3KY9

Autoinhibited Vav1

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.73 Å
  • R-Value Free: 0.271 
  • R-Value Work: 0.223 
  • R-Value Observed: 0.225 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history. 


Literature

Structural and Energetic Mechanisms of Cooperative Autoinhibition and Activation of Vav1

Yu, B., Martins, I.R., Li, P., Amarasinghe, G.K., Umetani, J., Fernandez-Zapico, M.E., Billadeau, D.D., Machius, M., Tomchick, D.R., Rosen, M.K.

(2010) Cell 140: 246-256

  • DOI: 10.1016/j.cell.2009.12.033
  • Primary Citation of Related Structures:  
    3KY9

  • PubMed Abstract: 

    • Vav proteins are guanine nucleotide exchange factors (GEFs) for Rho family GTPases. They control processes including T cell activation, phagocytosis, and migration of normal and transformed cells. We report the structure and biophysical and cellular ...

    Vav proteins are guanine nucleotide exchange factors (GEFs) for Rho family GTPases. They control processes including T cell activation, phagocytosis, and migration of normal and transformed cells. We report the structure and biophysical and cellular analyses of the five-domain autoinhibitory element of Vav1. The catalytic Dbl homology (DH) domain of Vav1 is controlled by two energetically coupled processes. The DH active site is directly, but weakly, inhibited by a helix from the adjacent Acidic domain. This core interaction is strengthened 10-fold by contacts of the calponin homology (CH) domain with the Acidic, pleckstrin homology, and DH domains. This construction enables efficient, stepwise relief of autoinhibition: initial phosphorylation events disrupt the modulatory CH contacts, facilitating phosphorylation of the inhibitory helix and consequent GEF activation. Our findings illustrate how the opposing requirements of strong suppression of activity and rapid kinetics of activation can be achieved in multidomain systems.

    Related Citations: 
    • Internal dynamics control activation and activity of the autoinhibited Vav DH domain
      Li, P., Martins, I.R., Amarasinghe, G.K., Rosen, M.K.
      (2008) Nat Struct Mol Biol 15: 613
    • Acidic region tyrosines provide access points for allosteric activation of the autoinhibited Vav1 Dbl homology domain.
      Amarasinghe, G.K., Rosen, M.K.
      (2005) Biochemistry 44: 15257
    • Structural basis for relief of autoinhibition of the Dbl homology domain of proto-oncogene Vav by tyrosine phosphorylation.
      Aghazadeh, B., Lowry, W.E., Huang, X.Y., Rosen, M.K.
      (2000) Cell 102: 625
    Organizational Affiliation: 

    Department of Biochemistry, Howard Hughes Medical Institute, University of Texas Southwestern Medical Center, 5323 Harry Hines Boulevard, Dallas, TX 75390-8816, USA.



Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Proto-oncogene vavA, B587Homo sapiensMutation(s): 0 
Gene Names: VAV, VAV1
Find proteins for P15498 (Homo sapiens)
Explore P15498 
Go to UniProtKB:  P15498
NIH Common Fund Data Resources
PHAROS  P15498
GTEx  ENSG00000141968
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN
Download CCD File 
A, B
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N		 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.73 Å
  • R-Value Free: 0.271 
  • R-Value Work: 0.223 
  • R-Value Observed: 0.225 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 85.376α = 90
b = 58.738β = 97.31
c = 160.721γ = 90
Software Package:
Software NamePurpose
MLPHAREphasing
DMphasing
PHENIXrefinement
PDB_EXTRACTdata extraction
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-02-23
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance