Interpreting wide-angle X-ray scattering data using DNA duplexes as model systems.

Hu Q Amirbekian V, Uttormark S, Higinbotham HR, Pollack L, IUCrJ 13(Pt 5):650-658 (2026) Europe PMC

SASDYK9 – SWAXS from Mix DNA duplex (25 base pair)

Mix-sequence 25 base-paired DNA
MWexperimental 15 kDa
MWexpected 16 kDa
log I(s) 2.60×10-2 2.60×10-3 2.60×10-4 2.60×10-5
Mix-sequence 25 base-paired DNA small angle scattering data  s, nm-1
ln I(s)
Mix-sequence 25 base-paired DNA Guinier plot ln 2.61×10-2 Rg: 2.3 nm 0 (2.3 nm)-2 s2
(sRg)2I(s)/I(0)
Mix-sequence 25 base-paired DNA Kratky plot 1.104 0 √3 sRg
p(r)
Mix-sequence 25 base-paired DNA pair distance distribution function Rg: 2.5 nm 0 Dmax: 8.7 nm

Data validation

There are no models related to this curve.

Synchrotron SAXS data from solutions of SWAXS from Mix DNA duplex (25 base pair) in 10 mM MOPS, 100 mM KCl, 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 Eiger 4M detector at a sample-detector distance of 0.0 m and at a wavelength of λ = 0.1095 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). Solute concentrations ranging between 10 and 10 mg/ml were measured at 25°C. 100 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 low angle data collected at lower concentration were merged with the highest concentration high angle data to yield the final composite scattering curve.

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