8SL0

Structure of a bacterial gasdermin slinky-like oligomer


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.30 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Structure and assembly of a bacterial gasdermin pore.

Johnson, A.G.Mayer, M.L.Schaefer, S.L.McNamara-Bordewick, N.K.Hummer, G.Kranzusch, P.J.

(2024) Nature 628: 657-663

  • DOI: https://doi.org/10.1038/s41586-024-07216-3
  • Primary Citation of Related Structures:  
    8SL0

  • PubMed Abstract: 

    In response to pathogen infection, gasdermin (GSDM) proteins form membrane pores that induce a host cell death process called pyroptosis 1-3 . Studies of human and mouse GSDM pores have revealed the functions and architectures of assemblies comprising 24 to 33 protomers 4-9 , but the mechanism and evolutionary origin of membrane targeting and GSDM pore formation remain unknown. Here we determine a structure of a bacterial GSDM (bGSDM) pore and define a conserved mechanism of pore assembly. Engineering a panel of bGSDMs for site-specific proteolytic activation, we demonstrate that diverse bGSDMs form distinct pore sizes that range from smaller mammalian-like assemblies to exceptionally large pores containing more than 50 protomers. We determine a cryo-electron microscopy structure of a Vitiosangium bGSDM in an active 'slinky'-like oligomeric conformation and analyse bGSDM pores in a native lipid environment to create an atomic-level model of a full 52-mer bGSDM pore. Combining our structural analysis with molecular dynamics simulations and cellular assays, our results support a stepwise model of GSDM pore assembly and suggest that a covalently bound palmitoyl can leave a hydrophobic sheath and insert into the membrane before formation of the membrane-spanning β-strand regions. These results reveal the diversity of GSDM pores found in nature and explain the function of an ancient post-translational modification in enabling programmed host cell death.


  • Organizational Affiliation

    Department of Microbiology, Harvard Medical School, Boston, MA, USA. algejohnson@gmail.com.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Gasdermin bGSDM237Vitiosangium sp. GDMCC 1.1324Mutation(s): 0 
Gene Names: DAT35_31115Ga0334635_1658
UniProt
Find proteins for A0A2T4VDM4 (Vitiosangium sp. (strain GDMCC 1.1324))
Explore A0A2T4VDM4 
Go to UniProtKB:  A0A2T4VDM4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A2T4VDM4
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.30 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United States1DP2GM146250-01

Revision History  (Full details and data files)

  • Version 1.0: 2023-05-17
    Type: Initial release
  • Version 1.1: 2023-05-24
    Changes: Database references
  • Version 1.2: 2024-04-03
    Changes: Data collection, Database references
  • Version 1.3: 2024-05-01
    Changes: Database references