The impact of base stacking on the conformations and electrostatics of single-stranded DNA.

Plumridge A, Meisburger SP, Andresen K, Pollack L, Nucleic Acids Res 45(7):3932-3943 (2017) PubMed

SASDB49 – Single stranded poly-deoxythymidine DNA (30mer, dT30) in 200 mM NaCl

Poly-deoxythymidine (30mer)
MWexperimental 9 kDa
MWexpected 9 kDa
log I(s) 5.30×101 5.30×100 5.30×10-1 5.30×10-2
Poly-deoxythymidine (30mer) small angle scattering data  s, nm-1
ln I(s)
Poly-deoxythymidine (30mer) Guinier plot ln 5.30×101 Rg: 2.7 nm 0 (2.7 nm)-2 s2
(sRg)2I(s)/I(0)
Poly-deoxythymidine (30mer) Kratky plot 1.104 0 3 sRg

Data validation


Fits and models


log I(s)
 s, nm-1
Poly-deoxythymidine (30mer) CUSTOM IN-HOUSE model
Poly-deoxythymidine (30mer) CUSTOM IN-HOUSE model
Poly-deoxythymidine (30mer) CUSTOM IN-HOUSE model
Poly-deoxythymidine (30mer) CUSTOM IN-HOUSE model
Poly-deoxythymidine (30mer) CUSTOM IN-HOUSE model
Poly-deoxythymidine (30mer) CUSTOM IN-HOUSE model
Poly-deoxythymidine (30mer) CUSTOM IN-HOUSE model
Poly-deoxythymidine (30mer) CUSTOM IN-HOUSE model
Poly-deoxythymidine (30mer) CUSTOM IN-HOUSE model
Poly-deoxythymidine (30mer) CUSTOM IN-HOUSE model
Poly-deoxythymidine (30mer) CUSTOM IN-HOUSE model
Poly-deoxythymidine (30mer) CUSTOM IN-HOUSE model
Poly-deoxythymidine (30mer) CUSTOM IN-HOUSE model
Poly-deoxythymidine (30mer) CUSTOM IN-HOUSE model
Poly-deoxythymidine (30mer) CUSTOM IN-HOUSE model
Poly-deoxythymidine (30mer) CUSTOM IN-HOUSE model
Poly-deoxythymidine (30mer) CUSTOM IN-HOUSE model
Poly-deoxythymidine (30mer) CUSTOM IN-HOUSE model
Poly-deoxythymidine (30mer) CUSTOM IN-HOUSE model
Poly-deoxythymidine (30mer) CUSTOM IN-HOUSE model

Synchrotron SAXS data from solutions of single stranded poly-deoxythymidine DNA (30mer, dT30) in 200 mM NaCl in 1mM Na MOPS, 200mM NaCl, pH 7 were collected on the G1 beam line at the Cornell High Energy Synchrotron Source (CHESS, Ithaca, NY, USA) using a CCD Finger Lakes CCD detector at a sample-detector distance of 1.8 m and at a wavelength of λ = 0.1 nm (I(s) vs s, where s = 4π sin θ/λ and 2θ is the scattering angle). Solute concentrations ranging between 0.5 and 1.8 mg/ml were measured at 22°C. 20 successive 10 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 and the different curves were scaled for solute concentration. The low angle data collected at lower concentrations were extrapolated to infinite dilution and merged with the higher concentration data to yield the final composite scattering curve.

Poly-deoxythymidine (30mer) (dT30)
Mol. type   DNA
Olig. state   Monomer
Mon. MW   9.1 kDa
Sequence   FASTA