Contrasting DNA-binding behaviour by ISL1 and LHX3 underpins differential gene targeting in neuronal cell specification

Smith N, Wilkinson-White L, Kwan A, Trewhella J, Matthews J, Journal of Structural Biology: X :100043 (2020) DOI

SASDJK9 – M100 DNA oligonucleotide

M100 oligonucleotide
MWI(0) 19 kDa
MWexpected 12 kDa
VPorod 15 nm3
log I(s) 2.35×10-2 2.35×10-3 2.35×10-4 2.35×10-5
M100 oligonucleotide small angle scattering data  s, nm-1
ln I(s)
M100 oligonucleotide Guinier plot ln 2.36×10-2 Rg: 1.9 nm 0 (1.9 nm)-2 s2
(sRg)2I(s)/I(0)
M100 oligonucleotide Kratky plot 1.104 0 √3 sRg
p(r)
M100 oligonucleotide pair distance distribution function Rg: 2 nm 0 Dmax: 6.8 nm

Data validation

Fits and models

log I(s)
 s, nm-1
M100 oligonucleotide MONSA model
log I(s)
 s, nm-1
M100 oligonucleotide DAMMIN model
Synchrotron SAXS data from solutions of M100 oligonucleotide in 20 mM sodium phosphate buffer, 100 mM NaCl, 1 mM DTT, pH 7.4 were collected on the SAXS/WAXS beam line at the Australian Synchrotron (Melbourne, Australia) using a Pilatus 1M detector at a sample-detector distance of 0.9 m and at a wavelength of λ = 0.108 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). One solute concentration of 0.75 mg/ml was measured at 27°C. 32 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.

Storage temperature = UNKNOWN

M100 oligonucleotide (M100)
Mol. type   DNA
Olig. state   Monomer
Mon. MW   12.4 kDa
Sequence   FASTA