Structure of the HIV-1 Gag polyprotein in solution.

Shtykova EV, Petoukhov MV Dadinova LA, Denieva ZG, Batishchev OV, J Struct Biol 218(4):108372 (2026) Europe PMC

SASD2E6 – Human immunodeficiency virus type 1 (HIV-1) Gag Polyprotein at 2 mg/ml

Gag polyprotein
MWexperimental 50 kDa
MWexpected 50 kDa
VPorod 64 nm3
log I(s) 1.94×10-3 1.94×10-4 1.94×10-5 1.94×10-6
Gag polyprotein small angle scattering data  s, nm-1
ln I(s)
Gag polyprotein Guinier plot ln 1.94×10-3 Rg: 4.1 nm 0 (4.1 nm)-2 s2
(sRg)2I(s)/I(0)
Gag polyprotein Kratky plot 1.104 0 √3 sRg
p(r)
Gag polyprotein pair distance distribution function Rg: 4.5 nm 0 Dmax: 16 nm

Data validation

Fits and models

log I(s)
 s, nm-1
Human immunodeficiency virus type 1 (HIV-1) Gag Polyprotein at 2 mg/ml Rg histogram Rg, nm
Gag polyprotein EOM/RANCH model
Gag polyprotein EOM/RANCH model
Gag polyprotein EOM/RANCH model
log I(s)
 s, nm-1
Gag polyprotein DAMMIN model
log I(s)
 s, nm-1
Gag polyprotein CORAL model
Synchrotron SAXS data from solutions of Human immunodeficiency virus type 1 (HIV-1) Gag Polyprotein at 2 mg/ml in 20 mM Tris, 500 mM NaCl, 1 mM phenylmethylsulfonyl fluoride, 10 mM beta-mercaproethanol, 1 µM ZnCl2, pH 7.4 were collected on the EMBL P12 beam line at the PETRA III storage ring (DESY; Hamburg, Germany) using a Pilatus 2M detector at a sample-detector distance of 3 m and at a wavelength of λ = 0.123983 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). One solute concentration of 2.00 mg/ml was measured at 10°C. 20 successive 0.045 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.

Gag polyprotein
Mol. type   Protein
Organism   Human immunodeficiency virus type 1 group M subtype B (isolate HXB2)
Olig. state   Monomer
Mon. MW   50.0 kDa
 
UniProt   P04591
Sequence   FASTA