5VNZ image
Entry Detail
PDB ID:
5VNZ
Keywords:
Title:
Structure of a TRAF6-Ubc13~Ub complex
Biological Source:
Source Organism:
Host Organism:
PDB Version:
Deposition Date:
2017-05-01
Release Date:
2017-12-06
Method Details:
Experimental Method:
Resolution:
3.41 Å
R-Value Free:
0.29
R-Value Work:
0.23
R-Value Observed:
0.23
Space Group:
C 2 2 21
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:TNF receptor-associated factor 6
Chain IDs:A, D
Chain Length:118
Number of Molecules:2
Biological Source:Danio rerio
Polymer Type:polypeptide(L)
Description:Ubiquitin-conjugating enzyme E2 N
Chain IDs:B, E
Chain Length:157
Number of Molecules:2
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:Ubiquitin
Chain IDs:C, F
Chain Length:76
Number of Molecules:2
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation
The activity of TRAF RING homo- and heterodimers is regulated by zinc finger 1.
Nat Commun 8 1788 1788 (2017)
PMID: 29176576 DOI: 10.1038/s41467-017-01665-3

Abstact

Ubiquitin chains linked through lysine63 (K63) play a critical role in inflammatory signalling. Following ligand engagement of immune receptors, the RING E3 ligase TRAF6 builds K63-linked chains together with the heterodimeric E2 enzyme Ubc13-Uev1A. Dimerisation of the TRAF6 RING domain is essential for the assembly of K63-linked ubiquitin chains. Here, we show that TRAF6 RING dimers form a catalytic complex where one RING interacts with a Ubc13~Ubiquitin conjugate, while the zinc finger 1 (ZF1) domain and linker-helix of the opposing monomer contact ubiquitin. The RING dimer interface is conserved across TRAFs and we also show that TRAF5-TRAF6 heterodimers form. Importantly, TRAF5 can provide ZF1, enabling ubiquitin transfer from a TRAF6-bound Ubc13 conjugate. Our study explains the dependence of activity on TRAF RING dimers, and suggests that both homo- and heterodimers mediated by TRAF RING domains have the capacity to synthesise ubiquitin chains.

Legend

Protein

Chemical

Disease

Primary Citation of related structures