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

SASDBR7 – Subdomain SL2' of hepatitis C virus RNA domain 3'X at higher ionic strength

Subdomain SL2' of hepatitis C virus domain 3'X
MWexperimental 40 kDa
MWexpected 36 kDa
log I(s) 1.40×10-1 1.40×10-2 1.40×10-3 1.40×10-4
Subdomain SL2' of hepatitis C virus domain 3'X small angle scattering data  s, nm-1
ln I(s)
Subdomain SL2' of hepatitis C virus domain 3'X Guinier plot ln 1.40×10-1 Rg: 4.1 nm 0 (4.1 nm)-2 s2
(sRg)2I(s)/I(0)
Subdomain SL2' of hepatitis C virus domain 3'X Kratky plot 1.104 0 3 sRg
p(r)
Subdomain SL2' of hepatitis C virus domain 3'X pair distance distribution function Rg: 4.4 nm 0 Dmax: 16.9 nm

Data validation


Fits and models


log I(s)
 s, nm-1
Subdomain SL2' of hepatitis C virus domain 3'X DAMMIN model

Synchrotron SAXS data from solutions of Subdomain SL2' of hepatitis C virus RNA domain 3'X at higher ionic strength in 10mM Tris 0,1mM EDTA 2mM MgCl2, 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 0.5 and 2 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.

Subdomain SL2' of hepatitis C virus domain 3'X (SL2')
Mol. type   RNA
Organism   Hepatitis C virus
Olig. state   Dimer
Mon. MW   17.8 kDa
Sequence   FASTA