Structure of h-CHK1 complexed with AA582939

Experimental Data Snapshot

  • Resolution: 2.10 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.212 
  • R-Value Observed: 0.229 

wwPDB Validation   3D Report Full Report

This is version 1.2 of the entry. See complete history


Discovery of 1,4-dihydroindeno[1,2-c]pyrazoles as a novel class of potent and selective checkpoint kinase 1 inhibitors.

Tong, Y.Claiborne, A.Stewart, K.D.Park, C.Kovar, P.Chen, Z.Credo, R.B.Gu, W.Z.Gwaltney, S.L.Judge, R.A.Zhang, H.Rosenberg, S.H.Sham, H.L.Sowin, T.J.Lin, N.H.

(2007) Bioorg Med Chem 15: 2759-2767

  • DOI: https://doi.org/10.1016/j.bmc.2007.01.012
  • Primary Citation of Related Structures:  
    2E9N, 2E9O

  • PubMed Abstract: 

    A new class of checkpoint kinase 1 (CHK-1) inhibitors bearing a 1,4-dihydroindeno[1,2-c]pyrazole core was developed after initial hits from high throughput screening. The efficient hit-to-lead process was facilitated by X-ray crystallography and led to potent inhibitors (<10nM) against CHK-1. X-ray co-crystal structures of bound inhibitors demonstrated that two sub-series of this class of compounds, exemplified by 21 and 41, exhibit distinctive hydrogen bonding patterns in the specificity pocket of the active site. Two compounds, 41 and 43, were capable of potentiating doxorubicin and camptothecin, both DNA-damaging agents, in cell proliferation assays (MTS and soft agar assays) and abrogating G2/M checkpoint in a mechanism-based FACS assay.

  • Organizational Affiliation

    Cancer Research, Global Pharmaceutical R&D, Abbott Laboratories, Abbott Park, IL 60064, USA. yunsong.tong@abbott.com

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Serine/threonine-protein kinase Chk1269Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for O14757 (Homo sapiens)
Explore O14757 
Go to UniProtKB:  O14757
PHAROS:  O14757
GTEx:  ENSG00000149554 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO14757
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on A58

Download Ideal Coordinates CCD File 
C25 H27 N3 O2
Binding Affinity Annotations 
IDSourceBinding Affinity
A58 BindingDB:  2E9O Ki: 20 (nM) from 1 assay(s)
IC50: 20 (nM) from 1 assay(s)
Binding MOAD:  2E9O IC50: 20 (nM) from 1 assay(s)
PDBBind:  2E9O IC50: 20 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Resolution: 2.10 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.212 
  • R-Value Observed: 0.229 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 44.94α = 90
b = 65.711β = 94.2
c = 57.773γ = 90
Software Package:
Software NamePurpose
HKL-2000data collection
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report

Entry History 

Deposition Data

  • Released Date: 2008-01-29 
  • Deposition Author(s): Park, C.

Revision History  (Full details and data files)

  • Version 1.0: 2008-01-29
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2024-03-13
    Changes: Data collection, Database references, Derived calculations