TRAF domain of human TRAF4

Experimental Data Snapshot

  • Resolution: 2.60 Å
  • R-Value Free: 0.277 
  • R-Value Work: 0.200 
  • R-Value Observed: 0.208 

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Structural biology study of human TNF receptor associated factor 4 TRAF domain

Niu, F.Ru, H.Ding, W.Ouyang, S.Liu, Z.J.

(2013) Protein Cell 4: 687-694

  • DOI: https://doi.org/10.1007/s13238-013-3068-z
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    TRAF4 is a unique member of TRAF family, which is essential for innate immune response, nervous system and other systems. In addition to be an adaptor protein, TRAF4 was identified as a regulator protein in recent studies. We have determined the crystal structure of TRAF domain of TRAF4 (residues 292-466) at 2.60 Å resolution by X-ray crystallography method. The trimericly assembled TRAF4 resembles a mushroom shape, containing a super helical "stalk" which is made of three right-handed intertwined α helixes and a C-terminal "cap", which is divided at residue L302 as a boundary. Similar to other TRAFs, both intermolecular hydrophobic interaction in super helical "stalk" and hydrogen bonds in "cap" regions contribute directly to the formation of TRAF4 trimer. However, differing from other TRAFs, there is an additional flexible loop (residues 421-426), which contains a previously identified phosphorylated site S426 exposing on the surface. This S426 was reported to be phosphorylated by IKKα which is the pre-requisite for TRAF4-NOD2 complex formation and thus to inhibit NOD2-induced NF-κB activation. Therefore, the crystal structure of TRAF4-TRAF is valuable for understanding its molecular basis for its special function and provides structural information for further studies.

  • Organizational Affiliation

    National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, 100101, China. ouyangsy@moon.ibp.ac.cn.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
TNF receptor-associated factor 4
A, B, C
183Homo sapiensMutation(s): 0 
Gene Names: TRAF4CART1MLN62RNF83
UniProt & NIH Common Fund Data Resources
Find proteins for Q9BUZ4 (Homo sapiens)
Explore Q9BUZ4 
Go to UniProtKB:  Q9BUZ4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9BUZ4
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.60 Å
  • R-Value Free: 0.277 
  • R-Value Work: 0.200 
  • R-Value Observed: 0.208 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 57.295α = 90
b = 88.205β = 90
c = 118.425γ = 90
Software Package:
Software NamePurpose
HKL-2000data collection
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: 2013-09-11
    Type: Initial release
  • Version 1.1: 2023-11-08
    Changes: Data collection, Database references, Refinement description