5NXK | pdb_00005nxk

L. reuteri 53608 SRRP


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.92 Å
  • R-Value Free: 
    0.182 (Depositor), 0.183 (DCC) 
  • R-Value Work: 
    0.157 (Depositor), 0.158 (DCC) 
  • R-Value Observed: 
    0.158 (Depositor) 

wwPDB Validation 3D Report Full Report

Validation slider image for 5NXK

This is version 1.2 of the entry. See complete history

Literature

Structural basis for the role of serine-rich repeat proteins from Lactobacillus reuteriin gut microbe-host interactions.

Sequeira, S.Kavanaugh, D.MacKenzie, D.A.Suligoj, T.Walpole, S.Leclaire, C.Gunning, A.P.Latousakis, D.Willats, W.G.T.Angulo, J.Dong, C.Juge, N.

(2018) Proc Natl Acad Sci U S A 115: E2706-E2715

  • DOI: https://doi.org/10.1073/pnas.1715016115
  • Primary Citation Related Structures: 
    5NXK, 5NY0

  • PubMed Abstract: 

    Lactobacillus reuteri , a Gram-positive bacterial species inhabiting the gastrointestinal tract of vertebrates, displays remarkable host adaptation. Previous mutational analyses of rodent strain L. reuteri 100-23C identified a gene encoding a predicted surface-exposed serine-rich repeat protein (SRRP 100-23 ) that was vital for L. reuteri biofilm formation in mice. SRRPs have emerged as an important group of surface proteins on many pathogens, but no structural information is available in commensal bacteria. Here we report the 2.00-Å and 1.92-Å crystal structures of the binding regions (BRs) of SRRP 100-23 and SRRP 53608 from L. reuteri ATCC 53608, revealing a unique β-solenoid fold in this important adhesin family. SRRP 53608 -BR bound to host epithelial cells and DNA at neutral pH and recognized polygalacturonic acid (PGA), rhamnogalacturonan I, or chondroitin sulfate A at acidic pH. Mutagenesis confirmed the role of the BR putative binding site in the interaction of SRRP 53608 -BR with PGA. Long molecular dynamics simulations showed that SRRP 53608 -BR undergoes a pH-dependent conformational change. Together, these findings provide mechanistic insights into the role of SRRPs in host-microbe interactions and open avenues of research into the use of biofilm-forming probiotics against clinically important pathogens.


  • Organizational Affiliation
    • BioMedical Research Centre, University of East Anglia, NR4 7TJ Norwich, United Kingdom.

Macromolecule Content 

  • Total Structure Weight: 98.97 kDa 
  • Atom Count: 7,896 
  • Modeled Residue Count: 921 
  • Deposited Residue Count: 930 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Serine-rich secreted cell wall anchored (LPXTG-motif ) protein
A, B, C
310Limosilactobacillus reuteri subsp. suisMutation(s): 0 
Gene Names: LRATCC53608_0906

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.92 Å
  • R-Value Free:  0.182 (Depositor), 0.183 (DCC) 
  • R-Value Work:  0.157 (Depositor), 0.158 (DCC) 
  • R-Value Observed: 0.158 (Depositor) 
Space Group: P 32 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 146.697α = 90
b = 146.697β = 90
c = 110.423γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
PDB_EXTRACTdata extraction
iMOSFLMdata reduction
SCALAdata scaling
SHELXCDphasing

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Wellcome TrustUnited KingdomWT106121

Revision History  (Full details and data files)

  • Version 1.0: 2018-03-21
    Type: Initial release
  • Version 1.1: 2018-03-28
    Changes: Data collection, Database references
  • Version 1.2: 2024-05-08
    Changes: Data collection, Database references