4TU3

Crystal structure of yeast Sac1/Vps74 complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.19 Å
  • R-Value Free: 0.255 
  • R-Value Work: 0.226 
  • R-Value Observed: 0.229 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Sac1-Vps74 structure reveals a mechanism to terminate phosphoinositide signaling in the Golgi apparatus.

Cai, Y.Deng, Y.Horenkamp, F.Reinisch, K.M.Burd, C.G.

(2014) J Cell Biol 206: 485-491

  • DOI: 10.1083/jcb.201404041
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • Sac1 is a phosphoinositide phosphatase of the endoplasmic reticulum and Golgi apparatus that controls organelle membrane composition principally via regulation of phosphatidylinositol 4-phosphate signaling. We present a characterization of the struct ...

    Sac1 is a phosphoinositide phosphatase of the endoplasmic reticulum and Golgi apparatus that controls organelle membrane composition principally via regulation of phosphatidylinositol 4-phosphate signaling. We present a characterization of the structure of the N-terminal portion of yeast Sac1, containing the conserved Sac1 homology domain, in complex with Vps74, a phosphatidylinositol 4-kinase effector and the orthologue of human GOLPH3. The interface involves the N-terminal subdomain of the Sac1 homology domain, within which mutations in the related Sac3/Fig4 phosphatase have been linked to Charcot-Marie-Tooth disorder CMT4J and amyotrophic lateral sclerosis. Disruption of the Sac1-Vps74 interface results in a broader distribution of phosphatidylinositol 4-phosphate within the Golgi apparatus and failure to maintain residence of a medial Golgi mannosyltransferase. The analysis prompts a revision of the membrane-docking mechanism for GOLPH3 family proteins and reveals how an effector of phosphoinositide signaling serves a dual function in signal termination.


    Organizational Affiliation

    Department of Cell Biology, Yale School of Medicine, New Haven, CT 06520 christopher.burd@yale.edu karin.reinisch@yale.edu.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Phosphoinositide phosphatase SAC1X623Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: SAC1RSD1YKL212W
EC: 3.1.3 (PDB Primary Data), 3.1.3.64 (UniProt)
Find proteins for P32368 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P32368 
Go to UniProtKB:  P32368
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence

Find similar proteins by: Sequence  |  Structure

Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Vacuolar protein sorting-associated protein 74A345Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: VPS74YDR372CD9481.15
Find proteins for Q06385 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore Q06385 
Go to UniProtKB:  Q06385
Protein Feature View
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.19 Å
  • R-Value Free: 0.255 
  • R-Value Work: 0.226 
  • R-Value Observed: 0.229 
  • Space Group: H 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 159.338α = 90
b = 159.338β = 90
c = 143.389γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-08-27
    Type: Initial release
  • Version 1.1: 2014-10-01
    Changes: Database references