Solution structure of NPSL2, a regulatory element in the oncomiR-1 RNA.

Liu Y, Munsayac A, Hall I, Keane SC, J Mol Biol :167688 (2022) Europe PMC

SASDNJ7 – Non-pre-microRNA stem loop 2 (NPSL2)

Non-pre-microRNA stem loop 2
MWexperimental 14 kDa
MWexpected 14 kDa
VPorod 15 nm3
log I(s) 1.11×10-2 1.11×10-3 1.11×10-4 1.11×10-5
Non-pre-microRNA stem loop 2 small angle scattering data  s, nm-1
ln I(s)
Non-pre-microRNA stem loop 2 Guinier plot ln 1.11×10-2 Rg: 2.0 nm 0 (2.0 nm)-2 s2
(sRg)2I(s)/I(0)
Non-pre-microRNA stem loop 2 Kratky plot 1.104 0 3 sRg
p(r)
Non-pre-microRNA stem loop 2 pair distance distribution function Rg: 2.1 nm 0 Dmax: 7.7 nm

Data validation


Fits and models


log I(s)
 s, nm-1
Non-pre-microRNA stem loop 2 PYMOL model

log I(s)
 s, nm-1

Synchrotron SAXS data from solutions of non-pre-microRNA stem loop 2 (NPSL2) in 50 mM potassium phosphate buffer, 1 mM MgCl2, 50 mM NaCl, pH 7.5 were collected on the BioCAT 18ID beam line at the Advanced Photon Source (APS), Argonne National Laboratory (Lemont, IL, USA) using a Pilatus3 X 1M detector at a sample-detector distance of 3.7 m and at a wavelength of λ = 0.103 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 250.00 μl sample at 3.8 mg/ml was injected at a 0.60 ml/min flow rate onto a GE Superdex 75 Increase 10/300 column at 20°C. Nine successive 0.500 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.

Storage temperature = UNKNOWN

Non-pre-microRNA stem loop 2 (NPSL2)
Mol. type   RNA
Organism   Homo sapiens
Olig. state   Monomer
Mon. MW   13.9 kDa
Sequence   FASTA