Visualizing disordered single-stranded RNA: connecting sequence, structure and electrostatics.

Plumridge A, Andresen K, Pollack L, J Am Chem Soc (2019) Europe PMC

SASDFK9 – Poly-uridine rU30 in 100 mM NaCl

Poly-uridine
MWexperimental 17 kDa
MWexpected 9 kDa
VPorod 22 nm3
log I(s) 2.98×101 2.98×100 2.98×10-1 2.98×10-2
Poly-uridine small angle scattering data  s, nm-1
ln I(s)
Poly-uridine Guinier plot ln 2.99×101 Rg: 2.7 nm 0 (2.7 nm)-2 s2
(sRg)2I(s)/I(0)
Poly-uridine Kratky plot 1.104 0 √3 sRg
p(r)
Poly-uridine pair distance distribution function Rg: 3.0 nm 0 Dmax: 12.7 nm

Data validation

Fits and models

log I(s)
 s, nm-1
Poly-uridine CUSTOM IN-HOUSE model
Poly-uridine CUSTOM IN-HOUSE model
Poly-uridine CUSTOM IN-HOUSE model
Poly-uridine CUSTOM IN-HOUSE model
Poly-uridine CUSTOM IN-HOUSE model
Poly-uridine CUSTOM IN-HOUSE model
Poly-uridine CUSTOM IN-HOUSE model
Poly-uridine CUSTOM IN-HOUSE model
Poly-uridine CUSTOM IN-HOUSE model
Poly-uridine CUSTOM IN-HOUSE model
Poly-uridine CUSTOM IN-HOUSE model
Poly-uridine CUSTOM IN-HOUSE model
Poly-uridine CUSTOM IN-HOUSE model
Poly-uridine CUSTOM IN-HOUSE model
Poly-uridine CUSTOM IN-HOUSE model
Poly-uridine CUSTOM IN-HOUSE model
Poly-uridine CUSTOM IN-HOUSE model
Poly-uridine CUSTOM IN-HOUSE model
Poly-uridine CUSTOM IN-HOUSE model
Poly-uridine CUSTOM IN-HOUSE model
Synchrotron SAXS data from solutions of rU30 in 1 mM Na-MOPS, 100 mM NaCl, 20 µM EDTA, pH 7 were collected on the G1 beam line at the Cornell High Energy Synchrotron Source (CHESS) storage ring (Ithaca, NY, USA) using a Finger Lakes CCD detector at a sample-detector distance of 2.0 m and at a wavelength of λ = 0.11 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). Solute concentrations ranging between 0.4 and 1.2 mg/ml were measured at 25°C. 30 successive 10 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 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.

Poly-uridine (rU30)
Mol. type   RNA
Olig. state   Monomer
Mon. MW   9.2 kDa
Sequence   FASTA