7N35

Structure of Yersinia aleksiciae Cap15 cyclic dinucleotide receptor, crystal form 2


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.60 Å
  • R-Value Free: 0.313 
  • R-Value Work: 0.297 
  • R-Value Observed: 0.299 

Starting Model: experimental
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This is version 1.4 of the entry. See complete history


Literature

Effector-mediated membrane disruption controls cell death in CBASS antiphage defense.

Duncan-Lowey, B.McNamara-Bordewick, N.K.Tal, N.Sorek, R.Kranzusch, P.J.

(2021) Mol Cell 81: 5039

  • DOI: https://doi.org/10.1016/j.molcel.2021.10.020
  • Primary Citation of Related Structures:  
    7N34, 7N35

  • PubMed Abstract: 

    Cyclic oligonucleotide-based antiphage signaling systems (CBASS) are antiviral defense operons that protect bacteria from phage replication. Here, we discover a widespread class of CBASS transmembrane (TM) effector proteins that respond to antiviral nucleotide signals and limit phage propagation through direct membrane disruption. Crystal structures of the Yersinia TM effector Cap15 reveal a compact 8-stranded β-barrel scaffold that forms a cyclic dinucleotide receptor domain that oligomerizes upon activation. We demonstrate that activated Cap15 relocalizes throughout the cell and specifically induces rupture of the inner membrane. Screening for active effectors, we identify the function of distinct families of CBASS TM effectors and demonstrate that cell death via disruption of inner-membrane integrity is a common mechanism of defense. Our results reveal the function of the most prominent class of effector protein in CBASS immunity and define disruption of the inner membrane as a widespread strategy of abortive infection in bacterial phage defense.


  • Organizational Affiliation

    Department of Microbiology, Harvard Medical School, Boston, MA 02115, USA; Department of Cancer Immunology and Virology, Dana-Farber Cancer Institute, Boston, MA 02115, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Cap15
A, B
131Yersinia aleksiciaeMutation(s): 0 
UniProt
Find proteins for P0DXA4 (Yersinia aleksiciae)
Explore P0DXA4 
Go to UniProtKB:  P0DXA4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0DXA4
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.60 Å
  • R-Value Free: 0.313 
  • R-Value Work: 0.297 
  • R-Value Observed: 0.299 
  • Space Group: P 61
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 50.866α = 90
b = 50.866β = 90
c = 155.018γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
Aimlessdata scaling
PHENIXphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2021-11-17
    Type: Initial release
  • Version 1.1: 2021-12-01
    Changes: Database references
  • Version 1.2: 2021-12-29
    Changes: Database references
  • Version 1.3: 2023-10-18
    Changes: Data collection, Refinement description
  • Version 1.4: 2024-10-23
    Changes: Structure summary