3OXI

Design and Synthesis of Disubstituted Thiophene and Thiazole Based Inhibitors of JNK for the Treatment of Neurodegenerative Diseases


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.275 
  • R-Value Work: 0.229 
  • R-Value Observed: 0.232 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

Design and synthesis of disubstituted thiophene and thiazole based inhibitors of JNK.

Hom, R.K.Bowers, S.Sealy, J.M.Truong, A.P.Probst, G.D.Neitzel, M.L.Neitz, R.J.Fang, L.Brogley, L.Wu, J.Konradi, A.W.Sham, H.L.Toth, G.Pan, H.Yao, N.Artis, D.R.Quinn, K.Sauer, J.M.Powell, K.Ren, Z.Bard, F.Yednock, T.A.Griswold-Prenner, I.

(2010) Bioorg Med Chem Lett 20: 7303-7307

  • DOI: 10.1016/j.bmcl.2010.10.066
  • Primary Citation of Related Structures:  
    3OXI

  • PubMed Abstract: 
  • From high throughput screening, we discovered compound 1, the prototype for a series of disubstituted thiophene inhibitors of JNK which is selective towards closely related MAP kinases p38 and Erk2. Herein we describe the evolution of these compounds to a novel class of thiophene and thiazole JNK inhibitors that retain favorable solubility, permeability, and P-gp properties for development as CNS agents for treatment of neurodegeneration ...

    From high throughput screening, we discovered compound 1, the prototype for a series of disubstituted thiophene inhibitors of JNK which is selective towards closely related MAP kinases p38 and Erk2. Herein we describe the evolution of these compounds to a novel class of thiophene and thiazole JNK inhibitors that retain favorable solubility, permeability, and P-gp properties for development as CNS agents for treatment of neurodegeneration. Compound 61 demonstrated JNK3 IC(50)=77 nM and retained the excellent broad kinase selectivity observed for the series.


    Organizational Affiliation

    Department of Chemical Sciences, Elan Pharmaceuticals, South San Francisco, CA 94080, USA. roy.hom@elan.com



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Mitogen-activated protein kinase 10A362Homo sapiensMutation(s): 0 
Gene Names: JNK3JNK3AMAPK10PRKM10SAPK1B
EC: 2.7.11.24
UniProt & NIH Common Fund Data Resources
Find proteins for P53779 (Homo sapiens)
Explore P53779 
Go to UniProtKB:  P53779
PHAROS:  P53779
Protein Feature View
Expand
  • Reference Sequence
  • Find similar proteins by:  Sequence   |   Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Mitogen-activated protein kinase 8 interacting protein 1B [auth J]10Homo sapiensMutation(s): 0 
Gene Names: MAPK8IP1IB1JIP1PRKM8IP
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UQF2 (Homo sapiens)
Explore Q9UQF2 
Go to UniProtKB:  Q9UQF2
PHAROS:  Q9UQF2
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SYY (Subject of Investigation/LOI)
Query on SYY

Download Ideal Coordinates CCD File 
C [auth A]methyl 3-[(thiophen-2-ylacetyl)amino]thiophene-2-carboxylate
C12 H11 N O3 S2
CXOCENPNQSXLGZ-UHFFFAOYSA-N
 Ligand Interaction
Binding Affinity Annotations 
IDSourceBinding Affinity
SYY BindingDB:  3OXI IC50: min: 1600, max: 2.30e+4 (nM) from 5 assay(s)
Binding MOAD:  3OXI IC50: 2200 (nM) from 1 assay(s)
PDBBind:  3OXI IC50: 2200 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.275 
  • R-Value Work: 0.229 
  • R-Value Observed: 0.232 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 60.02α = 90
b = 78.081β = 90
c = 83.514γ = 90
Software Package:
Software NamePurpose
HKL-2000data collection
AMoREphasing
REFMACrefinement
HKL-2000data reduction
SCALEPACKdata scaling

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment  



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2011-05-04
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance