4WVM

Stonustoxin structure


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.10 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.207 
  • R-Value Observed: 0.209 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Stonefish toxin defines an ancient branch of the perforin-like superfamily.

Ellisdon, A.M.Reboul, C.F.Panjikar, S.Huynh, K.Oellig, C.A.Winter, K.L.Dunstone, M.A.Hodgson, W.C.Seymour, J.Dearden, P.K.Tweten, R.K.Whisstock, J.C.McGowan, S.

(2015) Proc Natl Acad Sci U S A 112: 15360-15365

  • DOI: 10.1073/pnas.1507622112
  • Primary Citation of Related Structures:  
    4WVM

  • PubMed Abstract: 
  • The lethal factor in stonefish venom is stonustoxin (SNTX), a heterodimeric cytolytic protein that induces cardiovascular collapse in humans and native predators. Here, using X-ray crystallography, we make the unexpected finding that SNTX is a pore-forming member of an ancient branch of the Membrane Attack Complex-Perforin/Cholesterol-Dependent Cytolysin (MACPF/CDC) superfamily ...

    The lethal factor in stonefish venom is stonustoxin (SNTX), a heterodimeric cytolytic protein that induces cardiovascular collapse in humans and native predators. Here, using X-ray crystallography, we make the unexpected finding that SNTX is a pore-forming member of an ancient branch of the Membrane Attack Complex-Perforin/Cholesterol-Dependent Cytolysin (MACPF/CDC) superfamily. SNTX comprises two homologous subunits (α and β), each of which comprises an N-terminal pore-forming MACPF/CDC domain, a central focal adhesion-targeting domain, a thioredoxin domain, and a C-terminal tripartite motif family-like PRY SPla and the RYanodine Receptor immune recognition domain. Crucially, the structure reveals that the two MACPF domains are in complex with one another and arranged into a stable early prepore-like assembly. These data provide long sought after near-atomic resolution insights into how MACPF/CDC proteins assemble into prepores on the surface of membranes. Furthermore, our analyses reveal that SNTX-like MACPF/CDCs are distributed throughout eukaryotic life and play a broader, possibly immune-related function outside venom.


    Organizational Affiliation

    Biomedicine Discovery Institute and Department of Microbiology, Monash University, Melbourne, VIC, 3800, Australia; James.Whisstock@monash.edu sheena.mcgowan@monash.edu.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Stonustoxin subunit alphaA703Synanceia horridaMutation(s): 0 
UniProt
Find proteins for Q98989 (Synanceia horrida)
Explore Q98989 
Go to UniProtKB:  Q98989
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Stonustoxin subunit betaB700Synanceia horridaMutation(s): 0 
UniProt
Find proteins for Q91453 (Synanceia horrida)
Explore Q91453 
Go to UniProtKB:  Q91453
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.10 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.207 
  • R-Value Observed: 0.209 
  • Space Group: P 43
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 107.911α = 90
b = 107.911β = 90
c = 244.345γ = 90
Software Package:
Software NamePurpose
BUSTERrefinement
Cootmodel building
XSCALEdata scaling
SHELXDEphasing
XDSdata scaling

Structure Validation

View Full Validation Report




Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2015-12-02
    Type: Initial release
  • Version 1.1: 2015-12-16
    Changes: Database references
  • Version 1.2: 2015-12-30
    Changes: Database references
  • Version 1.3: 2017-11-22
    Changes: Data collection, Database references, Derived calculations, Refinement description