The structural plasticity of nucleic acid duplexes revealed by WAXS and MD.

He W, Chen YL, Pollack L, Kirmizialtin S, Sci Adv 7(17) (2021) Europe PMC

SASDKF2 – Mixed-sequence DNA dimer (25 base pair DNA)

Mixed-sequence 25 base-paired DNA
MWexperimental 15 kDa
MWexpected 16 kDa
VPorod 17 nm3
log I(s) 1.20×101 1.20×100 1.20×10-1 1.20×10-2
Mixed-sequence 25 base-paired DNA small angle scattering data  s, nm-1
ln I(s)
Mixed-sequence 25 base-paired DNA Guinier plot ln 1.21×101 Rg: 2.0 nm 0 (2.0 nm)-2 s2
(sRg)2I(s)/I(0)
Mixed-sequence 25 base-paired DNA Kratky plot 1.104 0 √3 sRg
p(r)
Mixed-sequence 25 base-paired DNA pair distance distribution function Rg: 2.2 nm 0 Dmax: 7.8 nm

Data validation

There are no models related to this curve.

Synchrotron SAXS data from solutions of Mixed-sequence DNA dimer (25 base pair DNA) in 1.0 mM MgCl2, 10 mM Na-MOPS and 20uM EDTA, pH 7 were collected on the 16-ID (LiX) beam line at the National Synchrotron Light Source II (NSLS-II) storage ring (Upton, NY, USA) using a Pilatus3 S 1M detector at a sample-detector distance of 3.0 m and at a wavelength of λ = 0.092 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). One solute concentration of 3.00 mg/ml was measured at 10°C. Five 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.

Mixed-sequence 25 base-paired DNA (MixDNA)
Mol. type   DNA
Olig. state   Dimer
Mon. MW   7.8 kDa
Sequence   FASTA