4IWP

Crystal structure and mechanism of activation of TBK1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.065 Å
  • R-Value Free: 0.335 
  • R-Value Work: 0.280 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Crystal structure and mechanism of activation of TANK-binding kinase 1.

Larabi, A.Devos, J.M.Ng, S.L.Nanao, M.H.Round, A.Maniatis, T.Panne, D.

(2013) Cell Rep 3: 734-746

  • DOI: 10.1016/j.celrep.2013.01.034
  • Primary Citation of Related Structures:  4IW0, 4IWO, 4IWQ

  • PubMed Abstract: 
  • Tank-binding kinase I (TBK1) plays a key role in the innate immune system by integrating signals from pattern-recognition receptors. Here, we report the X-ray crystal structures of inhibitor-bound inactive and active TBK1 determined to 2.6 Å and 4.0 ...

    Tank-binding kinase I (TBK1) plays a key role in the innate immune system by integrating signals from pattern-recognition receptors. Here, we report the X-ray crystal structures of inhibitor-bound inactive and active TBK1 determined to 2.6 Å and 4.0 Å resolution, respectively. The structures reveal a compact dimer made up of trimodular subunits containing an N-terminal kinase domain (KD), a ubiquitin-like domain (ULD), and an α-helical scaffold dimerization domain (SDD). Activation rearranges the KD into an active conformation while maintaining the overall dimer conformation. Low-resolution SAXS studies reveal that the missing C-terminal domain (CTD) extends away from the main body of the kinase dimer. Mutants that interfere with TBK1 dimerization show significantly reduced trans-autophosphorylation but retain the ability to bind adaptor proteins through the CTD. Our results provide detailed insights into the architecture of TBK1 and the molecular mechanism of activation.


    Organizational Affiliation

    EMBL Grenoble, 6 Rue Jules Horowitz, Grenoble 38042, France.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Serine/threonine-protein kinase TBK1
A
659Homo sapiensGene Names: TBK1 (NAK)
EC: 2.7.11.1
Find proteins for Q9UHD2 (Homo sapiens)
Go to Gene View: TBK1
Go to UniProtKB:  Q9UHD2
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
BX7
Query on BX7

Download SDF File 
Download CCD File 
A
N-(3-{[5-iodo-4-({3-[(thiophen-2-ylcarbonyl)amino]propyl}amino)pyrimidin-2-yl]amino}phenyl)pyrrolidine-1-carboxamide
C23 H26 I N7 O2 S
VAVXGGRQQJZYBL-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.065 Å
  • R-Value Free: 0.335 
  • R-Value Work: 0.280 
  • Space Group: P 32 2 1
Unit Cell:
Length (Å)Angle (°)
a = 135.410α = 90.00
b = 135.410β = 90.00
c = 86.360γ = 120.00
Software Package:
Software NamePurpose
XDSdata reduction
PHASERphasing
PDB_EXTRACTdata extraction
ADSCdata collection
PHENIXrefinement
XDSdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2013-01-24 
  • Released Date: 2013-03-13 
  • Deposition Author(s): Panne, D., Larabi, A.

Revision History 

  • Version 1.0: 2013-03-13
    Type: Initial release
  • Version 1.1: 2013-05-22
    Type: Database references