4REY

Crystal Structure of the GRASP65-GM130 C-terminal peptide complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.96 Å
  • R-Value Free: 0.190 
  • R-Value Work: 0.152 
  • R-Value Observed: 0.155 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structural Basis for the Interaction between the Golgi Reassembly-stacking Protein GRASP65 and the Golgi Matrix Protein GM130.

Hu, F.Shi, X.Li, B.Huang, X.Morelli, X.Shi, N.

(2015) J Biol Chem 290: 26373-26382

  • DOI: 10.1074/jbc.M115.657940
  • Primary Citation of Related Structures:  
    4REY

  • PubMed Abstract: 
  • GM130 and GRASP65 are Golgi peripheral membrane proteins that play a key role in Golgi stacking and vesicle tethering. However, the molecular details of their interaction and their structural role as a functional unit remain unclear. Here, we present ...

    GM130 and GRASP65 are Golgi peripheral membrane proteins that play a key role in Golgi stacking and vesicle tethering. However, the molecular details of their interaction and their structural role as a functional unit remain unclear. Here, we present the crystal structure of the PDZ domains of GRASP65 in complex with the GM130 C-terminal peptide at 1.96-Å resolution. In contrast to previous findings proposing that GM130 interacts with GRASP65 at the PDZ2 domain only, our crystal structure of the complex indicates that GM130 binds to GRASP65 at two distinct sites concurrently and that both the PDZ1 and PDZ2 domains of GRASP65 participate in this molecular interaction. Mutagenesis experiments support these structural observations and demonstrate that they are required for GRASP65-GM130 association.


    Organizational Affiliation

    From the State Key Laboratory of Structural Chemistry, Fujian Institute of Research on the Structure of Matter, Chinese Academy of Sciences, Fuzhou 350002, China and shining@fjirsm.ac.cn ningshi2000@hotmail.com.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Golgi reassembly-stacking protein 1A213Homo sapiensMutation(s): 0 
Gene Names: GOLPH5GORASP1GRASP65
Find proteins for Q9BQQ3 (Homo sapiens)
Explore Q9BQQ3 
Go to UniProtKB:  Q9BQQ3
NIH Common Fund Data Resources
PHAROS  Q9BQQ3
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Golgin subfamily A member 2B27Homo sapiensMutation(s): 0 
Gene Names: GM130GOLGA2
Find proteins for Q08379 (Homo sapiens)
Explore Q08379 
Go to UniProtKB:  Q08379
NIH Common Fund Data Resources
PHAROS  Q08379
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download CCD File 
A
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.96 Å
  • R-Value Free: 0.190 
  • R-Value Work: 0.152 
  • R-Value Observed: 0.155 
  • Space Group: P 61
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 129.725α = 90
b = 129.725β = 90
c = 37.104γ = 120
Software Package:
Software NamePurpose
HKL-2000data collection
PHASESphasing
PHENIXrefinement
xia2data reduction
xia2data scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

  • Deposited Date: 2014-09-24 
  • Released Date: 2015-09-23 
  • Deposition Author(s): Shi, N., Hu, F., Li, B.

Revision History 

  • Version 1.0: 2015-09-23
    Type: Initial release
  • Version 1.1: 2015-11-18
    Changes: Database references
  • Version 1.2: 2016-11-23
    Changes: Structure summary