Co-crystal Structure of JNK1 and AX13587

Experimental Data Snapshot

  • Resolution: 1.95 Å
  • R-Value Free: 0.198 
  • R-Value Work: 0.161 
  • R-Value Observed: 0.162 

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This is version 1.2 of the entry. See complete history


Hit-to-lead optimization and kinase selectivity of imidazo[1,2-a]quinoxalin-4-amine derived JNK1 inhibitors.

Li, B.Cociorva, O.M.Nomanbhoy, T.Weissig, H.Li, Q.Nakamura, K.Liyanage, M.Zhang, M.C.Shih, A.Y.Aban, A.Hu, Y.Cajica, J.Pham, L.Kozarich, J.W.Shreder, K.R.

(2013) Bioorg Med Chem Lett 23: 5217-5222

  • DOI: https://doi.org/10.1016/j.bmcl.2013.06.087
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    As the result of a rhJNK1 HTS, the imidazo[1,2-a]quinoxaline 1 was identified as a 1.6 μM rhJNK1 inhibitor. Optimization of this compound lead to AX13587 (rhJNK1 IC50=160 nM) which was co-crystallized with JNK1 to identify key molecular interactions. Kinase profiling against 125+ kinases revealed AX13587 was an inhibitor of JNK, MAST3, and MAST4 whereas its methylene homolog AX14373 (native JNK1 IC50=47 nM) was a highly specific JNK inhibitor.

  • Organizational Affiliation

    ActivX Biosciences, Inc., 11025 N. Torrey Pines Road, La Jolla, CA 92037, USA.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Mitogen-activated protein kinase 8367Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P45983 (Homo sapiens)
Explore P45983 
Go to UniProtKB:  P45983
GTEx:  ENSG00000107643 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP45983
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on 1V5

Download Ideal Coordinates CCD File 
B [auth A]N-[1-(4-fluorophenyl)cyclopropyl]-4-[(trans-4-hydroxycyclohexyl)amino]imidazo[1,2-a]quinoxaline-8-carboxamide
C26 H26 F N5 O2
Binding Affinity Annotations 
IDSourceBinding Affinity
1V5 PDBBind:  4L7F IC50: 160 (nM) from 1 assay(s)
Binding MOAD:  4L7F IC50: 160 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Resolution: 1.95 Å
  • R-Value Free: 0.198 
  • R-Value Work: 0.161 
  • R-Value Observed: 0.162 
  • Space Group: H 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 135.802α = 90
b = 135.802β = 90
c = 94.208γ = 120
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction

Structure Validation

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Ligand Structure Quality Assessment 

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2013-08-21
    Type: Initial release
  • Version 1.1: 2013-10-09
    Changes: Database references
  • Version 1.2: 2024-02-28
    Changes: Data collection, Database references, Derived calculations