1VPF

STRUCTURE OF HUMAN VASCULAR ENDOTHELIAL GROWTH FACTOR


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.297 
  • R-Value Work: 0.205 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Vascular endothelial growth factor: crystal structure and functional mapping of the kinase domain receptor binding site.

Muller, Y.A.Li, B.Christinger, H.W.Wells, J.A.Cunningham, B.C.de Vos, A.M.

(1997) Proc.Natl.Acad.Sci.USA 94: 7192-7197


  • PubMed Abstract: 
  • Vascular endothelial growth factor (VEGF) is a homodimeric member of the cystine knot family of growth factors, with limited sequence homology to platelet-derived growth factor (PDGF) and transforming growth factor beta2 (TGF-beta). We have determine ...

    Vascular endothelial growth factor (VEGF) is a homodimeric member of the cystine knot family of growth factors, with limited sequence homology to platelet-derived growth factor (PDGF) and transforming growth factor beta2 (TGF-beta). We have determined its crystal structure at a resolution of 2.5 A, and identified its kinase domain receptor (KDR) binding site using mutational analysis. Overall, the VEGF monomer resembles that of PDGF, but its N-terminal segment is helical rather than extended. The dimerization mode of VEGF is similar to that of PDGF and very different from that of TGF-beta. Mutational analysis of VEGF reveals that symmetrical binding sites for KDR are located at each pole of the VEGF homodimer. Each site contains two functional "hot spots" composed of binding determinants presented across the subunit interface. The two most important determinants are located within the largest hot spot on a short, three-stranded sheet that is conserved in PDGF and TGF-beta. Functional analysis of the binding epitopes for two receptor-blocking antibodies reveal different binding determinants near each of the KDR binding hot spots.


    Related Citations: 
    • Crystallization of the Receptor Binding Domain of Vascular Endothelial Growth Factor
      Christinger, H.W.,Muller, Y.A.,Berleau, L.T.,Keyt, B.A.,Cunningham, B.C.,Ferrara, N.,De Vos, A.M.
      (1996) Proteins 26: 353


    Organizational Affiliation

    Genentech, Inc., Department of Protein Engineering, 460 Point San Bruno Boulevard, South San Francisco, CA 94080, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
VASCULAR ENDOTHELIAL GROWTH FACTOR
A, B, C, D
102Homo sapiensMutation(s): 0 
Gene Names: VEGFA (VEGF)
Find proteins for P15692 (Homo sapiens)
Go to Gene View: VEGFA
Go to UniProtKB:  P15692
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.297 
  • R-Value Work: 0.205 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 56.190α = 90.00
b = 59.810β = 90.00
c = 77.520γ = 90.00
Software Package:
Software NamePurpose
X-PLORrefinement
XDSdata scaling
X-PLORmodel building
XSCALEdata scaling
XDSdata reduction
X-PLORphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1998-04-08
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance