7JXX

Structure of TTBK1 kinase domain in complex with Compound 3


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.56 Å
  • R-Value Free: 0.213 
  • R-Value Work: 0.180 
  • R-Value Observed: 0.181 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history


Literature

Discovery of Potent and Brain-Penetrant Tau Tubulin Kinase 1 (TTBK1) Inhibitors that Lower Tau Phosphorylation In Vivo.

Halkina, T.Henderson, J.L.Lin, E.Y.Himmelbauer, M.K.Jones, J.H.Nevalainen, M.Feng, J.King, K.Rooney, M.Johnson, J.L.Marcotte, D.J.Chodaparambil, J.V.Kumar, P.R.Patterson, T.A.Murugan, P.Schuman, E.Wong, L.Hesson, T.Lamore, S.Bao, C.Calhoun, M.Certo, H.Amaral, B.Dillon, G.M.Gilfillan, R.de Turiso, F.G.

(2021) J Med Chem 64: 6358-6380

  • DOI: https://doi.org/10.1021/acs.jmedchem.1c00382
  • Primary Citation of Related Structures:  
    7JXX, 7JXY

  • PubMed Abstract: 

    Structural analysis of the known NIK inhibitor 3 bound to the kinase domain of TTBK1 led to the design and synthesis of a novel class of azaindazole TTBK1 inhibitors exemplified by 8 (cell IC 50 : 571 nM). Systematic optimization of this series of analogs led to the discovery of 31 , a potent (cell IC 50 : 315 nM) and selective TTBK inhibitor with suitable CNS penetration (rat K p,uu : 0.32) for in vivo proof of pharmacology studies. The ability of 31 to inhibit tau phosphorylation at the disease-relevant Ser 422 epitope was demonstrated in both a mouse hypothermia and a rat developmental model and provided evidence that modulation of this target may be relevant in the treatment of Alzheimer's disease and other tauopathies.


  • Organizational Affiliation

    Department of Medicinal Chemistry, Biogen, 225 Binney Street, Cambridge, Massachusetts 02142, United States.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Tau-tubulin kinase 1332Homo sapiensMutation(s): 0 
Gene Names: TTBK1BDTKKIAA1855
EC: 2.7.11.1
UniProt & NIH Common Fund Data Resources
Find proteins for Q5TCY1 (Homo sapiens)
Explore Q5TCY1 
Go to UniProtKB:  Q5TCY1
PHAROS:  Q5TCY1
GTEx:  ENSG00000146216 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ5TCY1
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.56 Å
  • R-Value Free: 0.213 
  • R-Value Work: 0.180 
  • R-Value Observed: 0.181 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 173.837α = 90
b = 34.337β = 103.498
c = 48.666γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2021-05-19
    Type: Initial release
  • Version 1.1: 2021-05-26
    Changes: Database references
  • Version 1.2: 2023-10-18
    Changes: Data collection, Database references, Refinement description