1RV6

Crystal Structure of PlGF in Complex with Domain 2 of VEGFR1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.45 Å
  • R-Value Free: 0.260 
  • R-Value Work: 0.194 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

The crystal structure of placental growth factor in complex with domain 2 of vascular endothelial growth factor receptor-1.

Christinger, H.W.Fuh, G.de Vos, A.M.Wiesmann, C.

(2004) J.Biol.Chem. 279: 10382-10388

  • DOI: 10.1074/jbc.M313237200

  • PubMed Abstract: 
  • Placental growth factor (PlGF) is a member of the vascular endothelial growth factor (VEGF) family and plays an important role in pathological angiogenic events. PlGF exerts its biological activities through binding to VEGFR1, a receptor tyrosine kin ...

    Placental growth factor (PlGF) is a member of the vascular endothelial growth factor (VEGF) family and plays an important role in pathological angiogenic events. PlGF exerts its biological activities through binding to VEGFR1, a receptor tyrosine kinase that consists of seven immunoglobulin-like domains in its extracellular portion. Here we report the crystal structure of PlGF bound to the second immunoglobulin-like domain of VEGFR1 at 2.5 A resolution and compare the complex to the closely related structure of VEGF bound to the same receptor domain. The two growth factors, PlGF and VEGF, share a sequence identity of approximately 50%. Despite this moderate sequence conservation, they bind to the same binding interface of VEGFR1 in a very similar fashion, suggesting that both growth factors could induce very similar if not identical signaling events.


    Related Citations: 
    • The crystal structure of human placenta growth factor-1 (PlGF-1), an angiogenic protein, at 2.0 A resolution.
      Iyer, S.,Demetres, D.,Leonidas, G.,Swaminathan, J.,Maglione, D.,Battisti, M.,Tucci, M.,Persico, G.,Acharya, K.R.
      (2001) J.Biol.Chem. 276: 12153
    • Crystal structure at 1.7 A resolution of VEGF in complex with domain 2 of the Flt-1 receptor
      Wiesmann, C.,Fuh, G.,Christinger, C.H.,Eigenbrot, C.,Wells, J.A.,de Vos, A.M.
      (1997) Cell 91: 695


    Organizational Affiliation

    Department of Protein Engineering Genentech, Inc., South San Francisco, California 94080, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
placenta growth factor (PlGF)
V, W
101Homo sapiensMutation(s): 0 
Gene Names: PGF (PGFL, PLGF)
Find proteins for P49763 (Homo sapiens)
Go to Gene View: PGF
Go to UniProtKB:  P49763
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
FLT1 protein
X, Y
100Homo sapiensMutation(s): 0 
Gene Names: FLT1 (FLT, FRT, VEGFR1)
EC: 2.7.10.1
Find proteins for P17948 (Homo sapiens)
Go to Gene View: FLT1
Go to UniProtKB:  P17948
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
B3P
Query on B3P

Download SDF File 
Download CCD File 
W
2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
C11 H26 N2 O6
HHKZCCWKTZRCCL-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.45 Å
  • R-Value Free: 0.260 
  • R-Value Work: 0.194 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 54.281α = 90.00
b = 71.979β = 90.00
c = 115.346γ = 90.00
Software Package:
Software NamePurpose
AMoREphasing
REFMACrefinement
SCALEPACKdata scaling
DENZOdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2004-01-20
    Type: Initial release
  • Version 1.1: 2008-04-29
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Advisory, Version format compliance