3G0F

KIT kinase domain mutant D816H in complex with sunitinib


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.255
  • R-Value Work: 0.204

Literature

Macromolecules
Sequence Display for 3G0F

Classification: TRANSFERASE

Total Structure Weight: 77373.48

Macromolecule Entities
Molecule Chains Length Organism Details
Mast/stem cell growth factor receptor A, B 336 Homo sapiens EC#: 2.7.10.1 IUBMB
Fragment: Kinase domain - KID deleted
Mutation: D816H
Gene Name(s): KIT Gene View SCFR
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
B49
Query on B49

A, B N-[2-(diethylamino)ethyl]-5-[(Z)-(5-fluoro- 2-oxo-1,2-dihydro-3H-indol-3-ylidene)methyl]- 2,4-dimethyl-1H-pyrrole-3-carboxamide
SUNITINIB (Synonym)
C22 H27 F N4 O2
WINHZLLDWRZWRT-ATVHPVEESA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
B49 N/A in BindingDB
N/A in BindingMoad
Kd: 22 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.255
  • R-Value Work: 0.204
  • Space Group: P 21 21 2

Unit Cell:

Length (Å) Angle (°)
a = 79.46 α = 90.00
b = 101.78 β = 90.00
c = 105.50 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-01-27
  • Released Date: 2009-02-24
  • Deposition author(s): Gajiwala, K.S., Wu, J.C., Lunney, E.A., Demetri, G.D.

Revision History

  • 2011-07-13
    Type: Version format compliance
  • 2017-08-16
    Type: Refinement description, Source and taxonomy