Small-angle neutron scattering studies on the AMPA receptor GluA2 in the resting, AMPA-bound and GYKI-53655-bound states.

Larsen AH, Dorosz J, Thorsen TS, Johansen NT, Darwish T, Midtgaard SR, Arleth L, Kastrup JS, IUCrJ 5(Pt 6):780-793 (2018) Europe PMC

SASDDZ5 – AMPA subtype ionotropic Glutamate receptor GluA2 in the AMPA bound state, in stealth DDM detergents, pH 7.5

Glutamate receptor 2
MWexperimental 338 kDa
MWexpected 368 kDa
VPorod 407 nm3
log I(s) 1.10×10-1 1.10×10-2 1.10×10-3 1.10×10-4
Glutamate receptor 2 small angle scattering data  s, nm-1
ln I(s)
Glutamate receptor 2 Guinier plot ln 1.10×10-1 Rg: 6.3 nm 0 (6.3 nm)-2 s2
(sRg)2I(s)/I(0)
Glutamate receptor 2 Kratky plot 1.104 0 3 sRg
p(r)
Glutamate receptor 2 pair distance distribution function Rg: 6.1 nm 0 Dmax: 18.4 nm

Data validation


Fits and models


log I(s)
 s, nm-1

log I(s)
 s, nm-1

log I(s)
 s, nm-1

SANS data from solutions of Glutamate receptor 2 (GluA2) in the AMPA bound state, at neutral pH in D2O based buffer. 1 mM AMPA, 20 mM Tris/DCl, 100 mM NaCl, 0.5 mM deuterated n-dodecyl-β-D-maltopyranoside (synthesized to match out at 100% D2O), pH 7.5 were collected on the KWS1 camera at the FRM2 storage ring (Munich, Germany) using a 6Li-Scintillator 1 mm thickness + photomultiplier detector at a wavelength of λ = 0.5 nm (l(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). One solute concentration of 0.31 mg/ml was measured at 10°C. 15 successive 900 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.

Sample of GluA2 in the AMPA bound state at neutral pH. The SANS data were fitted with a mixture of GluA2 in a tetrameric compact form and a fraction of oligimers of the compact tetramer. Three models fitted equally well (within a 5% significance level): a mixture of GluA2 in the activated state (pdb-code 5weo) and a fraction of oligomers (top fit: fit62.dat), a mixture of GluA2 in the desensitized state (pdb-code 5vhz) and a fraction of oligomers (middle fit: fit63.dat) and a mixture of GluA2 in the resting state (pdb-code 4u2p) and a fraction of oligomers (bottom fit: fit72.dat). The oligomers were described with a fractal structure factor (Teixeira, J. (1988). J. Appl. Crystallogr. 21, 781-785). Data were fitted with WillItFit (Pedersen, M. C., Arleth, L. & Mortensen, K. (2013). J. Appl. Crystallogr. 46, 1894-1898). The SANS data were measured in three settings (sample/collimation): 1.5m/4.m, 4m/4m, and 8m/8m. The attached data are merged into one data set with all three settings. Pair distance distribution functions were calculated with BayesApp (www.bayesapp.org). Due to relatively low protein concentration, the concentration measurement was inaccurate, and the MW was therefore evaluated by (concentration independent) Porod analysis using the Porod volume calculator implemented in PRIMUS, and with a volume-to-mass conversion constant of 0.83 kDa/nm^3 (Gekko, K. & Noguchi, H. (1979). J. Phys. Chem. 83, 2706-2714; Squire, P. G. & Himmel, M. E. (1979). Arch. Biochem. Biophys. 196, 165-177).

Glutamate receptor 2 (GluA2)
Mol. type   Protein
Organism   Rattus norvegicus
Olig. state   Monomer
Mon. MW   367.7 kDa
 
UniProt   P19491
Sequence   FASTA