Structural analysis of the SRP Alu domain from Plasmodium falciparum reveals a non-canonical open conformation.

Soni K, Kempf G, Manalastas-Cantos K, Hendricks A, Flemming D, Guizetti J, Simon B, Frischknecht F, Svergun DI, Wild K, Sinning I, Commun Biol 4(1):600 (2021) Europe PMC

SASDK44 – The 5' domain of SRP Alu RNA from Plasmodium falciparum

SRP Alu RNA 5' domain
MWexperimental 27 kDa
MWexpected 24 kDa
VPorod 38 nm3
log I(s) 9.42×101 9.42×100 9.42×10-1 9.42×10-2
SRP Alu RNA 5' domain small angle scattering data  s, nm-1
ln I(s)
SRP Alu RNA 5' domain Guinier plot ln 9.42×101 Rg: 3.3 nm 0 (3.3 nm)-2 s2
SRP Alu RNA 5' domain Kratky plot 1.104 0 3 sRg
SRP Alu RNA 5' domain pair distance distribution function Rg: 3.4 nm 0 Dmax: 11.5 nm

Data validation

Fits and models

log I(s)
 s, nm-1
SRP Alu RNA 5' domain DAMMIN model

Synchrotron SAXS data from solutions of the 5' domain of SRP Alu RNA in 20 mM HEPES pH 7.5, 150 mM NaCl, 10 mM MgCl2, 10 mM KCl, pH 7.5 were collected on the BM29 beam line at the ESRF (Grenoble, France) using a Pilatus 1M detector at a wavelength of λ = 0.099 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). One solute concentration of 0.45 mg/ml was measured at 20°C. 20 successive 0.500 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.

SRP Alu RNA 5' domain
Mol. type   RNA
Organism   Plasmodium falciparum
Olig. state   Monomer
Mon. MW   24.4 kDa
Sequence   FASTA