2EVA | pdb_00002eva

Structural Basis for the Interaction of TAK1 Kinase with its Activating Protein TAB1

• PDB DOI: https://doi.org/10.2210/pdb2EVA/pdb

• Classification: TRANSFERASE/TRANSFERASE ACTIVATOR
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2005-10-31 Released: 2006-05-02 
• Deposition Author(s): Brown, K., Vial, S.C., Dedi, N., Long, J.M., Dunster, N.J., Cheetham, G.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.231 (Depositor) 
• R-Value Work: 
  0.212 (Depositor) 
• R-Value Observed: 
  0.219 (Depositor) 

Literature

Structural basis for the interaction of TAK1 kinase with its activating protein TAB1

Brown, K., Vial, S.C., Dedi, N., Long, J.M., Dunster, N.J., Cheetham, G.M.

(2005) J Mol Biology 354: 1013-1020

• PubMed: 16289117 
• DOI: https://doi.org/10.1016/j.jmb.2005.09.098
• Primary Citation Related Structures: 
  2EVA


• PubMed Abstract: 
  

  Transforming growth factor-beta (TGF-beta)-activated kinase 1 (TAK1) is a member of the MAPKKK family of protein kinases, and is involved in intracellular signalling pathways stimulated by transforming growth factor beta, interleukin-1 and tumour necrosis factor-alpha. TAK1 is known to rely upon an additional protein, TAK1-binding protein 1 (TAB1), for complete activation. However, the molecular basis for this activation has yet to be elucidated. We have solved the crystal structure of a novel TAK1 chimeric protein and these data give insight into how TAK1 is activated by TAB1. Our results reveal a novel binding pocket on the TAK1 kinase domain whose shape complements that of a unique alpha-helix in the TAK1 binding domain of TAB1, providing the basis for an intimate hydrophobic association between the protein activator and its target.

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Organizational Affiliation: 
• Vertex Pharmaceuticals (Europe) Ltd, 88 Milton Park, Abingdon, Oxfordshire OX14 4RY, UK.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 35.05 kDa 
• Atom Count: 2,597 
• Modeled Residue Count: 295 
• Deposited Residue Count: 307 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TAK1 kinase - TAB1 chimera fusion protein	A	307	Homo sapiens	Mutation(s): 0  Gene Names: MAP3K7, TAK1/MAP3K7IP1, TAB1 EC: 2.7.1.37 (PDB Primary Data), 2.7.11.25 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for O43318 (Homo sapiens) Explore O43318  Go to UniProtKB:  O43318
PHAROS:  O43318 GTEx:  ENSG00000135341

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ADN	B [auth A]	ADENOSINE C10 H13 N5 O4 OIRDTQYFTABQOQ-KQYNXXCUSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.231 (Depositor) 
• R-Value Work:  0.212 (Depositor) 
• R-Value Observed: 0.219 (Depositor) 

Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 58.4	α = 90
b = 144.3	β = 90
c = 134.7	γ = 90

Software Package:

Software Name	Purpose
PROCOR	data scaling
SCALA	data scaling
AMoRE	phasing
CNS	refinement
PROCOR	data reduction
CCP4	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-05-02 
Deposition Author(s): Brown, K., Vial, S.C., Dedi, N., Long, J.M., Dunster, N.J., Cheetham, G.M.

Revision History  

• Version 1.0: 2006-05-02
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-08-02
  Changes: Refinement description, Source and taxonomy
• Version 1.4: 2017-10-18
  Changes: Refinement description
• Version 1.5: 2024-02-14
  Changes: Data collection, Database references, Derived calculations