4Y7L

T6SS protein TssM C-terminal domain (869-1107) from EAEC


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.51 Å
  • R-Value Free: 0.203 
  • R-Value Work: 0.191 

wwPDB Validation 3D Report Full Report


This is version 2.0 of the entry. See complete history

Literature

Biogenesis and structure of a type VI secretion membrane core complex.

Durand, E.Nguyen, V.S.Zoued, A.Logger, L.Pehau-Arnaudet, G.Aschtgen, M.S.Spinelli, S.Desmyter, A.Bardiaux, B.Dujeancourt, A.Roussel, A.Cambillau, C.Cascales, E.Fronzes, R.

(2015) Nature 523: 555-560

  • DOI: 10.1038/nature14667
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Bacteria share their ecological niches with other microbes. The bacterial type VI secretion system is one of the key players in microbial competition, as well as being an important virulence determinant during bacterial infections. It assembles a nan ...

    Bacteria share their ecological niches with other microbes. The bacterial type VI secretion system is one of the key players in microbial competition, as well as being an important virulence determinant during bacterial infections. It assembles a nano-crossbow-like structure in the cytoplasm of the attacker cell that propels an arrow made of a haemolysin co-regulated protein (Hcp) tube and a valine-glycine repeat protein G (VgrG) spike and punctures the prey's cell wall. The nano-crossbow is stably anchored to the cell envelope of the attacker by a membrane core complex. Here we show that this complex is assembled by the sequential addition of three type VI subunits (Tss)-TssJ, TssM and TssL-and present a structure of the fully assembled complex at 11.6 Å resolution, determined by negative-stain electron microscopy. With overall C5 symmetry, this 1.7-megadalton complex comprises a large base in the cytoplasm. It extends in the periplasm via ten arches to form a double-ring structure containing the carboxy-terminal domain of TssM (TssMct) and TssJ that is anchored in the outer membrane. The crystal structure of the TssMct-TssJ complex coupled to whole-cell accessibility studies suggest that large conformational changes induce transient pore formation in the outer membrane, allowing passage of the attacking Hcp tube/VgrG spike.


    Organizational Affiliation

    1] Architecture et Fonction des Macromolécules Biologiques, CNRS, UMR 7257, Campus de Luminy, Case 932, 13288 Marseille Cedex 09, France [2] AFMB, Aix-Marseille Université, IHU Méditerranée Infection, Campus de Luminy, Case 932, 13288 Marseille Cedex 09, France.,1] Laboratoire d'Ingénierie des Systèmes Macromoléculaires, Aix-Marseille Université - CNRS, UMR 7255, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20, France [2] Architecture et Fonction des Macromolécules Biologiques, CNRS, UMR 7257, Campus de Luminy, Case 932, 13288 Marseille Cedex 09, France [3] G5 Biologie structurale de la sécrétion bactérienne, Institut Pasteur, 25-28 rue du Docteur Roux, 75015 Paris, France [4] UMR 3528, CNRS, Institut Pasteur, 25-28 rue du Docteur Roux, 75015 Paris, France [5] AFMB, Aix-Marseille Université, IHU Méditerranée Infection, Campus de Luminy, Case 932, 13288 Marseille Cedex 09, France.,Laboratoire d'Ingénierie des Systèmes Macromoléculaires, Aix-Marseille Université - CNRS, UMR 7255, 31 Chemin Joseph Aiguier, 13402 Marseille Cedex 20, France.,UMR 3528, CNRS, Institut Pasteur, 25-28 rue du Docteur Roux, 75015 Paris, France.,1] UMR 3528, CNRS, Institut Pasteur, 25-28 rue du Docteur Roux, 75015 Paris, France [2] Unité de Bioinformatique Structurale, Institut Pasteur, 25-28 rue du Docteur Roux, 75015 Paris, France.,1] G5 Biologie structurale de la sécrétion bactérienne, Institut Pasteur, 25-28 rue du Docteur Roux, 75015 Paris, France [2] UMR 3528, CNRS, Institut Pasteur, 25-28 rue du Docteur Roux, 75015 Paris, France.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Type VI secretion protein IcmF
A, B
240Escherichia coli 2-156-04_S3_C3Mutation(s): 0 
Find proteins for A0A0M3KL15 (Escherichia coli 2-156-04_S3_C3)
Go to UniProtKB:  A0A0M3KL15
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A, B
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
GOL
Query on GOL

Download SDF File 
Download CCD File 
A, B
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.51 Å
  • R-Value Free: 0.203 
  • R-Value Work: 0.191 
  • Space Group: P 41 21 2
Unit Cell:
Length (Å)Angle (°)
a = 64.030α = 90.00
b = 64.030β = 90.00
c = 249.660γ = 90.00
Software Package:
Software NamePurpose
XDSdata reduction
XSCALEdata scaling
BUSTERrefinement
MOLREPphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
French National Research AgencyFranceANR-14-CE14-0006-02
French National Research AgencyFranceANR-10-JCJC-1303-03

Revision History 

  • Version 1.0: 2015-08-05
    Type: Initial release
  • Version 2.0: 2017-08-30
    Type: Atomic model, Author supporting evidence, Derived calculations