1VR2

HUMAN VASCULAR ENDOTHELIAL GROWTH FACTOR RECEPTOR 2 (KDR) KINASE DOMAIN

• PDB DOI:  https://doi.org/10.2210/pdb1VR2/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): Yes 


• Deposited: 1998-12-03 Released: 2000-03-15 
• Deposition Author(s): Mctigue, M., Wickersham, J., Pinko, C., Showalter, R., Parast, C., Tempczyk-Russell, A., Gehring, M., Mroczkowski, B., Kan, C., Villafranca, J., Appelt, K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Work: 0.215 
• R-Value Observed: 0.215 

Literature

Crystal structure of the kinase domain of human vascular endothelial growth factor receptor 2: a key enzyme in angiogenesis.

McTigue, M.A., Wickersham, J.A., Pinko, C., Showalter, R.E., Parast, C.V., Tempczyk-Russell, A., Gehring, M.R., Mroczkowski, B., Kan, C.C., Villafranca, J.E., Appelt, K.

(1999) Structure 7: 319-330

• PubMed: 10368301 
• DOI: https://doi.org/10.1016/s0969-2126(99)80042-2
• Primary Citation of Related Structures:  
  1VR2


• PubMed Abstract: 
  

  Angiogenesis is involved in tumor growth, macular degeneration, retinopathy and other diseases. Vascular endothelial growth factor (VEGF) stimulates angiogenesis by binding to specific receptors (VEGFRs) on the surface of vascular endothelial cells. VEGFRs are receptor tyrosine kinases that, like the platelet-derived growth factor receptors (PDGFRs), contain a large insert within the kinase domain.

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Organizational Affiliation: 

Agouron Pharmaceuticals, 3565 General Atomics Court, San Diego, CA 92121, USA. [e-mail]

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 36.27 kDa 
• Atom Count: 2,291 
• Modelled Residue Count: 275 
• Deposited Residue Count: 316 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN (VASCULAR ENDOTHELIAL GROWTH FACTOR RECEPTOR KINASE)	A	316	Homo sapiens	Mutation(s): 2  Gene Names: KDR EC: 2.7.1.112 (PDB Primary Data), 2.7.10.1 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for P35968 (Homo sapiens) Explore P35968  Go to UniProtKB:  P35968
PHAROS:  P35968

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
PTR	A	L-PEPTIDE LINKING	C9 H12 N O6 P		TYR

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Work: 0.215 
• R-Value Observed: 0.215 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 95.41	α = 90
b = 96.04	β = 90
c = 38.22	γ = 90

Software Package:

Software Name	Purpose
AMoRE	phasing
X-PLOR	refinement
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2000-03-15 
Deposition Author(s): Mctigue, M., Wickersham, J., Pinko, C., Showalter, R., Parast, C., Tempczyk-Russell, A., Gehring, M., Mroczkowski, B., Kan, C., Villafranca, J., Appelt, K.

Revision History  

• Version 1.0: 2000-03-15
  Type: Initial release
  
• Version 1.1: 2008-04-26
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-08-02
  Changes: Refinement description, Source and taxonomy
• Version 1.4: 2021-11-03
  Changes: Database references
• Version 1.5: 2022-12-21
  Changes: Database references
• Version 1.6: 2023-09-20
  Changes: Data collection, Refinement description
• Version 1.7: 2023-11-15
  Changes: Data collection