7AEF

Cryo-EM structure of an extracellular contractile injection system in marine bacterium Algoriphagus machipongonensis, the baseplate complex in extended state applied 3-fold symmetry.


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.80 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

Identification and structure of an extracellular contractile injection system from the marine bacterium Algoriphagus machipongonensis.

Xu, J.Ericson, C.F.Lien, Y.W.Rutaganira, F.U.N.Eisenstein, F.Feldmuller, M.King, N.Pilhofer, M.

(2022) Nat Microbiol 7: 397-410

  • DOI: https://doi.org/10.1038/s41564-022-01059-2
  • Primary Citation of Related Structures:  
    7ADZ, 7AE0, 7AEB, 7AEF, 7AEK

  • PubMed Abstract: 

    Contractile injection systems (CISs) are phage tail-like nanomachines, mediating bacterial cell-cell interactions as either type VI secretion systems (T6SSs) or extracellular CISs (eCISs). Bioinformatic studies uncovered a phylogenetic group of hundreds of putative CIS gene clusters that are highly diverse and widespread; however, only four systems have been characterized. Here we studied a putative CIS gene cluster in the marine bacterium Algoriphagus machipongonensis. Using an integrative approach, we show that the system is compatible with an eCIS mode of action. Our cryo-electron microscopy structure revealed several features that differ from those seen in other CISs: a 'cap adaptor' located at the distal end, a 'plug' exposed to the tube lumen, and a 'cage' formed by massive extensions of the baseplate. These elements are conserved in other CISs, and our genetic tools identified that they are required for assembly, cargo loading and function. Furthermore, our atomic model highlights specific evolutionary hotspots and will serve as a framework for understanding and re-engineering CISs.


  • Organizational Affiliation

    Department of Biology, Institute of Molecular Biology & Biophysics, Eidgenössische Technische Hochschule Zürich, Otto-Stern-Weg 5, Zürich, Switzerland.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
baseplate protein (Algo12)
A, B, C, D, E
A, B, C, D, E, F
933Algoriphagus machipongonensisMutation(s): 0 
UniProt
Find proteins for A3HTB3 (Algoriphagus machipongonensis)
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UniProt GroupA3HTB3
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Baseplate_J domain-containing protein
G, H, I, J, K
G, H, I, J, K, L
1,050Algoriphagus machipongonensisMutation(s): 0 
UniProt
Find proteins for A3HTB4 (Algoriphagus machipongonensis)
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UniProt GroupA3HTB4
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
LysM domain-containing protein
M, N, O, P, Q
M, N, O, P, Q, R
228Algoriphagus machipongonensisMutation(s): 0 
UniProt
Find proteins for A3HTB8 (Algoriphagus machipongonensis)
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UniProt GroupA3HTB8
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Putative tail lysozyme
S, T, U, V, W
S, T, U, V, W, X
137Algoriphagus machipongonensisMutation(s): 0 
UniProt
Find proteins for A3HTB5 (Algoriphagus machipongonensis)
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Phospholipid/glycerol acyltransferase147Algoriphagus machipongonensisMutation(s): 0 
UniProt
Find proteins for A3HTC0 (Algoriphagus machipongonensis)
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Putative phage tail sheath protein FI692Algoriphagus machipongonensisMutation(s): 0 
UniProt
Find proteins for A3HTC2 (Algoriphagus machipongonensis)
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
Phage tail protein142Algoriphagus machipongonensisMutation(s): 0 
UniProt
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
inner protein (Algo6)QA [auth t],
RA [auth u],
SA [auth v]
52Algoriphagus machipongonensisMutation(s): 0 
UniProt
Find proteins for A3HTB9 (Algoriphagus machipongonensis)
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
Phosphoserine phosphatase SerBTA [auth q],
UA [auth r],
VA [auth s]
581Algoriphagus machipongonensisMutation(s): 0 
UniProt
Find proteins for A3HTB7 (Algoriphagus machipongonensis)
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.80 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Research Council (ERC)Switzerland--
Swiss National Science FoundationSwitzerland--
Other privateSwitzerland--

Revision History  (Full details and data files)

  • Version 1.0: 2022-02-23
    Type: Initial release
  • Version 1.1: 2022-03-02
    Changes: Database references
  • Version 1.2: 2022-03-16
    Changes: Database references