4HYS

Crystal structure of JNK1 in complex with JIP1 peptide and 4-(4-Indazol-1-yl-pyrimidin-2-ylamino)-cyclohexan


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.415 Å
  • R-Value Free: 0.295 
  • R-Value Work: 0.247 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Development of amino-pyrimidine inhibitors of c-Jun N-terminal kinase (JNK): kinase profiling guided optimization of a 1,2,3-benzotriazole lead.

Palmer, W.S.Alam, M.Arzeno, H.B.Chang, K.C.Dunn, J.P.Goldstein, D.M.Gong, L.Goyal, B.Hermann, J.C.Hogg, J.H.Hsieh, G.Jahangir, A.Janson, C.Jin, S.Ursula Kammlott, R.Kuglstatter, A.Lukacs, C.Michoud, C.Niu, L.Reuter, D.C.Shao, A.Silva, T.Trejo-Martin, T.A.Stein, K.Tan, Y.C.Tivitmahaisoon, P.Tran, P.Wagner, P.Weller, P.Wu, S.Y.

(2013) Bioorg.Med.Chem.Lett. 23: 1486-1492

  • DOI: 10.1016/j.bmcl.2012.12.047
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • A series of amino-pyrimidines was developed based upon an initial kinase cross-screening hit from a CDK2 program. Kinase profiling and structure-based drug design guided the optimization from the initial 1,2,3-benzotriazole hit to a potent and select ...

    A series of amino-pyrimidines was developed based upon an initial kinase cross-screening hit from a CDK2 program. Kinase profiling and structure-based drug design guided the optimization from the initial 1,2,3-benzotriazole hit to a potent and selective JNK inhibitor, compound 24f (JNK1 and 2 IC(50)=16 and 66 nM, respectively), with bioavailability in rats and suitable for further in vivo pharmacological evaluation.


    Organizational Affiliation

    Roche Palo Alto, 3431 Hillview Ave., Palo Alto, CA 94304, USA. wyliepalmer@msn.com




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Mitogen-activated protein kinase 8
A
369Homo sapiensMutation(s): 0 
Gene Names: MAPK8 (JNK1, PRKM8, SAPK1, SAPK1C)
EC: 2.7.11.24
Find proteins for P45983 (Homo sapiens)
Go to Gene View: MAPK8
Go to UniProtKB:  P45983
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
C-Jun-amino-terminal kinase-interacting protein 1
B
11Homo sapiensMutation(s): 0 
Gene Names: MAPK8IP1 (IB1, JIP1, PRKM8IP)
Find proteins for Q9UQF2 (Homo sapiens)
Go to Gene View: MAPK8IP1
Go to UniProtKB:  Q9UQF2
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
1BJ
Query on 1BJ

Download SDF File 
Download CCD File 
A
trans-4-{[4-(1H-indazol-1-yl)pyrimidin-2-yl]amino}cyclohexanol
C17 H19 N5 O
DPTBYUQHDCZBPL-HDJSIYSDSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
1BJIC50: 55 nM BINDINGMOAD
1BJIC50: 55 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.415 Å
  • R-Value Free: 0.295 
  • R-Value Work: 0.247 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 61.360α = 90.00
b = 81.498β = 90.00
c = 84.471γ = 90.00
Software Package:
Software NamePurpose
MOSFLMdata reduction
REFMACrefinement
SCALAdata scaling
REFMACphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-10-30
    Type: Initial release