9SOI | pdb_00009soi

CTLH-CRA domains of Maea-Twa1 mutant (A125G, Q126R, T127del, Q128E, A130Q, M143L, E144Q, L147F, A148S, F152Y and F160V) complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.31 Å
  • R-Value Free: 
    0.263 (Depositor), 0.262 (DCC) 
  • R-Value Work: 
    0.229 (Depositor), 0.228 (DCC) 
  • R-Value Observed: 
    0.231 (Depositor) 

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

Validation slider image for 9SOI

This is version 1.1 of the entry. See complete history

Literature

A structural code for assembly specificity in GID/CTLH-type E3 ligases.

van gen Hassend, P.M.Schindelin, H.

(2026) Elife 15

  • DOI: https://doi.org/10.7554/eLife.110152
  • Primary Citation Related Structures: 
    9SNE, 9SNF, 9SNG, 9SNH, 9SNI, 9SNV, 9SOC, 9SOH, 9SOI

  • PubMed Abstract: 

    GID/CTLH-type E3 ligases assemble into conserved ring-shaped architectures built from repeating LisH-CTLH-CRA modules, yet the molecular rules that enforce their highly specific subunit arrangement have remained unknown. Here, we decode the structural 'assembly specificity code' that governs CRA-CRA pairing. Using crystal structures of multiple CTLH-CRA domains, including the RanBP9-muskelin heterodimer, integrated with quantitative binding analyses, we show that several interfaces operate with exceptionally high affinity, reaching the picomolar range, and that conserved sequence and geometric features enable each subunit to only select cognate partners. Strikingly, targeted perturbations of these features are sufficient to reprogram pairing preferences, enabling engineered subunits such as RanBP10 or Twa1 to adopt non-native interaction partners. These findings reveal the molecular logic that preserves the architecture of GID/CTLH-type E3 ligases and demonstrate that their assembly code is both decipherable and engineerable, providing a conceptual foundation for reconfiguring these ring-shaped E3 ligases.


  • Organizational Affiliation
    • Institute of Structural Biology, Rudolf Virchow Center for Integrative and Translational Bioimaging, Julius-Maximilians-Universität Würzburg, Würzburg, Germany.

Macromolecule Content 

  • Total Structure Weight: 61.6 kDa 
  • Atom Count: 4,253 
  • Modeled Residue Count: 509 
  • Deposited Residue Count: 518 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Glucose-induced degradation protein 8 homolog
A, C
133Mus musculusMutation(s): 10 
Gene Names: Gid8
UniProt & NIH Common Fund Data Resources
Find proteins for Q9D7M1 (Mus musculus)
Explore Q9D7M1 
Go to UniProtKB:  Q9D7M1
IMPC:  MGI:1923675
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9D7M1
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
E3 ubiquitin-protein transferase MAEA
B, D
126Mus musculusMutation(s): 0 
Gene Names: MaeaEmp
EC: 2.3.2.27
UniProt & NIH Common Fund Data Resources
Find proteins for Q4VC33 (Mus musculus)
Explore Q4VC33 
Go to UniProtKB:  Q4VC33
IMPC:  MGI:1891748
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ4VC33
Sequence Annotations
Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.31 Å
  • R-Value Free:  0.263 (Depositor), 0.262 (DCC) 
  • R-Value Work:  0.229 (Depositor), 0.228 (DCC) 
  • R-Value Observed: 0.231 (Depositor) 
Space Group: P 32 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 142.346α = 90
b = 142.346β = 90
c = 213.234γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
STARANISOdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
German Research Foundation (DFG)GermanyGRK2243

Revision History  (Full details and data files)

  • Version 1.0: 2026-02-18
    Type: Initial release
  • Version 1.1: 2026-09-02
    Changes: Database references