4HGT

Crystal structure of ck1d with compound 13


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Work: 0.240 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structure-Based Design of Potent and Selective CK1 gamma Inhibitors.

Huang, H.Acquaviva, L.Berry, V.Bregman, H.Chakka, N.O'Connor, A.DiMauro, E.F.Dovey, J.Epstein, O.Grubinska, B.Goldstein, J.Gunaydin, H.Hua, Z.Huang, X.Huang, L.Human, J.Long, A.Newcomb, J.Patel, V.F.Saffran, D.Serafino, R.Schneider, S.Strathdee, C.Tang, J.Turci, S.White, R.Yu, V.Zhao, H.Wilson, C.Martin, M.W.

(2012) ACS Med Chem Lett 3: 1059-1064

  • DOI: 10.1021/ml300278f
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Aberrant activation of the Wnt pathway is believed to drive the development and growth of some cancers. The central role of CK1γ in Wnt signal transduction makes it an attractive target for the treatment of Wnt-pathway dependent cancers. We describe ...

    Aberrant activation of the Wnt pathway is believed to drive the development and growth of some cancers. The central role of CK1γ in Wnt signal transduction makes it an attractive target for the treatment of Wnt-pathway dependent cancers. We describe a structure-based approach that led to the discovery of a series of pyridyl pyrrolopyridinones as potent and selective CK1γ inhibitors. These compounds exhibited good enzyme and cell potency, as well as selectivity against other CK1 isoforms. A single oral dose of compound 13 resulted in significant inhibition of LRP6 phosphorylation in a mouse tumor PD model.


    Organizational Affiliation

    Departments of Medicinal Chemistry; Pharmacokinetics and Drug Metabolism; Oncology Research; and Molecular Structure, Amgen Inc. , 360 Binney Street, Cambridge, Massachusetts 02142, United States.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Casein kinase I isoform delta
A, B
296Homo sapiensMutation(s): 0 
Gene Names: CSNK1D (HCKID)
EC: 2.7.11.1
Find proteins for P48730 (Homo sapiens)
Go to Gene View: CSNK1D
Go to UniProtKB:  P48730
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
15G
Query on 15G

Download SDF File 
Download CCD File 
A, B
2-{2-[(3,4-difluorophenoxy)methyl]-5-methoxypyridin-4-yl}-1,5,6,7-tetrahydro-4H-pyrrolo[3,2-c]pyridin-4-one
C20 H17 F2 N3 O3
GMIKNOQZLHKCFH-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
15GIC50: 40 nM (100) BINDINGDB
15GIC50: 40 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Work: 0.240 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 49.170α = 90.00
b = 72.970β = 103.63
c = 89.330γ = 90.00
Software Package:
Software NamePurpose
AMoREphasing
SCALEPACKdata scaling
CrystalCleardata collection
CNSrefinement
DENZOdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2012-10-08 
  • Released Date: 2012-11-21 
  • Deposition Author(s): Huang, X.

Revision History 

  • Version 1.0: 2012-11-21
    Type: Initial release
  • Version 1.1: 2014-07-02
    Type: Database references