4B93

Complex of Vamp7 cytoplasmic domain with 2nd ankyrin repeat domain of Varp


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.251 
  • R-Value Work: 0.213 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

The Binding of Varp to Vamp7 Traps Vamp7 in a Closed, Fusogenically Inactive Conformation.

Schafer, I.B.Hesketh, G.G.Bright, N.A.Gray, S.R.Pryor, P.R.Evans, P.R.Luzio, J.P.Owen, D.J.

(2012) Nat.Struct.Mol.Biol. 19: 1300

  • DOI: 10.1038/nsmb.2414

  • PubMed Abstract: 
  • SNAREs provide energy and specificity to membrane fusion events. Fusogenic trans-SNARE complexes are assembled from glutamine-contributing SNAREs (Q-SNAREs) embedded in one membrane and an arginine-contributing SNARE (R-SNARE) embedded in the other. ...

    SNAREs provide energy and specificity to membrane fusion events. Fusogenic trans-SNARE complexes are assembled from glutamine-contributing SNAREs (Q-SNAREs) embedded in one membrane and an arginine-contributing SNARE (R-SNARE) embedded in the other. Regulation of membrane fusion events is crucial for intracellular trafficking. We identify the endosomal protein Varp as an R-SNARE-binding regulator of SNARE complex formation. Varp colocalizes with and binds to VAMP7, an R-SNARE that is involved in both endocytic and secretory pathways. We present the structure of the second ankyrin repeat domain of mammalian Varp in complex with the cytosolic portion of VAMP7. The VAMP7-SNARE motif is trapped between Varp and the VAMP7 longin domain, and hence Varp kinetically inhibits the ability of VAMP7 to form SNARE complexes. This inhibition will be increased when Varp can also bind to other proteins present on the same membrane as VAMP7, such as Rab32-GTP.


    Organizational Affiliation

    Medical Research Council Laboratory of Molecular Biology, Cambridge, UK.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
VESICLE-ASSOCIATED MEMBRANE PROTEIN 7
A
189Mus musculusMutation(s): 0 
Gene Names: Vamp7 (Sybl1)
Find proteins for P70280 (Mus musculus)
Go to UniProtKB:  P70280
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
ANKYRIN REPEAT DOMAIN-CONTAINING PROTEIN 27
B
269Homo sapiensMutation(s): 0 
Gene Names: ANKRD27
Find proteins for Q96NW4 (Homo sapiens)
Go to Gene View: ANKRD27
Go to UniProtKB:  Q96NW4
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.251 
  • R-Value Work: 0.213 
  • Space Group: C 2 2 21
Unit Cell:
Length (Å)Angle (°)
a = 69.570α = 90.00
b = 122.660β = 90.00
c = 158.600γ = 90.00
Software Package:
Software NamePurpose
Aimlessdata scaling
MOSFLMdata reduction
SHARPphasing
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2012-10-31
    Type: Initial release
  • Version 1.1: 2012-12-19
    Type: Database references
  • Version 1.2: 2017-01-25
    Type: Data collection