Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors and generated by PQS (software)

Macromolecule Content

• Total Structure Weight: 68.09 kDa 
• Atom Count: 4883 
• Modelled Residue Count: 544 
• Deposited Residue Count: 590 
• Unique protein chains: 2

2VRW

Critical structural role for the PH and C1 domains of the Vav1 exchange factor

• PDB DOI: 10.2210/pdb2VRW/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens, Mus musculus
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2008-04-16 Released: 2008-06-17 
• Deposition Author(s): Rapley, J., Tybulewicz, V., Rittinger, K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free: 0.251 
• R-Value Work: 0.203 
• R-Value Observed: 0.205 

Literature

Crucial Structural Role for the Ph and C1 Domains of the Vav1 Exchange Factor.

Rapley, J., Tybulewicz, V., Rittinger, K.

(2008) EMBO Rep 9: 655

• PubMed: 18511940 
• DOI: 10.1038/embor.2008.80
• Primary Citation of Related Structures:  
  2VRW


• PubMed Abstract: 
  

The Vav family of proteins are guanine nucleotide exchange factors (GEFs) for the Rho family of GTPases, which regulate various cellular functions, including T-cell activation. They contain a catalytic Dbl homology (DH) domain that is invariably followed by a pleckstrin homology (PH) domain, which is often required for catalytic activity. Vav proteins are the first GEFs for which an additional C1 domain is required for full biological activity. Here, we present the structure of a Vav1 fragment comprising the DH-PH-C1 domains bound to Rac1. This structure shows that the PH and C1 domains form a single structural unit that packs against the carboxy-terminal helix of the DH domain to stabilize its conformation and to promote nucleotide exchange. In contrast to previous reports, this structure shows that there are no direct contacts between the GTPase and C1 domain but instead suggests new mechanisms for the regulation of Vav1 activity.

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Organizational Affiliation: 

Division of Molecular Structure, and National Institute for Medical Research, The Ridgeway, London NW7 1AA, UK.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RAS-RELATED C3 BOTULINUM TOXIN SUBSTRATE 1	A	184	Homo sapiens	Mutation(s): 0  Gene Names: RAC1, TC25, MIG5 EC: 3.6.5.2
UniProt & NIH Common Fund Data Resources
Find proteins for P63000 (Homo sapiens) Explore P63000  Go to UniProtKB:  P63000
PHAROS:  P63000

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTO-ONCOGENE VAV	B	406	Mus musculus	Mutation(s): 0  Gene Names: Vav1, Vav
UniProt
Find proteins for P27870 (Mus musculus) Explore P27870  Go to UniProtKB:  P27870

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	C [auth B], D [auth B]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free: 0.251 
• R-Value Work: 0.203 
• R-Value Observed: 0.205 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 122.763	α = 90
b = 62.143	β = 118.8
c = 103.281	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
DEN	data reduction
SCALEPACK	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2008-04-16 
• Released Date: 2008-06-17 
Deposition Author(s): Rapley, J., Tybulewicz, V., Rittinger, K.

Revision History  

• Version 1.0: 2008-06-17
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance