3J9Q

Atomic structures of a bactericidal contractile nanotube in its pre- and post-contraction states


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.50 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history

Re-refinement Note

A newer entry is available that reflects an alternative modeling of the original data: 5W5E


Literature

Atomic structures of a bactericidal contractile nanotube in its pre- and postcontraction states.

Ge, P.Scholl, D.Leiman, P.G.Yu, X.Miller, J.F.Zhou, Z.H.

(2015) Nat Struct Mol Biol 22: 377-382

  • DOI: 10.1038/nsmb.2995
  • Primary Citation of Related Structures:  
    3J9Q, 3J9R

  • PubMed Abstract: 
  • R-type pyocins are representatives of contractile ejection systems, a class of biological nanomachines that includes, among others, the bacterial type VI secretion system (T6SS) and contractile bacteriophage tails. We report atomic models of the Pseudomonas aeruginosa precontraction pyocin sheath and tube, and the postcontraction sheath, obtained by cryo-EM at 3 ...

    R-type pyocins are representatives of contractile ejection systems, a class of biological nanomachines that includes, among others, the bacterial type VI secretion system (T6SS) and contractile bacteriophage tails. We report atomic models of the Pseudomonas aeruginosa precontraction pyocin sheath and tube, and the postcontraction sheath, obtained by cryo-EM at 3.5-Å and 3.9-Å resolutions, respectively. The central channel of the tube is negatively charged, in contrast to the neutral and positive counterparts in T6SSs and phage tails. The sheath is interwoven by long N- and C-terminal extension arms emanating from each subunit, which create an extensive two-dimensional mesh that has the same connectivity in the extended and contracted state of the sheath. We propose that the contraction process draws energy from electrostatic and shape complementarities to insert the inner tube through bacterial cell membranes to eventually kill the bacteria.


    Organizational Affiliation

    1] Department of Microbiology, Immunology and Molecular Genetics, University of California, Los Angeles (UCLA), Los Angeles, California, USA. [2] California NanoSystems Institute (CNSI), UCLA, Los Angeles, California, USA.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
sheath386Pseudomonas aeruginosaMutation(s): 0 
Gene Names: FIR2
UniProt
Find proteins for Q9S574 (Pseudomonas aeruginosa)
Explore Q9S574 
Go to UniProtKB:  Q9S574
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
tube168Pseudomonas aeruginosaMutation(s): 0 
Gene Names: FIIR2
UniProt
Find proteins for Q9S573 (Pseudomonas aeruginosa)
Explore Q9S573 
Go to UniProtKB:  Q9S573
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.50 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2015-04-01
    Type: Initial release
  • Version 1.1: 2015-04-15
    Changes: Database references
  • Version 1.2: 2015-05-20
    Changes: Database references
  • Version 1.3: 2018-07-18
    Changes: Author supporting evidence, Data collection