Binding structures of SERF1a with NT17-polyQ peptides of huntingtin exon 1 revealed by SEC-SWAXS, NMR and molecular simulation.

Lin TC, Shih O, Tsai TY, Yeh YQ, Liao KF, Mansel BW, Shiu YJ, Chang CF, Su AC, Chen YR, Jeng US, IUCrJ (2024) Europe PMC

SASDVR5 – Small EDRK-rich factor 1 (SERF1a) bound to NT17 peptide

Isoform Short of Small EDRK-rich factor 1
NT17
MWexperimental 5 kDa
MWexpected 11 kDa
log I(s) 3.94×10-3 3.94×10-4 3.94×10-5 3.94×10-6
Isoform Short of Small EDRK-rich factor 1 NT17 small angle scattering data  s, nm-1
ln I(s)
Isoform Short of Small EDRK-rich factor 1 NT17 Guinier plot ln 3.94×10-3 Rg: 2.3 nm 0 (2.3 nm)-2 s2
(sRg)2I(s)/I(0)
Isoform Short of Small EDRK-rich factor 1 NT17 Kratky plot 1.104 0 3 sRg

Data validation


Fits and models


log I(s)
 s, nm-1
Isoform Short of Small EDRK-rich factor 1 NT17 ROSETTA model

Synchrotron SAXS data from solutions of small EDRK-rich factor 1 (SERF1a) bound to NT17 peptide in sodium phosphate buffer, pH 7.4 were collected on the TPS13A beam line at the NSRRC (Hsinchu, Taiwan) using a Eiger X 1M & 9M detector at a sample-detector distance of 2.5 m and at a wavelength of λ = 0.08265 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). Solute concentrations ranging between 0.2 and 0.4 mg/ml were measured at 10°C. Six successive 2 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.

The sodium phosphate buffer solution contains 480 μL of 10 mM PB, pH 7.4, 16.5 μL of 100 mM NaOH, and 10 μL of 1% trifluoroacetic acid (TFA). CAUTION: Molecular weight estimates, Porod volume and Dmax cannot be extracted/validated from the SAXS data. CAUTION: Severe steric clashes noted in the model.

Isoform Short of Small EDRK-rich factor 1
Mol. type   Protein
Organism   Homo sapiens
Olig. state   Monomer
Mon. MW   7.3 kDa
 
UniProt   O75920-2 (1-62)
Sequence   FASTA
 
NT17
Mol. type   Protein
Organism   synthetic construct
Olig. state   Dimer
Mon. MW   2.0 kDa
Sequence   FASTA