9G0L | pdb_00009g0l

Crystal structure of the RING-ZnF1 fragment of SIAH1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free: 
    0.237 (Depositor), 0.229 (DCC) 
  • R-Value Work: 
    0.202 (Depositor), 0.194 (DCC) 
  • R-Value Observed: 
    0.204 (Depositor) 

Starting Model: in silico
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wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

RING dimerisation drives higher-order organisation of SINA/SIAH E3 ubiquitin ligases.

Coste, F.Mishra, A.Chapuis, C.Mance, L.Pukalo, Z.Bigot, N.Goffinont, S.Gaudon, V.Garnier, N.Talhaoui, I.Castaing, B.Huet, S.Suskiewicz, M.J.

(2025) FEBS J 292: 2784-2805

  • DOI: https://doi.org/10.1111/febs.70000
  • Primary Citation of Related Structures:  
    9G0L

  • PubMed Abstract: 

    RING-type E3 ubiquitin ligases promote ubiquitylation by stabilising an active complex between a ubiquitin-loaded E2-conjugating enzyme and a protein substrate. To fulfil this function, the E3 ubiquitin-protein ligase SIAH1 and other SINA/SIAH subfamily RING-type E3 ligases employ an N-terminal catalytic RING domain and a C-terminal substrate-binding domain (SBD), separated by two zinc fingers. Here, we present the first crystal structure of the RING domain of human SIAH1, together with an adjacent zinc finger, revealing a potential RING dimer, which was validated in solution using static light scattering. RING dimerisation contributes to the E3 ligase activity of SIAH1 both in vitro and in cells. Moreover, as the RING domain is the second element, after the SBD, to independently favour homodimerisation within SINA/SIAH E3 ligases, we propose that alternating RING:RING and SBD:SBD interactions organise multiple copies of a SINA/SIAH protein into a higher-order homomultimer. In line with this hypothesis, fluorescently tagged full-length human SIAH1, human SIAH2 and fruit fly SINA show cytoplasmic clusters in human cells, whereas their distribution becomes more diffuse when RING dimerisation is disabled. The wild-type (WT) form of SIAH1, but not its RING dimerisation mutant, colocalises with aggregated synphilin-1A under proteasomal inhibition, suggesting that SIAH1 multimerisation might contribute to its reported preference for aggregated or multimeric substrates.


  • Organizational Affiliation
    • Centre de Biophysique Moléculaire (CBM), UPR 4301, CNRS, Orléans, France.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
E3 ubiquitin-protein ligase SIAH1107Homo sapiensMutation(s): 0 
Gene Names: SIAH1HUMSIAH
EC: 2.3.2.27
UniProt & NIH Common Fund Data Resources
Find proteins for Q8IUQ4 (Homo sapiens)
Explore Q8IUQ4 
Go to UniProtKB:  Q8IUQ4
PHAROS:  Q8IUQ4
GTEx:  ENSG00000196470 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8IUQ4
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free:  0.237 (Depositor), 0.229 (DCC) 
  • R-Value Work:  0.202 (Depositor), 0.194 (DCC) 
  • R-Value Observed: 0.204 (Depositor) 
Space Group: P 43 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 69.85α = 90
b = 69.85β = 90
c = 62.713γ = 90
Software Package:
Software NamePurpose
MxCuBEdata collection
XDSdata reduction
autoPROCdata processing
Aimlessdata scaling
PHASERphasing
PHENIXrefinement

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Centre National de la Recherche Scientifique (CNRS)France--

Revision History  (Full details and data files)

  • Version 1.0: 2025-02-19
    Type: Initial release
  • Version 1.1: 2025-06-18
    Changes: Database references