6RST

TBK1 in complex with inhibitor compound 24


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.29 Å
  • R-Value Free: 0.303 
  • R-Value Work: 0.246 
  • R-Value Observed: 0.249 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Discovery of BAY-985, a Highly Selective TBK1/IKK epsilon Inhibitor.

Lefranc, J.Schulze, V.K.Hillig, R.C.Briem, H.Prinz, F.Mengel, A.Heinrich, T.Balint, J.Rengachari, S.Irlbacher, H.Stockigt, D.Bomer, U.Bader, B.Gradl, S.N.Nising, C.F.von Nussbaum, F.Mumberg, D.Panne, D.Wengner, A.M.

(2020) J Med Chem 63: 601-612

  • DOI: 10.1021/acs.jmedchem.9b01460
  • Primary Citation of Related Structures:  
    6RSR, 6RST, 6RSU

  • PubMed Abstract: 
  • The serine/threonine kinase TBK1 (TANK-binding kinase 1) and its homologue IKKε are noncanonical members of the inhibitor of the nuclear factor κB (IκB) kinase family. These kinases play important roles in multiple cellular pathways and, in particular, i ...

    The serine/threonine kinase TBK1 (TANK-binding kinase 1) and its homologue IKKε are noncanonical members of the inhibitor of the nuclear factor κB (IκB) kinase family. These kinases play important roles in multiple cellular pathways and, in particular, in inflammation. Herein, we describe our investigations on a family of benzimidazoles and the identification of the potent and highly selective TBK1/IKKε inhibitor BAY-985. BAY-985 inhibits the cellular phosphorylation of interferon regulatory factor 3 and displays antiproliferative efficacy in the melanoma cell line SK-MEL-2 but showed only weak antitumor activity in the SK-MEL-2 human melanoma xenograft model.


    Organizational Affiliation

    Pharmaceuticals, Research and Development , Bayer AG , 13353 Berlin , Germany.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Serine/threonine-protein kinase TBK1 A663Homo sapiensMutation(s): 0 
Gene Names: TBK1NAK
EC: 2.7.11.1
Find proteins for Q9UHD2 (Homo sapiens)
Explore Q9UHD2 
Go to UniProtKB:  Q9UHD2
NIH Common Fund Data Resources
PHAROS:  Q9UHD2
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
KHQ
Query on KHQ

Download Ideal Coordinates CCD File 
A
1-[4-[(1~{R})-1-[2-[[5-[1-(cyclopropylmethyl)pyrazol-4-yl]-1~{H}-benzimidazol-2-yl]amino]pyridin-4-yl]ethyl]piperazin-1-yl]-3,3,3-tris(fluoranyl)propan-1-one
C28 H31 F3 N8 O
WEFRCKPVMWDRAK-GOSISDBHSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.29 Å
  • R-Value Free: 0.303 
  • R-Value Work: 0.246 
  • R-Value Observed: 0.249 
  • Space Group: P 32 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 136.354α = 90
b = 136.354β = 90
c = 87.195γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XDSdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2020-01-01
    Type: Initial release
  • Version 1.1: 2020-01-22
    Changes: Database references
  • Version 1.2: 2020-02-05
    Changes: Database references
  • Version 1.3: 2020-03-04
    Changes: Derived calculations