8XCL | pdb_00008xcl

Character of TseP: a dual functional effector of type VI secretion system


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.27 Å
  • R-Value Free: 
    0.227 (Depositor), 0.235 (DCC) 
  • R-Value Work: 
    0.187 (Depositor), 0.193 (DCC) 
  • R-Value Observed: 
    0.189 (Depositor) 

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

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Literature

Amidase and lysozyme dual functions in TseP reveal a new family of chimeric effectors in the type VI secretion system.

Wang, Z.H.An, Y.Zhao, T.Pei, T.T.Wang, D.Y.Liang, X.Qin, W.Dong, T.

(2025) Elife 13

  • DOI: https://doi.org/10.7554/eLife.101125
  • Primary Citation Related Structures: 
    8XCL

  • PubMed Abstract: 

    Peptidoglycan (PG) serves as an essential target for antimicrobial development. An overlooked reservoir of antimicrobials lies in the form of PG-hydrolyzing enzymes naturally produced for polymicrobial competition, particularly those associated with the type VI secretion system (T6SS). Here, we report that a T6SS effector TseP, from Aeromonas dhakensis , represents a family of effectors with dual amidase-lysozyme activities. In vitro PG-digestion coupled with LC-MS analysis revealed the N-domain's amidase activity, which is neutralized by either catalytic mutations or the presence of the immunity protein TsiP. The N-domain, but not the C-domain, of TseP is sufficient to restore T6SS secretion in T6SS-defective mutants, underscoring its critical structural role. Using pull-down and secretion assays, we showed that these two domains interact directly with a carrier protein VgrG2 and can be secreted separately. Homologs in Aeromonas hydrophila and Pseudomonas syringae exhibited analogous dual functions. Additionally, N- and C-domains display distinctive GC contents, suggesting an evolutionary fusion event. By altering the surface charge through structural-guided design, we engineered the TseP C4+ effector that successfully lyses otherwise resistant Bacillus subtilis cells, enabling the T6SS to inhibit B. subtilis in a contact-independent manner. This research uncovers TseP as a new family of bifunctional chimeric effectors targeting PG, offering a potential strategy to harness these proteins in the fight against antimicrobial resistance.


  • Organizational Affiliation
    • State Key Laboratory of Microbial Metabolism, Joint International Research Laboratory of Metabolic & Developmental Sciences, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, China.

Macromolecule Content 

  • Total Structure Weight: 27.26 kDa 
  • Atom Count: 2,033 
  • Modeled Residue Count: 242 
  • Deposited Residue Count: 244 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
EF-hand domain-containing protein244Aeromonas dhakensisMutation(s): 0 
Gene Names: HMPREF1171_00947
UniProt
Find proteins for K1JFN7 (Aeromonas dhakensis)
Explore K1JFN7 
Go to UniProtKB:  K1JFN7
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupK1JFN7
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.27 Å
  • R-Value Free:  0.227 (Depositor), 0.235 (DCC) 
  • R-Value Work:  0.187 (Depositor), 0.193 (DCC) 
  • R-Value Observed: 0.189 (Depositor) 
Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 44.481α = 90
b = 138.797β = 90
c = 95.827γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
Aimlessdata scaling
PHENIXphasing

Structure Validation

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Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2025-04-23
    Type: Initial release