Structure of the human UBR5 Dimer.

Experimental Data Snapshot

  • Resolution: 3.00 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

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This is version 1.4 of the entry. See complete history


Cryo-EM structure of the chain-elongating E3 ubiquitin ligase UBR5.

Hodakova, Z.Grishkovskaya, I.Brunner, H.L.Bolhuis, D.L.Belacic, K.Schleiffer, A.Kotisch, H.Brown, N.G.Haselbach, D.

(2023) EMBO J 42: e113348-e113348

  • DOI: https://doi.org/10.15252/embj.2022113348
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    UBR5 is a nuclear E3 ligase that ubiquitinates a vast range of substrates for proteasomal degradation. This HECT domain-containing ubiquitin ligase has recently been identified as an important regulator of oncogenes, e.g., MYC, but little is known about its structure or mechanisms of substrate engagement and ubiquitination. Here, we present the cryo-EM structure of human UBR5, revealing an α-solenoid scaffold with numerous protein-protein interacting motifs, assembled into an antiparallel dimer that adopts further oligomeric states. Using cryo-EM processing tools, we observe the dynamic nature of the UBR5 catalytic domain, which we postulate is important for its enzymatic activity. We characterise the proteasomal nuclear import factor AKIRIN2 as an interacting protein and propose UBR5 as an efficient ubiquitin chain elongator. This preference for ubiquitinated substrates and several distinct domains for protein-protein interactions may explain how UBR5 is linked to several different signalling pathways and cancers. Together, our data expand on the limited knowledge of the structure and function of HECT E3 ligases.

  • Organizational Affiliation

    Research Institute of Molecular Pathology (IMP), ViennaBioCenter (VBC), Vienna, Austria.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
E3 ubiquitin-protein ligase UBR5A [auth B],
B [auth A]
2,830Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for O95071 (Homo sapiens)
Explore O95071 
Go to UniProtKB:  O95071
PHAROS:  O95071
GTEx:  ENSG00000104517 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO95071
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 3.00 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
H2020 Marie Curie Actions of the European CommissionEuropean Union847548

Revision History  (Full details and data files)

  • Version 1.0: 2023-07-12
    Type: Initial release
  • Version 1.1: 2023-07-19
    Changes: Database references
  • Version 1.2: 2023-08-23
    Changes: Data collection, Database references
  • Version 1.3: 2023-08-30
    Changes: Database references
  • Version 1.4: 2023-09-06
    Changes: Structure summary