Crystal structure of the CHS-B30.2 domains of TRIM20

Experimental Data Snapshot

  • Resolution: 2.40 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.211 
  • R-Value Observed: 0.214 

Starting Model: experimental
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Crystal Structure of Trim20 C-Terminal Coiled-Coil/B30.2 Fragment: Implications for the Recognition of Higher Order Oligomers

Weinert, C.Morger, D.Djekic, A.Mittl, P.R.E.Gruetter, M.G.

(2015) Sci Rep 5: 10819

  • DOI: https://doi.org/10.1038/srep10819
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    Many tripartite motif-containing (TRIM) proteins, comprising RING-finger, B-Box, and coiled-coil domains, carry additional B30.2 domains on the C-terminus of the TRIM motif and are considered to be pattern recognition receptors involved in the detection of higher order oligomers (e.g. viral capsid proteins). To investigate the spatial architecture of domains in TRIM proteins we determined the crystal structure of the TRIM20Δ413 fragment at 2.4 Å resolution. This structure comprises the central helical scaffold (CHS) and C-terminal B30.2 domains and reveals an anti-parallel arrangement of CHS domains placing the B-box domains 170 Å apart from each other. Small-angle X-ray scattering confirmed that the linker between CHS and B30.2 domains is flexible in solution. The crystal structure suggests an interaction between the B30.2 domain and an extended stretch in the CHS domain, which involves residues that are mutated in the inherited disease Familial Mediterranean Fever. Dimerization of B30.2 domains by means of the CHS domain is crucial for TRIM20 to bind pro-IL-1β in vitro. To exemplify how TRIM proteins could be involved in binding higher order oligomers we discuss three possible models for the TRIM5α/HIV-1 capsid interaction assuming different conformations of B30.2 domains.

  • Organizational Affiliation

    Department of Biochemistry, University Zürich, Winterthurerstrasse 190, 8057 Zürich, Switzerland.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
A, B, C, D, E
A, B, C, D, E, F
377Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for O15553 (Homo sapiens)
Explore O15553 
Go to UniProtKB:  O15553
GTEx:  ENSG00000103313 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO15553
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on SO4

Download Ideal Coordinates CCD File 
G [auth B]
H [auth B]
L [auth C]
N [auth D]
Q [auth E]
G [auth B],
H [auth B],
L [auth C],
N [auth D],
Q [auth E],
R [auth E],
S [auth E],
U [auth F]
O4 S
Query on DHL

Download Ideal Coordinates CCD File 
J [auth C],
K [auth C],
M [auth D],
P [auth E],
T [auth F]
C2 H7 N S
Query on EDO

Download Ideal Coordinates CCD File 
I [auth B],
O [auth D]
C2 H6 O2
Experimental Data & Validation

Experimental Data

  • Resolution: 2.40 Å
  • R-Value Free: 0.261 
  • R-Value Work: 0.211 
  • R-Value Observed: 0.214 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 69.82α = 90
b = 388.21β = 116.52
c = 70.88γ = 90
Software Package:
Software NamePurpose
XDSdata reduction
XSCALEdata scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2015-04-29
    Type: Initial release
  • Version 1.1: 2015-05-20
    Changes: Database references
  • Version 1.2: 2015-06-17
    Changes: Database references
  • Version 2.0: 2019-10-23
    Changes: Atomic model, Data collection, Derived calculations, Other
  • Version 2.1: 2023-12-20
    Changes: Data collection, Database references, Derived calculations, Refinement description