8V4W | pdb_00008v4w

Crystal structure of Campylobacter concisus Csep1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.40 Å
  • R-Value Free: 
    0.167 (Depositor), 0.167 (DCC) 
  • R-Value Work: 
    0.126 (Depositor), 0.126 (DCC) 
  • R-Value Observed: 
    0.129 (Depositor) 

wwPDB Validation 3D Report Full Report

Validation slider image for 8V4W

This is version 1.1 of the entry. See complete history

Literature

Csep1P protein from Campylobacter concisus induces a chemokine-dominant inflammatory state in macrophages and enhances proinflammatory response to gut bacteria.

Luk, C.Y.M.Rahman, M.M.Zhou, X.Munier, C.M.L.Liu, F.Riordan, S.M.Roujeinikova, A.Zhang, L.

(2026) PLoS Pathog 22: e1013951-e1013951

  • DOI: https://doi.org/10.1371/journal.ppat.1013951
  • Primary Citation Related Structures: 
    8V4W

  • PubMed Abstract: 

    Translocation of Campylobacter concisus from the oral cavity to the intestinal tract is increasingly recognised as a contributor to inflammatory bowel disease (IBD). The C. concisus secreted protein Csep1 has emerged as a molecular marker of C. concisus strains associated with Crohn's disease, a form of IBD. However, its structure and role in inflammation remain unknown. Here, we report the X-ray crystal structure of plasmid-encoded Csep1P that reveals a unique α-helical fold with structural similarity to Helicobacter pylori cysteine-rich proteins HcpB and HcpC. Because HcpA, another Hcp family member, is known to affect monocyte differentiation, this structural similarity led us to hypothesise that Csep1P may modulate monocyte differentiation and macrophage function. Transcriptomic analysis revealed that Csep1P induced a chemokine-dominant inflammatory state in macrophages, M1-chem. Protein-level validation in both THP-1-derived and primary human macrophages confirmed this selective chemokine response. While Csep1P alone did not upregulate proinflammatory cytokines, THP-1-derived macrophages pre-incubated with Csep1P produced a higher level of proinflammatory cytokines in response to commensal Escherichia coli, which was validated on primary human macrophages. Furthermore, silencing the delta like canonical notch ligand 4 (DLL4) gene decreased the proinflammatory response of Csep1P-mediated macrophages to E. coli. Collectively, our data demonstrate that the structurally unique Csep1P reprograms macrophage response, which provides a mechanistic link between C. concisus infection and Crohn's disease pathogenesis, and identifies Csep1P as a potential target for therapeutic intervention.


  • Organizational Affiliation
    • School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, New South Wales, Australia.

Macromolecule Content 

  • Total Structure Weight: 24.45 kDa 
  • Atom Count: 1,943 
  • Modeled Residue Count: 207 
  • Deposited Residue Count: 207 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Secreted protein 1207Campylobacter concisusMutation(s): 0 
Gene Names: CCS77_2074
UniProt
Find proteins for A0A2R4P333 (Campylobacter concisus)
Explore A0A2R4P333 
Go to UniProtKB:  A0A2R4P333
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A2R4P333
Sequence Annotations
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Reference Sequence

Small Molecules

Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
ACY

Query on ACY



Download:Ideal Coordinates CCD File
B [auth A]ACETIC ACID
C2 H4 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.40 Å
  • R-Value Free:  0.167 (Depositor), 0.167 (DCC) 
  • R-Value Work:  0.126 (Depositor), 0.126 (DCC) 
  • R-Value Observed: 0.129 (Depositor) 
Space Group: P 64
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 85.792α = 90
b = 85.792β = 90
c = 55.194γ = 120
Software Package:
Software NamePurpose
XDSdata scaling
Aimlessdata scaling
pointlessdata scaling
REFMACrefinement

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Other governmentAustraliaPS46772

Revision History  (Full details and data files)

  • Version 1.0: 2025-01-08
    Type: Initial release
  • Version 1.1: 2026-07-15
    Changes: Database references, Structure summary