9H3D | pdb_00009h3d

F-ENA exosporium anchoring complex between ExsF and a peptide derived from the N-terminus of F-Anchor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.92 Å
  • R-Value Free: 
    0.216 (Depositor), 0.215 (DCC) 
  • R-Value Work: 
    0.184 (Depositor), 0.184 (DCC) 
  • R-Value Observed: 
    0.186 (Depositor) 

Starting Model: in silico
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wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Cryo-EM analysis of the Bacillus thuringiensis extrasporal matrix identifies F-ENA as a widespread family of endospore appendages across the Firmicutes phylum.

Sleutel, M.Sogues, A.Gerven, N.V.Jonsmoen, U.L.Molle, I.V.Fislage, M.Theunissen, L.D.Bellis, N.F.Baquero, D.P.Egelman, E.H.Krupovic, M.Wang, F.Aspholm, M.Remaut, H.

(2025) bioRxiv 

  • DOI: https://doi.org/10.1101/2025.02.11.637640
  • Primary Citation of Related Structures:  
    9H38, 9H3D, 9I0Y

  • PubMed Abstract: 

    For over 100 years, Bacillus thuringiensis (Bt) has been used as an agricultural biopesticide to control pests caused by insect species in the orders of Lepidoptera, Diptera and Coleoptera. Under nutrient starvation, Bt cells differentiate into spores and associated toxin crystals that can adopt biofilm-like aggregates. We reveal that such Bt spore/toxin biofilms are embedded in a fibrous extrasporal matrix (ESM), and using cryoID, we resolved the structure and molecular identity of an uncharacterized type of pili, referred to here as Fibrillar ENdospore Appendages or 'F-ENA'. F-ENA are monomolecular protein polymers tethered to the exosporium of Bt and are decorated with a flexible tip fibrillum. Phylogenetic analysis reveals that F-ENA is widespread not only in the class Bacilli, but also in the class Clostridia, and the cryoEM structures of F-ENA filaments from Bacillus, Anaerovorax and Paenibaccilus reveal subunits with a generic head-neck domain structure, where the β-barrel neck of variable length latch onto a preceding head domain through short N-terminal hook peptides. In Bacillus , two collagen-like proteins (CLP) respectively tether F-ENA to the exosporium (F-Anchor), or constitute the tip fibrillum at the distal terminus of F-ENA (F-BclA). Sedimentation assays point towards F-ENA involvement in spore-spore clustering, likely mediated via F-BclA contacts and F-ENA bundling through the antiparallel interlocking of the head-neck units.


  • Organizational Affiliation
    • Structural Biology Brussels, Vrije Universiteit Brussel, Pleinlaan 2, 1050 Brussels, Belgium.

Macromolecules

Find similar proteins by:  Sequence   |   3D Structure  

Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
DUF4183 domain-containing protein
A, B, C, G, H
A, B, C, G, H, I
21Bacillus thuringiensisMutation(s): 0 
UniProt
Find proteins for A0A9X6F2S5 (Bacillus thuringiensis serovar yosoo)
Explore A0A9X6F2S5 
Go to UniProtKB:  A0A9X6F2S5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A9X6F2S5
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Exosporium protein ExsF
D, E, F, J, K
D, E, F, J, K, L
155Bacillus thuringiensisMutation(s): 0 
Gene Names: exsFREY75_14105
UniProt
Find proteins for A0A9X7GJJ5 (Bacillus thuringiensis)
Explore A0A9X7GJJ5 
Go to UniProtKB:  A0A9X7GJJ5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A9X7GJJ5
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.92 Å
  • R-Value Free:  0.216 (Depositor), 0.215 (DCC) 
  • R-Value Work:  0.184 (Depositor), 0.184 (DCC) 
  • R-Value Observed: 0.186 (Depositor) 
Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 51.292α = 90
b = 91.809β = 101.567
c = 99.931γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
PHASERphasing
autoPROCdata reduction

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Molecular Biology Organization (EMBO)European UnionALTF 709-2021
H2020 Marie Curie Actions of the European CommissionEuropean UnionSLYDIV

Revision History  (Full details and data files)

  • Version 1.0: 2025-03-12
    Type: Initial release