The crystal structure of the N-terminal domain of the backbone pilin LrpA reveals a new closure-and-twist motion for assembling dynamic pili in Ligilactobacillus ruminis

Prajapati A, Palva A, von Ossowski I, Krishnan V, Acta Crystallographica Section D Structural Biology 80(7):474-492 (2024) DOI

SASDUV3 – SAXS analysis of the LrpA backbone-Pilin Subunit from Ligilactobacillus ruminis

LPXTG-motif cell wall anchor domain protein
MWI(0) 49 kDa
MWexpected 49 kDa
VPorod 59 nm3
log I(s) 3.54×102 3.54×101 3.54×100 3.54×10-1
LPXTG-motif cell wall anchor domain protein small angle scattering data  s, nm-1
ln I(s)
LPXTG-motif cell wall anchor domain protein Guinier plot ln 3.54×102 Rg: 3.5 nm 0 (3.5 nm)-2 s2
(sRg)2I(s)/I(0)
LPXTG-motif cell wall anchor domain protein Kratky plot 1.104 0 √3 sRg
p(r)
LPXTG-motif cell wall anchor domain protein pair distance distribution function Rg: 3.5 nm 0 Dmax: 10.6 nm

Data validation

Fits and models

log I(s)
 s, nm-1
LPXTG-motif cell wall anchor domain protein ALPHAFOLD model
log I(s)
 s, nm-1
LPXTG-motif cell wall anchor domain protein DAMMIF model
Synchrotron SAXS data from solutions of the LrpA backbone-Pilin Subunit in 20 mM Tris-HCl, 150 mM NaCl, pH 8 were collected on the EMBL P12 beam line at PETRA III (DESY; Hamburg, Germany) using a Pilatus 6M detector at a sample-detector distance of 3 m and at a wavelength of λ = 0.123983 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). In-line size-exclusion chromatography (SEC) SAS was employed. The SEC parameters were as follows: A 40.00 μl sample at 5 mg/ml was injected at a 3.00 ml/min flow rate onto a Cytiva Superdex 200 Increase 5/150 column at 20°C. 15 successive 0.500 second frames were collected through the SEC sample elution peak. The data were normalized to the intensity of the transmitted beam and radially averaged; the scattering of the solvent-blank was subtracted.

LPXTG-motif cell wall anchor domain protein (LrpA)
Mol. type   Protein
Organism   Ligilactobacillus ruminis ATCC 25644
Olig. state   Monomer
Mon. MW   49.0 kDa
 
UniProt   E7FRT5 (35-472)
Sequence   FASTA