Probing the conformational changes of in vivo overexpressed cell cycle regulator 6S ncRNA

Makraki E, Miliara S, Pagkalos M, Kokkinidis M, Mylonas E, Fadouloglou V, Frontiers in Molecular Biosciences 10 (2023) DOI

SASDQR4 – Escherichia coli 6S RNA

6S RNA (SsrS gene)
MWI(0) 63 kDa
MWexpected 59 kDa
VPorod 175 nm3
log I(s) 2.48×10-2 2.48×10-3 2.48×10-4 2.48×10-5
6S RNA (SsrS gene) small angle scattering data  s, nm-1
ln I(s)
6S RNA (SsrS gene) Guinier plot ln 2.49×10-2 Rg: 6.1 nm 0 (6.1 nm)-2 s2
(sRg)2I(s)/I(0)
6S RNA (SsrS gene) Kratky plot 1.104 0 √3 sRg
p(r)
6S RNA (SsrS gene) pair distance distribution function Rg: 6.5 nm 0 Dmax: 24 nm

Data validation

Fits and models

log I(s)
 s, nm-1
Escherichia coli 6S RNA Rg histogram Rg, nm
6S RNA (SsrS gene) EOM/RANCH model
Synchrotron SAXS data from solutions of Escherichia coli 6S RNA in 20 mM Tris-HCl, 200 mM KCl, 5 mM MgCl2, pH 8 were collected on the SWING beam line at SOLEIL (Saint-Aubin, France) using a AVIEX PCCD170170 detector at a sample-detector distance of 3.1 m and at a wavelength of λ = 0.1033 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). Solute concentrations ranging between 0.2 and 8 mg/ml were measured at 15°C. The data were normalized to the intensity of the transmitted beam and radially averaged; the scattering of the solvent-blank was subtracted. The low angle data collected at lower concentration were merged with the highest concentration high angle data to yield the final composite scattering curve.

X-ray Exposure time = UNKNOWN. Number of frames = UNKNOWN

6S RNA (SsrS gene)
Mol. type   RNA
Organism   Escherichia coli
Olig. state   Monomer
Mon. MW   58.9 kDa
Sequence   FASTA