Solution Structure Determination and Biophysical Studies of 7SK RNP and 7SL SRP RNAs.

D'Souza MH, Pereira HS, Tersteeg S, Vasudeva G, Siddiqui MQ, Agunlejika T, Kerr L, Girodat D, Patel T RNA (2025) Europe PMC

SASDVC9 – 7SK small nuclear RNA State A Low Magnesium Concentration Ensemble

RNA component of 7SK nuclear ribonucleoprotein
MWexperimental 107 kDa
MWexpected 107 kDa
VPorod 600 nm3
log I(s) 5.96×10-2 5.96×10-3 5.96×10-4 5.96×10-5
RNA component of 7SK nuclear ribonucleoprotein small angle scattering data  s, nm-1
ln I(s)
RNA component of 7SK nuclear ribonucleoprotein Guinier plot ln 5.97×10-2 Rg: 8.0 nm 0 (8.0 nm)-2 s2
(sRg)2I(s)/I(0)
RNA component of 7SK nuclear ribonucleoprotein Kratky plot 1.104 0 √3 sRg
p(r)
RNA component of 7SK nuclear ribonucleoprotein pair distance distribution function Rg: 7.7 nm 0 Dmax: 23.2 nm

Data validation

Fits and models

log I(s)
 s, nm-1
RNA component of 7SK nuclear ribonucleoprotein DAMMIN model
log I(s)
 s, nm-1
RNA component of 7SK nuclear ribonucleoprotein DAMMIN model
log I(s)
 s, nm-1
RNA component of 7SK nuclear ribonucleoprotein DAMMIN model
Synchrotron SAXS data from solutions of 7SK small nuclear RNA State A Low Magnesium Concentration Ensemble in 10 mM Bis-Tris, 100 mM NaCl, 15 mM KCl, 5% Glycerol, 3 mM MgCl2, pH 5.5 were collected on the B21 beam line at the Diamond Light Source storage ring (Didcot, UK) using a Eiger 4M detector at a sample-detector distance of 3.7 m and at a wavelength of λ = 0.094 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). In-line size-exclusion chromatography (SEC) SAS was employed. The SEC parameters were as follows: A 60.00 μl sample at 1 mg/ml was injected at a 0.16 ml/min flow rate onto a Shodex KW403-4F column at 20°C. 600 successive 3 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.

RNA component of 7SK nuclear ribonucleoprotein (7SK snRNA)
Mol. type   RNA
Organism   Homo sapiens
Olig. state   Monomer
Mon. MW   106.7 kDa
Sequence   FASTA