3RTP

Design and synthesis of brain penetrant selective JNK inhibitors with improved pharmacokinetic properties for the prevention of neurodegeneration


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.309 
  • R-Value Work: 0.235 
  • R-Value Observed: 0.240 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Design and synthesis of brain penetrant selective JNK inhibitors with improved pharmacokinetic properties for the prevention of neurodegeneration.

Bowers, S.Truong, A.P.Jeffrey Neitz, R.Hom, R.K.Sealy, J.M.Probst, G.D.Quincy, D.Peterson, B.Chan, W.Galemmo, R.A.Konradi, A.W.Sham, H.L.Toth, G.Pan, H.Lin, M.Yao, N.Artis, D.R.Zhang, H.Chen, L.Dryer, M.Samant, B.Zmolek, W.Wong, K.Lorentzen, C.Goldbach, E.Tonn, G.Quinn, K.P.Sauer, J.M.Wright, S.Powell, K.Ruslim, L.Ren, Z.Bard, F.Yednock, T.A.Griswold-Prenner, I.

(2011) Bioorg Med Chem Lett 21: 5521-5527

  • DOI: https://doi.org/10.1016/j.bmcl.2011.06.100
  • Primary Citation of Related Structures:  
    3RTP

  • PubMed Abstract: 

    The SAR of a series of brain penetrant, trisubstituted thiophene based JNK inhibitors with improved pharmacokinetic properties is described. These compounds were designed based on information derived from metabolite identification studies which led to compounds such as 42 with lower clearance, greater brain exposure and longer half life compared to earlier analogs.


  • Organizational Affiliation

    Department of Chemical Sciences, Elan Pharmaceuticals, 180 Oyster Point Boulevard, South San Francisco, CA 94080, United States. simeon.bowers@elan.com


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Mitogen-activated protein kinase 10363Homo sapiensMutation(s): 0 
Gene Names: MAPK10JNK3JNK3APRKM10
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
GTEx:  ENSG00000109339 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP53779
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
34I
Query on 34I

Download Ideal Coordinates CCD File 
B [auth A]N-[4-cyano-3-(1H-1,2,4-triazol-5-yl)thiophen-2-yl]-2-(2-oxo-3,4-dihydroquinolin-1(2H)-yl)acetamide
C18 H14 N6 O2 S
WNRCGOJLZOLSJN-UHFFFAOYSA-N
Binding Affinity Annotations 
IDSourceBinding Affinity
34I Binding MOAD:  3RTP IC50: 7 (nM) from 1 assay(s)
BindingDB:  3RTP IC50: min: 100, max: 100 (nM) from 3 assay(s)
PDBBind:  3RTP IC50: 7 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.309 
  • R-Value Work: 0.235 
  • R-Value Observed: 0.240 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 50.297α = 90
b = 71.701β = 90
c = 108.302γ = 90
Software Package:
Software NamePurpose
CrystalCleardata collection
AMoREphasing
REFMACrefinement
d*TREKdata reduction
d*TREKdata scaling

Structure Validation

View Full Validation Report



Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2013-05-08
    Type: Initial release
  • Version 1.1: 2024-02-28
    Changes: Data collection, Database references, Derived calculations