Three-dimensional structure of the 3'X-tail of hepatitis C virus RNA in monomeric and dimeric states.

Cantero-Camacho Á, Fan L, Wang YX, Gallego J, RNA 23(9):1465-1476 (2017) Europe PMC

SASDBP7 – Domain 3'X of hepatitis C virus RNA at low ionic strength

Domain 3'X of hepatitis C virus
MWexperimental 37 kDa
MWexpected 32 kDa
log I(s) 9.20×10-2 9.20×10-3 9.20×10-4 9.20×10-5
Domain 3'X of hepatitis C virus small angle scattering data  s, nm-1
ln I(s)
Domain 3'X of hepatitis C virus Guinier plot ln 9.20×10-2 Rg: 3.7 nm 0 (3.7 nm)-2 s2
(sRg)2I(s)/I(0)
Domain 3'X of hepatitis C virus Kratky plot 1.104 0 √3 sRg
p(r)
Domain 3'X of hepatitis C virus pair distance distribution function Rg: 4.0 nm 0 Dmax: 14.8 nm

Data validation

Fits and models

log I(s)
 s, nm-1
Domain 3'X of hepatitis C virus DAMMIN model
Synchrotron SAXS data from solutions of Domain 3'X of hepatitis C virus RNA at low ionic strength in 10mM Tris 0.1 mM EDTA, pH 7, were collected on the 12ID-B SAXS/WAXS camera on the storage ring Advanced Photon Source (APS), Argonne National Laboratory (Lemont, IL, USA) using a Pilatus 2M detector at a sample-detector distance of 2 m and at a wavelength of λ = 0.0886 nm (I(s) vs s, where s = 4π sin θ/λ, and 2θ is the scattering angle). Solute concentrations ranging between 0.4 and 1.5 mg/ml were measured at 27°C. 30 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 and the different curves were scaled for RNA concentration. The low angle data collected at lower concentrations were extrapolated to infinite dilution and merged with the higher concentration data to yield the final composite scattering curve.

Domain 3'X of hepatitis C virus (3'X)
Mol. type   RNA
Organism   Hepatitis C virus
Olig. state   Monomer
Mon. MW   31.7 kDa
Sequence   FASTA