TRAF4_GPIb complex

Experimental Data Snapshot

  • Resolution: 2.51 Å
  • R-Value Free: 0.265 
  • R-Value Work: 0.211 
  • R-Value Observed: 0.214 

wwPDB Validation   3D Report Full Report

This is version 1.2 of the entry. See complete history


Molecular basis for unique specificity of human TRAF4 for platelets GPIb beta and GPVI

Kim, C.M.Son, Y.J.Kim, S.Kim, S.Y.Park, H.H.

(2017) Proc Natl Acad Sci U S A 114: 11422-11427

  • DOI: https://doi.org/10.1073/pnas.1708688114
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    Tumor necrosis factor (TNF)-receptor associated factor 4 (TRAF4), an adaptor protein with E3-ligase activity, is involved in embryogenesis, cancer initiation and progression, and platelet receptor (GPIb-IX-V complex and GPVI)-mediated signaling for reactive oxygen species (ROS) production that initiates thrombosis at arterial shears. Disruption of platelet receptors and the TRAF4 interaction is a potential target for therapeutic intervention by antithrombotic drugs. Here, we report a crystal structure of TRAF4 (amino acid residues 290∼470) in complex with a peptide from the GPIbβ receptor (amino acid residues 177∼181). The GPIbβ peptide binds to a unique shallow surface composed of two hydrophobic pockets on TRAF4. Further studies revealed the TRAF4-binding motif Arg-Leu-X-Ala. The TRAF4-binding motif was present not only in platelet receptors but also in the TGF-β receptor. The current structure will provide a template for furthering our understanding of the receptor-binding specificity of TRAF4, TRAF4-mediated signaling, and related diseases.

  • Organizational Affiliation

    School of Natural Science, Department of Chemistry and Biochemistry, Yeungnam University, Gyeongsan 712-749, South Korea.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
TNF receptor-associated factor 4
A, B, C, D, E
A, B, C, D, E, F
181Homo sapiensMutation(s): 0 
Gene Names: TRAF4CART1MLN62RNF83
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BUZ4 (Homo sapiens)
Explore Q9BUZ4 
Go to UniProtKB:  Q9BUZ4
GTEx:  ENSG00000076604 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9BUZ4
Sequence Annotations
  • Reference Sequence

Find similar proteins by:  Sequence   |   3D Structure  

Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
GPIb peptideG,
H [auth I],
I [auth K]
5Homo sapiensMutation(s): 0 
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.51 Å
  • R-Value Free: 0.265 
  • R-Value Work: 0.211 
  • R-Value Observed: 0.214 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 56.716α = 90
b = 88.594β = 93.62
c = 120.757γ = 90
Software Package:
Software NamePurpose
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2017-10-11
    Type: Initial release
  • Version 1.1: 2017-11-15
    Changes: Database references
  • Version 1.2: 2024-03-27
    Changes: Data collection, Database references