Elucidating the Role of Microprocessor Protein DGCR8 in Bending RNA Structures

Pabit S, Chen Y, Usher E, Cook E, Pollack L, Showalter S, Biophysical Journal (2020) DOI

SASDJV7 – pri-miR16-1 primary microRNA

primary microRNA pri-miR16-1
MWexperimental 36 kDa
MWexpected 36 kDa
VPorod 74 nm3
log I(s) 9.15×10-2 9.15×10-3 9.15×10-4 9.15×10-5
primary microRNA pri-miR16-1 small angle scattering data  s, nm-1
ln I(s)
primary microRNA pri-miR16-1 Guinier plot ln 9.15×10-2 Rg: 4.4 nm 0 (4.4 nm)-2 s2
(sRg)2I(s)/I(0)
primary microRNA pri-miR16-1 Kratky plot 1.104 0 √3 sRg
p(r)
primary microRNA pri-miR16-1 pair distance distribution function Rg: 4.9 nm 0 Dmax: 17.2 nm

Data validation

Fits and models

log I(s)
 s, nm-1
primary microRNA pri-miR16-1 DAMMIF model
primary microRNA pri-miR16-1 DAMFILT model
Synchrotron SAXS data from solutions of pri-miR16-1 primary microRNA in 50 mM KCl, 50 mM HEPES, 5 mM DTT, 1% glycerol, pH 7.5 were collected on the G1 beam line at the Cornell High Energy Synchrotron Source (CHESS; Ithaca, NY, USA) using a Pilatus 100k detector at a sample-detector distance of 1.5 m and at a wavelength of λ = 0.125 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). One solute concentration of 0.43 mg/ml was measured at 23°C. 20 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.

The bead models displayed in this entry show an individual reconstructed model (top) and associated individual model fit to the data and the volume-corrected and bead-occupancy representation obtained from the spatial alignment of several individual model reconstructions (DAMFILT; bottom).

primary microRNA pri-miR16-1 (pri-miR16-1)
Mol. type   RNA
Organism   Homo sapiens
Olig. state   Monomer
Mon. MW   36.2 kDa
Sequence   FASTA