2GQG

X-ray Crystal Structure of Dasatinib (BMS-354825) Bound to Activated ABL Kinase Domain


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.273 
  • R-Value Work: 0.208 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

The Structure of Dasatinib (BMS-354825) Bound to Activated ABL Kinase Domain Elucidates Its Inhibitory Activity against Imatinib-Resistant ABL Mutants

Tokarski, J.S.Newitt, J.Chang, C.Y.J.Cheng, J.D.Wittekind, M.Kiefer, S.E.Kish, K.Lee, F.Y.F.Borzilerri, R.Lombardo, L.J.Xie, D.Zhang, Y.Klei, H.E.

(2006) Cancer Res 66: 5790-5797

  • DOI: 10.1158/0008-5472.CAN-05-4187
  • Primary Citation of Related Structures:  
    2GQG

  • PubMed Abstract: 
  • Chronic myeloid leukemia (CML) is caused by the constitutively activated tyrosine kinase breakpoint cluster (BCR)-ABL. Current frontline therapy for CML is imatinib, an inhibitor of BCR-ABL. Although imatinib has a high rate of clinical success in early phase CML, treatment resistance is problematic, particularly in later stages of the disease, and is frequently mediated by mutations in BCR-ABL ...

    Chronic myeloid leukemia (CML) is caused by the constitutively activated tyrosine kinase breakpoint cluster (BCR)-ABL. Current frontline therapy for CML is imatinib, an inhibitor of BCR-ABL. Although imatinib has a high rate of clinical success in early phase CML, treatment resistance is problematic, particularly in later stages of the disease, and is frequently mediated by mutations in BCR-ABL. Dasatinib (BMS-354825) is a multitargeted tyrosine kinase inhibitor that targets oncogenic pathways and is a more potent inhibitor than imatinib against wild-type BCR-ABL. It has also shown preclinical activity against all but one of the imatinib-resistant BCR-ABL mutants tested to date. Analysis of the crystal structure of dasatinib-bound ABL kinase suggests that the increased binding affinity of dasatinib over imatinib is at least partially due to its ability to recognize multiple states of BCR-ABL. The structure also provides an explanation for the activity of dasatinib against imatinib-resistant BCR-ABL mutants.


    Organizational Affiliation

    Bristol-Myers Squibb Company, Pharmaceutical Research Institute, Princeton, New Jersey, USA. john.tokarski@bms.com



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Proto-oncogene tyrosine-protein kinase ABL1A, B278Homo sapiensMutation(s): 1 
Gene Names: ABL1ABLJTK7
EC: 2.7.10.2
UniProt & NIH Common Fund Data Resources
Find proteins for P00519 (Homo sapiens)
Explore P00519 
Go to UniProtKB:  P00519
PHAROS:  P00519
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
1N1
Query on 1N1

Download Ideal Coordinates CCD File 
C [auth A], D [auth B]N-(2-CHLORO-6-METHYLPHENYL)-2-({6-[4-(2-HYDROXYETHYL)PIPERAZIN-1-YL]-2-METHYLPYRIMIDIN-4-YL}AMINO)-1,3-THIAZOLE-5-CARBOXAMIDE
C22 H26 Cl N7 O2 S
ZBNZXTGUTAYRHI-UHFFFAOYSA-N
 Ligand Interaction
GOL
Query on GOL

Download Ideal Coordinates CCD File 
E [auth B]GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
PTR
Query on PTR
A, BL-PEPTIDE LINKINGC9 H12 N O6 PTYR
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
1N1Kd:  0.30000001192092896   nM  BindingDB
1N1Kd:  1.100000023841858   nM  BindingDB
1N1IC50:  3   nM  BindingDB
1N1Kd:  0.05999999865889549   nM  BindingDB
1N1Kd:  0.9599999785423279   nM  BindingDB
1N1Kd:  0.17000000178813934   nM  BindingDB
1N1Kd:  120   nM  BindingDB
1N1IC50:  0.800000011920929   nM  BindingDB
1N1Kd:  0.05000000074505806   nM  BindingDB
1N1Kd:  0.5   nM  BindingDB
1N1IC50:  4.199999809265137   nM  BindingDB
1N1Kd:  0.5299999713897705   nM  BindingDB
1N1IC50:  7.599999904632568   nM  BindingDB
1N1Kd:  0.03999999910593033   nM  BindingDB
1N1IC50:  0.20000000298023224   nM  BindingDB
1N1IC50:  1   nM  BindingDB
1N1IC50:  0.14000000059604645   nM  BindingDB
1N1IC50:  10   nM  BindingDB
1N1Kd:  59   nM  BindingDB
1N1IC50:  1000   nM  BindingDB
1N1Kd:  0.10000000149011612   nM  BindingDB
1N1IC50:  4   nM  BindingDB
1N1IC50:  700   nM  BindingDB
1N1Kd:  2.0999999046325684   nM  BindingDB
1N1IC50:  14   nM  BindingDB
1N1IC50:  220   nM  BindingDB
1N1Kd:  40   nM  BindingDB
1N1Kd:  0.019999999552965164   nM  BindingDB
1N1Kd:  0.699999988079071   nM  BindingDB
1N1IC50:  0.5   nM  BindingDB
1N1Kd:  2   nM  BindingDB
1N1Kd:  0.7200000286102295   nM  BindingDB
1N1IC50:  0.25999999046325684   nM  BindingDB
1N1Kd:  1.2000000476837158   nM  BindingDB
1N1Kd:  1   nM  BindingDB
1N1IC50:  17   nM  BindingDB
1N1Kd:  0.029999999329447746   nM  BindingDB
1N1EC50:  0.03999999910593033   nM  BindingDB
1N1IC50:  15   nM  BindingDB
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.273 
  • R-Value Work: 0.208 
  • Space Group: P 43 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 105.192α = 90
b = 105.192β = 90
c = 111.1γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing
CNSrefinement
PDB_EXTRACTdata extraction
ADSCdata collection

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

  • Deposited Date: 2006-04-20 
  • Released Date: 2006-11-21 
  • Deposition Author(s): Klei, H.E.

Revision History  (Full details and data files)

  • Version 1.0: 2006-11-21
    Type: Initial release
  • Version 1.1: 2008-05-01
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Non-polymer description, Version format compliance
  • Version 1.3: 2017-10-18
    Changes: Refinement description