Structural Dynamics of Dengue Virus UTRs and Their Cyclization.

Robinson ZE, Pereira HS, D'Souza MH, Patel TR, Biophys J (2025) Europe PMC

SASDXE3 – Dengue Virus 2 (DENV2) complex 5'-3'

DENV2 complex 5'-3'
MWexperimental 210 kDa
MWexpected 217 kDa
VPorod 320 nm3
log I(s) 1.66×10-2 1.66×10-3 1.66×10-4 1.66×10-5
DENV2 complex 5'-3' small angle scattering data  s, nm-1
ln I(s)
DENV2 complex 5'-3' Guinier plot ln 1.67×10-2 Rg: 7.5 nm 0 (7.5 nm)-2 s2
(sRg)2I(s)/I(0)
DENV2 complex 5'-3' Kratky plot 1.104 0 √3 sRg
p(r)
DENV2 complex 5'-3' pair distance distribution function Rg: 7.5 nm 0 Dmax: 22.0 nm

Data validation

Fits and models

log I(s)
 s, nm-1
DENV2 complex 5'-3' DAMMIN model
log I(s)
 s, nm-1
DENV2 complex 5'-3' DAMMIN model
log I(s)
 s, nm-1
DENV2 complex 5'-3' DAMMIN model
Synchrotron SAXS data from solutions of Dengue Virus 2 (DENV2) complex 5'-3' in 10 mM Bis-Tris, 100 mM NaCl, 5 mM MgCl2, 15 mM KCl, 5% glycerol, pH 6 were collected on the B21 beam line at the Diamond Light Source storage ring (Didcot, UK) using a Eiger 4M detector at a sample-detector distance of 3.7 m and at a wavelength of λ = 0.094 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). In-line size-exclusion chromatography (SEC) SAS was employed. The SEC parameters were as follows: A 60.00 μl sample at 0.7 mg/ml was injected at a 0.16 ml/min flow rate onto a column at 25°C. 600 successive 3 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.

SEC column = UNKNOWN

DENV2 complex 5'-3'
Mol. type   RNA
Olig. state   Monomer
Mon. MW   217.0 kDa
Sequence   FASTA