3CS9

Human ABL kinase in complex with nilotinib


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.21 Å
  • R-Value Free: 0.242
  • R-Value Work: 0.197

Literature

Macromolecules
Sequence Display for 3CS9

Classification: TRANSFERASE

Total Structure Weight: 130321.67

Macromolecule Entities
Molecule Chains Length Organism Details
Proto-oncogene tyrosine-protein kinase ABL1 A, B, C, D 277 Homo sapiens EC#: 2.7.10.2 IUBMB
Fragment: KINASE DOMAIN (UNP residues 229-500)
Gene Name(s): ABL1 Gene View ABL JTK7
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NIL
Query on NIL

A, B, C, D Nilotinib
4-methyl-N-[3-(4-methyl-1H-imidazol-1-yl)- 5-(trifluoromethyl)phenyl]-3-[(4-pyridin- 3-ylpyrimidin-2-yl)amino]benzamide (Synonym)
C28 H22 F3 N7 O
HHZIURLSWUIHRB-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
NIL IC50: 38 - >5000 nM (99 - 100) BindingDB
Kd: 3.6 - >10000 nM (92 - 100) BindingDB
Ki: 1 nM (100) BindingDB

IC50: 33000 nM  BindingMOAD
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.21 Å
  • R-Value Free: 0.242
  • R-Value Work: 0.197
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 93.93 α = 90.00
b = 118.09 β = 90.00
c = 123.68 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-04-09
  • Released Date: 2008-04-22
  • Deposition author(s): Cowan-Jacob, S.W., Fendrich, G., Manley, P., Liebetanz, J., Fabbro, D.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4