6Q16

Focussed refinement of InvGN0N1:PrgHK:SpaPQR:PrgIJ from Salmonella SPI-1 injectisome NC-base


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

T3S injectisome needle complex structures in four distinct states reveal the basis of membrane coupling and assembly.

Hu, J.Worrall, L.J.Vuckovic, M.Hong, C.Deng, W.Atkinson, C.E.Brett Finlay, B.Yu, Z.Strynadka, N.C.J.

(2019) Nat Microbiol 4: 2010-2019

  • DOI: https://doi.org/10.1038/s41564-019-0545-z
  • Primary Citation of Related Structures:  
    6PEE, 6PEM, 6PEP, 6Q14, 6Q15, 6Q16

  • PubMed Abstract: 

    The bacterial injectisome is a syringe-shaped macromolecular nanomachine utilized by many pathogenic Gram-negative bacteria, including the causative agents of plague, typhoid fever, whooping cough, sexually transmitted infections and major nosocomial infections. Bacterial proteins destined for self-assembly and host-cell targeting are translocated by the injectisome in a process known as type III secretion (T3S). The core structure is the ~4 MDa needle complex (NC), built on a foundation of three highly oligomerized ring-forming proteins that create a hollow scaffold spanning the bacterial inner membrane (IM) (24-mer ring-forming proteins PrgH and PrgK in the Salmonella enterica serovar Typhimurium Salmonella pathogenicity island 1 (SPI-1) type III secretion system (T3SS)) and outer membrane (OM) (15-mer InvG, a member of the broadly conserved secretin pore family). An internalized helical needle projects from the NC and bacterium, ultimately forming a continuous passage to the host, for delivery of virulence effectors. Here, we have captured snapshots of the entire prototypical SPI-1 NC in four distinct needle assembly states, including near-atomic resolution, and local reconstructions in the absence and presence of the needle. These structures reveal the precise localization and molecular interactions of the internalized SpaPQR 'export apparatus' complex, which is intimately encapsulated and stabilized within the IM rings in the manner of a nanodisc, and to which the PrgJ rod directly binds and functions as an initiator and anchor of needle polymerization. We also describe the molecular details of the extensive and continuous coupling interface between the OM secretin and IM rings, which is remarkably facilitated by a localized 16-mer stoichiometry in the periplasmic-most coupling domain of the otherwise 15-mer InvG oligomer.


  • Organizational Affiliation

    Department of Biochemistry and Molecular Biology, University of British Columbia, Vancouver, British Columbia, Canada.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Lipoprotein PrgK252Salmonella enterica subsp. enterica serovar Typhimurium str. LT2Mutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for P41786 (Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720))
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UniProt GroupP41786
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Protein InvG562Salmonella enterica subsp. enterica serovar Typhimurium str. LT2Mutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for P35672 (Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720))
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Protein PrgH392Salmonella enterica subsp. enterica serovar Typhimurium str. LT2Mutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for P41783 (Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720))
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Surface presentation of antigens protein SpaPMB [auth 0],
NB [auth 1],
OB [auth 2],
PB [auth 3],
QB [auth 4]
224Salmonella enterica subsp. enterica serovar Typhimurium str. LT2Mutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for P40700 (Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720))
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Surface presentation of antigens protein SpaRRB [auth 5]263Salmonella enterica subsp. enterica serovar Typhimurium str. LT2Mutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for P40701 (Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720))
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Surface presentation of antigens protein SpaQSB [auth 6],
TB [auth 7],
UB [auth 8],
VB [auth 9]
86Salmonella enterica subsp. enterica serovar Typhimurium str. LT2Mutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for P0A1L7 (Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720))
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
Protein PrgJ101Salmonella enterica subsp. enterica serovar Typhimurium str. LT2Mutation(s): 0 
UniProt
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
Protein PrgI80Salmonella enterica subsp. enterica serovar Typhimurium str. LT2Mutation(s): 0 
UniProt
Find proteins for P41784 (Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720))
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Canadian Institutes of Health Research (CIHR)Canada--

Revision History  (Full details and data files)

  • Version 1.0: 2019-10-23
    Type: Initial release
  • Version 1.1: 2019-11-06
    Changes: Data collection, Database references
  • Version 1.2: 2020-01-15
    Changes: Author supporting evidence