Small angle X-ray scattering analysis of ligand-bound forms of tetrameric apolipoprotein-D

Kielkopf C, Whitten A, Garner B, Brown S, Bioscience Reports 41(1) (2021) DOI

SASDHM5 – Apolipoprotein-D plus progesterone

Apolipoprotein D
MWexperimental 96 kDa
MWexpected 77 kDa
VPorod 161 nm3
log I(s) 4.50×10-2 4.50×10-3 4.50×10-4 4.50×10-5
Apolipoprotein D small angle scattering data  s, nm-1
ln I(s)
Apolipoprotein D Guinier plot ln 4.50×10-2 Rg: 3.3 nm 0 (3.3 nm)-2 s2
(sRg)2I(s)/I(0)
Apolipoprotein D Kratky plot 1.104 0 3 sRg
p(r)
Apolipoprotein D pair distance distribution function Rg: 3.3 nm 0 Dmax: 10 nm

Data validation


There are no models related to this curve.

Synchrotron SAXS data from solutions of Apolipoprotein-D plus progesterone in 50 mM Na Phosphate, 150 mM NaCl, 3% glycerol, pH 7.4 were collected on the SAXS/WAXS beam line at the Australian Synchrotron (Melbourne, Australia) using a Pilatus 1M detector at a wavelength of λ = 0.10322 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). In-line size-exclusion chromatography co-flow (SEC) SAS was employed. The SEC parameters were as follows: A 100.00 μl sample at 8.4 mg/ml was injected at a 0.45 ml/min flow rate onto a GE Superdex 200 Increase 5/150 column . 498 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.

Apolipoprotein-D (4.345 µM) was incubated with progesterone dissolved in dimethylformamide at 10x molar excess. The sample was inverted immediately after adding progesterone to prevent progesterone precipitation and incubated 1 h at 22°C while gently inverting. The sample was buffer exchanged to fresh SAXS-buffer to remove unbound progesterone, spin-concentrated using an Amicon Ultra concentrator with an Ultracel-10 membrane and frozen at −80°C. 100 µl of concentrated sample (8.435 mg/ml) was applied to the SEC column.

Apolipoprotein D (ApoD)
Mol. type   Protein
Organism   Homo sapiens
Olig. state   Tetramer
Mon. MW   19.3 kDa
 
UniProt   P05090 (21-189)
Sequence   FASTA