9UU0 | pdb_00009uu0

The structure of Bacteroides fragilis T6SS effector BteO


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.72 Å
  • R-Value Free: 
    0.297 (Depositor), 0.301 (DCC) 
  • R-Value Work: 
    0.275 (Depositor), 0.278 (DCC) 
  • R-Value Observed: 
    0.276 (Depositor) 

Starting Models: in silico, experimental
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wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

A nonenzymatic effector disrupts Bacteroides cell wall homeostasis via OmpA targeting to mediate interbacterial competition.

He, J.Chen, Z.Jiang, K.Yang, Y.Li, W.Wang, X.Xu, X.Zheng, S.Jiao, X.Chen, X.Huo, L.Lim, B.Liu, S.J.Gao, X.

(2025) Proc Natl Acad Sci U S A 122

  • DOI: https://doi.org/10.1073/pnas.2513207122
  • Primary Citation of Related Structures:  
    9UU0, 9UU1, 9UU2

  • PubMed Abstract: 

    The human gut microbiome is a dynamic ecosystem where bacteria engage in interspecies competition using molecular weapons such as the type VI secretion system (T6SS). Here, we characterize BteO-BtiO, a unique effector-immunity pair in Bacteroides fragilis that mediates antagonism via a nonenzymatic mechanism. Microscopy reveals that BteO exposure leads to cell elongation, membrane blebbing, and lysis in sensitive strains. Structural and biochemical analyses demonstrate that BteO disrupts cell wall homeostasis by binding to conserved C-terminal domains of OmpA-family proteins (OmpAs), which are critical for outer membrane integrity. The immunity protein BtiO neutralizes BteO by mimicking the OmpA-binding interface. We further show that bile salts enhance BteO-mediated killing in vitro and that BteO confers a competitive advantage in the mammalian gut. Remarkably, BteO exhibits broad-spectrum activity across Bacteroides species. These findings reveal a nonenzymatic strategy of bacterial antagonism and broaden our understanding of T6SS effector diversity within Bacteroides .


  • Organizational Affiliation
    • State Key Laboratory of Microbial Technology, Shandong University, Qingdao 266237, China.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Maltose/maltodextrin-binding periplasmic protein,Bacteroides fragilis T6SS effector
A, B
590Escherichia coli K-12Bacteroides fragilis
This entity is chimeric
Mutation(s): 0 
Gene Names: malEb4034JW3994
UniProt
Find proteins for P0AEX9 (Escherichia coli (strain K12))
Explore P0AEX9 
Go to UniProtKB:  P0AEX9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0AEX9
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.72 Å
  • R-Value Free:  0.297 (Depositor), 0.301 (DCC) 
  • R-Value Work:  0.275 (Depositor), 0.278 (DCC) 
  • R-Value Observed: 0.276 (Depositor) 
Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 234.12α = 90
b = 63.46β = 110.786
c = 113.61γ = 90
Software Package:
Software NamePurpose
XDSdata scaling
PHENIXphasing
PHENIXrefinement
PHENIXmodel building

Structure Validation

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Entry History & Funding Information

Deposition Data

  • Released Date: 2025-10-01 
  • Deposition Author(s): He, J., Gao, X.

Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2025-10-01
    Type: Initial release
  • Version 1.1: 2025-10-22
    Changes: Database references