Solution Structure, Self-Assembly, and Membrane Interactions of the Matrix Protein from Newcastle Disease Virus at Neutral and Acidic pH

Shtykova E, Petoukhov M, Dadinova L, Fedorova N, Tashkin V, Timofeeva T, Ksenofontov A, Loshkarev N, Baratova L, Jeffries C, Svergun D, Batishchev O, García-Sastre A, Journal of Virology 93(6) (2019) DOI

SASDKN2 – Matrix protein from Newcastle disease virus at neutral pH

Matrix protein
MWexperimental 13207 kDa
MWexpected 40 kDa
log I(s) 6.07×102 6.07×101 6.07×100 6.07×10-1
Matrix protein small angle scattering data  s, nm-1
ln I(s)
Matrix protein Guinier plot ln 6.07×102 Rg: 3.5 nm 0 (3.5 nm)-2 s2
(sRg)2I(s)/I(0)
Matrix protein Kratky plot 1.104 0 √3 sRg

Data validation

Fits and models

log I(s)
 s, nm-1
Matrix protein DAMMIN model
log I(s)
 s, nm-1
Matrix protein PDB (PROTEIN DATA BANK) model
Matrix protein PISA model
Matrix protein CUSTOM IN-HOUSE model
Synchrotron SAXS data from solutions of Matrix protein from Newcastle disease virus at neutral pH in STE buffer 100 mM NaCl, 10 mM Tris-HCl, and 1 mM EDTA, pH 4 were collected on the EMBL P12 beam line at the PETRA III storage ring (DESY; Hamburg, Germany) using a Pilatus 2M detector at a sample-detector distance of 3 m and at a wavelength of λ = 0.124 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). One solute concentration of 2.20 mg/ml was measured at 20°C. 20 successive 0.045 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.

The scattering from dimers was subtracted from the curve used in Dammin to focus only on large molecular weight species (helices).

Matrix protein
Mol. type   Protein
Organism   Newcastle disease virus (strain Chicken/Australia-Victoria/32)
Olig. state   Unknown
Mon. MW   39.7 kDa
 
UniProt   P11206
Sequence   FASTA
 
PDB ID   4G1L