4IZY

Crystal structure of JNK1 in complex with JIP1 peptide and 4-{4-[4-(4-Methanesulfonyl-piperidin-1-yl)-indol-1-yl]-pyrimidin-2-ylamino}-cyclohexan


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.238 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Development of indole/indazole-aminopyrimidines as inhibitors of c-Jun N-terminal kinase (JNK): optimization for JNK potency and physicochemical properties.

Gong, L.Han, X.Silva, T.Tan, Y.C.Goyal, B.Tivitmahaisoon, P.Trejo, A.Palmer, W.Hogg, H.Jahagir, A.Alam, M.Wagner, P.Stein, K.Filonova, L.Loe, B.Makra, F.Rotstein, D.Rapatova, L.Dunn, J.Zuo, F.Dal Porto, J.Wong, B.Jin, S.Chang, A.Tran, P.Hsieh, G.Niu, L.Shao, A.Reuter, D.Hermann, J.Kuglstatter, A.Goldstein, D.

(2013) Bioorg.Med.Chem.Lett. 23: 3565-3569

  • DOI: 10.1016/j.bmcl.2013.04.029

  • PubMed Abstract: 
  • A novel series of indole/indazole-aminopyrimidines was designed and synthesized with an aim to achieve optimal potency and selectivity for the c-Jun kinase family or JNKs. Structure guided design was used to optimize the series resulting in a signifi ...

    A novel series of indole/indazole-aminopyrimidines was designed and synthesized with an aim to achieve optimal potency and selectivity for the c-Jun kinase family or JNKs. Structure guided design was used to optimize the series resulting in a significant potency improvement. The best compound (17) has IC50 of 3 nM for JNK1 and 20 nM for JNK2, with greater than 40-fold selectivity against other kinases with good physicochemical and pharmacokinetic properties.


    Organizational Affiliation

    Department of Medicinal Chemistry, Roche Palo Alto, Palo Alto, CA 94304, USA. leyi.gong@sri.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
1J2
Query on 1J2

Download SDF File 
Download CCD File 
A
trans-4-[(4-{4-[4-(methylsulfonyl)piperidin-1-yl]-1H-indol-1-yl}pyrimidin-2-yl)amino]cyclohexanol
C24 H31 N5 O3 S
VUQJMYORHRVTLM-IYARVYRRSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
1J2IC50: 3.1 - 17.9 nM (97) BINDINGDB
1J2IC50: 6 nM BINDINGMOAD
1J2IC50: 3 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.238 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 60.426α = 90.00
b = 82.371β = 90.00
c = 82.027γ = 90.00
Software Package:
Software NamePurpose
REFMACrefinement
HKL-2000data scaling
ADSCdata collection
HKL-2000data reduction
REFMACphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-12-18
    Type: Initial release