6RBK

Cryo-EM structure of the anti-feeding prophage (AFP) baseplate in extended state, 3-fold symmetrised


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.4 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

Atomic structures of an entire contractile injection system in both the extended and contracted states.

Desfosses, A.Venugopal, H.Joshi, T.Felix, J.Jessop, M.Jeong, H.Hyun, J.Heymann, J.B.Hurst, M.R.H.Gutsche, I.Mitra, A.K.

(2019) Nat Microbiol 4: 1885-1894

  • DOI: 10.1038/s41564-019-0530-6
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Contractile injection systems are sophisticated multiprotein nanomachines that puncture target cell membranes. Although the number of atomic-resolution insights into contractile bacteriophage tails, bacterial type six secretion systems and R-pyocins ...

    Contractile injection systems are sophisticated multiprotein nanomachines that puncture target cell membranes. Although the number of atomic-resolution insights into contractile bacteriophage tails, bacterial type six secretion systems and R-pyocins is rapidly increasing, structural information on the contraction of bacterial phage-like protein-translocation structures directed towards eukaryotic hosts is scarce. Here, we characterize the antifeeding prophage AFP from Serratia entomophila by cryo-electron microscopy. We present the high-resolution structure of the entire AFP particle in the extended state, trace 11 protein chains de novo from the apical cap to the needle tip, describe localization variants and perform specific structural comparisons with related systems. We analyse inter-subunit interactions and highlight their universal conservation within contractile injection systems while revealing the specificities of AFP. Furthermore, we provide the structure of the AFP sheath-baseplate complex in a contracted state. This study reveals atomic details of interaction networks that accompany and define the contraction mechanism of toxin-delivery tailocins, offering a comprehensive framework for understanding their mode of action and for their possible adaptation as biocontrol agents.


    Organizational Affiliation

    Molecular Cryo-Electron Microscopy Unit, Okinawa Institute of Science and Technology Graduate University, Okinawa, Japan.,School of Biological Sciences, University of Auckland, Auckland, New Zealand. a.mitra@auckland.ac.nz.,Institut de Biologie Structurale (IBS), University Grenoble Alpes, CEA, CNRS, Grenoble, France.,Laboratory for Structural Biology Research, National Institute of Arthritis, Musculoskeletal and Skin Diseases, National Institutes of Health, Bethesda, MD, USA.,Ramaciotti Centre for Cryo Electron Microscopy, Monash University, Melbourne, Victoria, Australia.,School of Biological Sciences, University of Auckland, Auckland, New Zealand.,Bio-Protection Research Centre, Christchurch, New Zealand. mark.hurst@agresearch.co.nz.,Institut de Biologie Structurale (IBS), University Grenoble Alpes, CEA, CNRS, Grenoble, France. irina.gutsche@ibs.fr.,Electron Microscopy Research Center, Korea Basic Science Institute, Cheongju-si, Republic of Korea.,Forage Science, AgResearch, Lincoln Research Centre, Christchurch, New Zealand. mark.hurst@agresearch.co.nz.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Afp7
A, B
229Serratia entomophilaMutation(s): 0 
Gene Names: afp7
Find proteins for Q6HAD2 (Serratia entomophila)
Go to UniProtKB:  Q6HAD2
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Afp8
C
529Serratia entomophilaMutation(s): 0 
Gene Names: afp8
Find proteins for Q6HAD1 (Serratia entomophila)
Go to UniProtKB:  Q6HAD1
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.4 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2019-04-10 
  • Released Date: 2019-04-24 
  • Deposition Author(s): Desfosses, A.

Revision History 

  • Version 1.0: 2019-04-24
    Type: Initial release
  • Version 1.1: 2019-08-14
    Type: Data collection, Database references
  • Version 1.2: 2019-11-06
    Type: Data collection, Database references