7QFI

Crystal structure of S-layer protein SlpX from Lactobacillus acidophilus, domain I (aa 31-182)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.50 Å
  • R-Value Free: 0.222 
  • R-Value Work: 0.187 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

The molecular architecture of Lactobacillus S-layer: Assembly and attachment to teichoic acids.

Sagmeister, T.Gubensak, N.Buhlheller, C.Grininger, C.Eder, M.Ðordic, A.Millan, C.Medina, A.Murcia, P.A.S.Berni, F.Hynonen, U.Vejzovic, D.Damisch, E.Kulminskaya, N.Petrowitsch, L.Oberer, M.Palva, A.Malanovic, N.Codee, J.Keller, W.Uson, I.Pavkov-Keller, T.

(2024) Proc Natl Acad Sci U S A 121: e2401686121-e2401686121

  • DOI: https://doi.org/10.1073/pnas.2401686121
  • Primary Citation of Related Structures:  
    7QEC, 7QEH, 7QFG, 7QFI, 7QFJ, 7QFK, 7QFL, 7QLD, 7QLH, 8ALU, 8AOL, 8BT9, 8Q1O

  • PubMed Abstract: 

    S-layers are crystalline arrays found on bacterial and archaeal cells. Lactobacillus is a diverse family of bacteria known especially for potential gut health benefits. This study focuses on the S-layer proteins from Lactobacillus acidophilus and Lactobacillus amylovorus common in the mammalian gut. Atomic resolution structures of Lactobacillus S-layer proteins SlpA and SlpX exhibit domain swapping, and the obtained assembly model of the main S-layer protein SlpA aligns well with prior electron microscopy and mutagenesis data. The S-layer's pore size suggests a protective role, with charged areas aiding adhesion. A highly similar domain organization and interaction network are observed across the Lactobacillus genus. Interaction studies revealed conserved binding areas specific for attachment to teichoic acids. The structure of the SlpA S-layer and the suggested incorporation of SlpX as well as its interaction with teichoic acids lay the foundation for deciphering its role in immune responses and for developing effective treatments for a variety of infectious and bacteria-mediated inflammation processes, opening opportunities for targeted engineering of the S-layer or lactobacilli bacteria in general.


  • Organizational Affiliation

    Institute of Molecular Biosciences, University of Graz, Graz, Austria 8010.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
SlpX
A, B
162Lactobacillus acidophilusMutation(s): 0 
Gene Names: slpXLBA0512
UniProt
Find proteins for Q5FLN0 (Lactobacillus acidophilus (strain ATCC 700396 / NCK56 / N2 / NCFM))
Explore Q5FLN0 
Go to UniProtKB:  Q5FLN0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ5FLN0
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
CA (Subject of Investigation/LOI)
Query on CA

Download Ideal Coordinates CCD File 
C [auth B]CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.50 Å
  • R-Value Free: 0.222 
  • R-Value Work: 0.187 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 37.35α = 90
b = 38.347β = 93.927
c = 82.745γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
Arcimboldophasing
ARP/wARPmodel building

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Austrian Science FundAustriaP29432

Revision History  (Full details and data files)

  • Version 1.0: 2022-12-21
    Type: Initial release
  • Version 1.1: 2024-06-19
    Changes: Data collection, Database references, Refinement description