Structure of CDK2 in complex with an imidazolyl pyrimidine, compound 5c

Experimental Data Snapshot

  • Resolution: 2.04 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.205 

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This is version 2.2 of the entry. See complete history


Imidazoles: Sar and Development of a Potent Class of Cyclin-Dependent Kinase Inhibitors

Anderson, M.Andrews, D.M.Barker, A.J.Brassington, C.A.Breed, J.Byth, K.F.Culshaw, J.D.Finlay, M.R.V.Fisher, E.Mcmiken, H.H.J.Green, C.P.Heaton, D.W.Nash, I.A.Newcombe, N.J.Oakes, S.E.Pauptit, R.A.Roberts, A.Stanway, J.J.Thomas, A.P.Tucker, J.A.Walker, M.Weir, H.M.

(2008) Bioorg Med Chem Lett 18: 5487

  • DOI: https://doi.org/10.1016/j.bmcl.2008.09.024
  • Primary Citation of Related Structures:  
    2W05, 2W06

  • PubMed Abstract: 

    An imidazole series of cyclin-dependent kinase (CDK) inhibitors has been developed. Protein inhibitor structure determination has provided an understanding of the emerging structure activity trends for the imidazole series. The introduction of a methyl sulfone at the aniline terminus led to a more orally bioavailable CDK inhibitor that was progressed into clinical development.

  • Organizational Affiliation

    AstraZeneca, Alderley Park, Macclesfield, Cheshire SK10 4TG, UK.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
CELL DIVISION PROTEIN KINASE 2299Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P24941 (Homo sapiens)
Explore P24941 
Go to UniProtKB:  P24941
PHAROS:  P24941
GTEx:  ENSG00000123374 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP24941
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on FRV

Download Ideal Coordinates CCD File 
C18 H20 N6 O2 S
Binding Affinity Annotations 
IDSourceBinding Affinity
FRV PDBBind:  2W06 IC50: 83 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Resolution: 2.04 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.205 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 53.643α = 90
b = 72.62β = 90
c = 71.947γ = 90
Software Package:
Software NamePurpose
MOSFLMdata reduction
SCALAdata scaling

Structure Validation

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Ligand Structure Quality Assessment 

Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2008-09-23
    Type: Initial release
  • Version 1.1: 2011-05-07
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 2.0: 2017-07-05
    Changes: Atomic model, Data collection, Derived calculations
  • Version 2.1: 2019-04-24
    Changes: Data collection, Source and taxonomy
  • Version 2.2: 2024-05-01
    Changes: Data collection, Database references, Other, Refinement description