6X66

Legionella pneumophila dDot T4SS OMC


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 2.0 of the entry. See complete history


Literature

Structural analysis of the Legionella pneumophila Dot/Icm type IV secretion system core complex.

Durie, C.L.Sheedlo, M.J.Chung, J.M.Byrne, B.G.Su, M.Knight, T.Swanson, M.Lacy, D.B.Ohi, M.D.

(2020) Elife 9

  • DOI: https://doi.org/10.7554/eLife.59530
  • Primary Citation of Related Structures:  
    6X62, 6X64, 6X65, 6X66

  • PubMed Abstract: 

    Legionella pneumophila is an opportunistic pathogen that causes the potentially fatal pneumonia Legionnaires' Disease. This infection and subsequent pathology require the Dot/Icm Type IV Secretion System (T4SS) to deliver effector proteins into host cells. Compared to prototypical T4SSs, the Dot/Icm assembly is much larger, containing ~27 different components including a core complex reported to be composed of five proteins: DotC, DotD, DotF, DotG, and DotH. Using single particle cryo-electron microscopy (cryo-EM), we report reconstructions of the core complex of the Dot/Icm T4SS that includes a symmetry mismatch between distinct structural features of the outer membrane cap (OMC) and periplasmic ring (PR). We present models of known core complex proteins, DotC, DotD, and DotH, and two structurally similar proteins within the core complex, DotK and Lpg0657. This analysis reveals the stoichiometry and contact interfaces between the key proteins of the Dot/Icm T4SS core complex and provides a framework for understanding a complex molecular machine.


  • Organizational Affiliation

    Life Sciences Institute, University of Michigan, Ann Arbor, United States.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
DotC303Legionella pneumophilaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for O52184 (Legionella pneumophila)
Explore O52184 
Go to UniProtKB:  O52184
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UniProt GroupO52184
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
DotD163Legionella pneumophilaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for O52183 (Legionella pneumophila)
Explore O52183 
Go to UniProtKB:  O52183
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UniProt GroupO52183
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Type IV secretion protein IcmK361Legionella pneumophilaMutation(s): 0 
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Inner membrane lipoprotein YiaD189Legionella pneumophilaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for O53086 (Legionella pneumophila)
Explore O53086 
Go to UniProtKB:  O53086
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UniProt GroupO53086
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Type IV secretion system unknown protein fragment330Legionella pneumophilaMutation(s): 0 
Sequence Annotations
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Outer membrane protein, OmpA family protein249Legionella pneumophilaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q5ZXS4 (Legionella pneumophila subsp. pneumophila (strain Philadelphia 1 / ATCC 33152 / DSM 7513))
Explore Q5ZXS4 
Go to UniProtKB:  Q5ZXS4
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UniProt GroupQ5ZXS4
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesAI150027-01
National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Disease (NIH/NIDDK)United States2T32DK007673
National Institutes of Health/Office of the DirectorUnited StatesS10OD020011
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesU24 GM129539
Other privateUnited StatesSF349247
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United States5R01AI095755-10
Other governmentUnited States1I01BX004447

Revision History  (Full details and data files)

  • Version 1.0: 2020-10-28
    Type: Initial release
  • Version 2.0: 2024-03-06
    Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Non-polymer description, Polymer sequence, Structure summary