Prothrombin recognition and conformational modulation by anti-thrombin anticoagulant aptamers.

Troisi R Cangiano A, Cowieson N, Spiridonova V, Pozzi N, Del Vecchio P, Paduano L, Sica F, Mol Ther (2026) Europe PMC

SASDYM2 – Human prothrombin complex with the oligonucleotide aptamer NU172

Human prothrombin
NU172
MWexperimental 78 kDa
MWexpected 80 kDa
VPorod 124 nm3
log I(s) 4.67×10-2 4.67×10-3 4.67×10-4 4.67×10-5
Human prothrombin NU172 small angle scattering data  s, nm-1
ln I(s)
Human prothrombin NU172 Guinier plot ln 4.68×10-2 Rg: 3.9 nm 0 (3.9 nm)-2 s2
(sRg)2I(s)/I(0)
Human prothrombin NU172 Kratky plot 1.104 0 √3 sRg
p(r)
Human prothrombin NU172 pair distance distribution function Rg: 3.8 nm 0 Dmax: 13.8 nm

Data validation

Fits and models

log I(s)
 s, nm-1
Human prothrombin NU172 MULTIFOXS model
Synchrotron SAXS data from solutions of Human prothrombin complex with the oligonucleotide aptamer NU172 in 10 mM Tris-HCl, 137 mM NaCl, 2.7 mM KCl, 5 mM CaCl2, 1% v/v glycerol,, pH 7.4 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 = 0.095 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). One solute concentration of 0.22 mg/ml was measured at 20°C. 21 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.

Human prothrombin
Mol. type   Protein
Organism   Homo sapiens
Olig. state   Monomer
Mon. MW   72 kDa
 
UniProt   P00734 (44-622)
Sequence   FASTA
 
NU172
Mol. type   DNA
Olig. state   Monomer
Mon. MW   8.2 kDa
Sequence   FASTA
 
PDB ID   6EVV