Small angle X-ray scattering as a complementary tool for high-throughput structural studies.

Grant TD, Luft JR, Wolfley JR, Tsuruta H, Martel A, Montelione GT, Snell EH, Biopolymers 95(8):517-30 (2011) Europe PMC

SASDCD6 – MucBP domain of the adhesion protein PEPE_0118 from Pediococcus pentosaceus. Northeast Structural Genomics Consortium target id PtR41A

Adhesion exoprotein
MWexperimental 11 kDa
MWexpected 14 kDa
VPorod 18 nm3
log I(s) 2.49×102 2.49×101 2.49×100 2.49×10-1
Adhesion exoprotein small angle scattering data  s, nm-1
ln I(s)
Adhesion exoprotein Guinier plot ln 2.49×102 Rg: 2.3 nm 0 (2.3 nm)-2 s2
(sRg)2I(s)/I(0)
Adhesion exoprotein Kratky plot 1.104 0 √3 sRg
p(r)
Adhesion exoprotein pair distance distribution function Rg: 2.4 nm 0 Dmax: 8.2 nm

Data validation

Fits and models

log I(s)
 s, nm-1
Adhesion exoprotein PDB (PROTEIN DATA BANK) model
log I(s)
 s, nm-1
Adhesion exoprotein DAMFILT model
Synchrotron SAXS data from solutions of MucBP domain of the adhesion protein PEPE_0118 from Pediococcus pentosaceus. Northeast Structural Genomics Consortium target id PtR41A in 5 mM DTT 100 mM NaCl 10 mM Tris-HCl 0.02 % NaN3, pH 7.5 were collected on the BL4-2 beam line at the Stanford Synchrotron Radiation Lightsource (SSRL) storage ring (Menlo Park, CA, USA) using a Rayonix MX225-HE detector at a sample-detector distance of 1.5 m and at a wavelength of λ = 0.13 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). Solute concentrations ranging between 2.5 and 7.7 mg/ml were measured at 20°C. 20 successive 1 second frames were collected. The data were normalized to the intensity of the transmitted beam and radially averaged; the scattering of the solvent-blank was subtracted.

Adhesion exoprotein
Mol. type   Protein
Organism   Pediococcus pentosaceus
Olig. state   Monomer
Mon. MW   14.4 kDa
 
UniProt   Q03HU7
Sequence   FASTA
 
PDB ID   3LYY