Pak1 in complex with 7-azaindole inhibitor

Experimental Data Snapshot

  • Resolution: 2.36 Å
  • R-Value Free: 0.255 
  • R-Value Work: 0.195 
  • R-Value Observed: 0.198 

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Ligand Structure Quality Assessment 

This is version 1.2 of the entry. See complete history


Optimization of Highly Kinase Selective Bis-anilino Pyrimidine PAK1 Inhibitors.

McCoull, W.Hennessy, E.J.Blades, K.Chuaqui, C.Dowling, J.E.Ferguson, A.D.Goldberg, F.W.Howe, N.Jones, C.R.Kemmitt, P.D.Lamont, G.Varnes, J.G.Ward, R.A.Yang, B.

(2016) ACS Med Chem Lett 7: 1118-1123

  • DOI: https://doi.org/10.1021/acsmedchemlett.6b00322
  • Primary Citation of Related Structures:  
    5KBQ, 5KBR

  • PubMed Abstract: 

    Group I p21-activated kinase (PAK) inhibitors are indicated as important in cancer progression, but achieving high kinase selectivity has been challenging. A bis-anilino pyrimidine PAK1 inhibitor was identified and optimized through structure-based drug design to improve PAK1 potency and achieve high kinase selectivity, giving in vitro probe compound AZ13705339 ( 18 ). Reduction of lipophilicity to lower clearance afforded AZ13711265 ( 14 ) as an in vivo probe compound with oral exposure in mouse. Such probes will allow further investigation of PAK1 biology.

  • Organizational Affiliation

    AstraZeneca , Alderley Park, Macclesfield, Cheshire, SK10 4TG, U.K.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Serine/threonine-protein kinase PAK 1
A, B
289Homo sapiensMutation(s): 3 
Gene Names: PAK1
UniProt & NIH Common Fund Data Resources
Find proteins for Q13153 (Homo sapiens)
Explore Q13153 
Go to UniProtKB:  Q13153
PHAROS:  Q13153
GTEx:  ENSG00000149269 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ13153
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on IPW

Download Ideal Coordinates CCD File 
C [auth A],
D [auth B]
C22 H20 Cl N5 O
Binding Affinity Annotations 
IDSourceBinding Affinity
IPW Binding MOAD:  5KBR IC50: 260 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Resolution: 2.36 Å
  • R-Value Free: 0.255 
  • R-Value Work: 0.195 
  • R-Value Observed: 0.198 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 61.818α = 90
b = 81.827β = 107.05
c = 65.914γ = 90
Software Package:
Software NamePurpose
XDSdata reduction
SCALAdata scaling
Cootmodel building

Structure Validation

View Full Validation Report

Ligand Structure Quality Assessment 

Entry History 

Deposition Data

  • Released Date: 2016-09-28 
  • Deposition Author(s): Ferguson, A.

Revision History  (Full details and data files)

  • Version 1.0: 2016-09-28
    Type: Initial release
  • Version 1.1: 2017-01-11
    Changes: Database references
  • Version 1.2: 2023-09-27
    Changes: Data collection, Database references, Refinement description