3HNG

Crystal structure of VEGFR1 in complex with N-(4-Chlorophenyl)-2-((pyridin-4-ylmethyl)amino)benzamide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.260
  • R-Value Work: 0.194

Literature

Macromolecules
Sequence Display for 3HNG

Classification: TRANSFERASE

Total Structure Weight: 41454.38

Macromolecule Entities
Molecule Chains Length Organism Details
Vascular endothelial growth factor receptor 1 A 360 Homo sapiens EC#: 2.7.10.1 IUBMB
Fragment: KINASE DOMAIN, UNP residues 801-1158
Gene Name(s): FLT1 Gene View FLT FRT VEGFR1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
8ST
Query on 8ST

A N-(4-chlorophenyl)-2-[(pyridin-4-ylmethyl)amino]benzamide
C19 H16 Cl N3 O
GGPZCOONYBPZEW-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
8ST IC50: 180 nM (100) BindingDB

N/A in BindingMoad
IC50: 180 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.260
  • R-Value Work: 0.194
  • Space Group: I 2 2 2

Unit Cell:

Length (Å) Angle (°)
a = 58.04 α = 90.00
b = 71.15 β = 90.00
c = 196.02 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-05-31
  • Released Date: 2009-06-30
  • Deposition author(s): Tresaugues, L., Roos, A., Arrowsmith, C.H., Berglund, H., Bountra, C., Collins, R., Edwards, A.M., Flodin, S., Flores, A., Graslund, S., Hammarstrom, M., Johansson, A., Johansson, I., Karlberg, T., Kotenyova, T., Moche, M., Nyman, T., Persson, C., Kragh-Nielsen, T., Kotzch, A., Sagemark, J., Schueler, H., Schutz, P., Siponen, M.I., Svensson, L., Thorsell, A.G., Van der Berg, S., Weigelt, J., Welin, M., Wisniewska, M., Nordlund, P., Structural Genomics Consortium (SGC)

Revision History

  • Version 1_0: 2009-06-30

    Type: Initial release

  • Version 1_1: 2011-07-13

    Type: Advisory, Refinement description, Version format compliance