Biopolym. Cell. 2026; 42(Special Issue):10.
Nucleic acid–based therapeutics and delivery technologies
Interaction of the IFN–IFNAR1 complex with ribonucleotides and D-mannitol: prospects for the development of next-generation interferon-based therapeutics
- Institute of Molecular Biology and Genetics, NAS of Ukraine
150, Akademika Zabolotnoho Str., Kyiv, Ukraine, 03143
Abstract
Aim. To elucidate the molecular mechanisms underlying the interaction of the IFN α-2b–IFNAR1 complex with ribonucleotides and D-mannitol to inform the development of next-generation interferon-based drugs. Methods. Fluorescence quenching experiments were performed using a Jasco FP-8200 spectrofluorimeter. Binding affinities (Kd) were calculated using the Stern–Volmer, Scatchard, Klotz, and Hill models. Molecular docking was performed with AutoDock Vina using AlphaFold-derived structures. Results. Free ribonucleotides (AMP, UMP and total oligoribonucleotide mix (ORNs)) showed the highest affinity for the heterodimeric IFN–IFNAR1 complex, with dissociation constants in the submicromolar range (Kd 0.14-0.56 µM). The highest affinity was observed for AMP in the complex with D-mannitol (Kd = 0.14 µM according to the Hill model). Converting ribonucleotides from the free acid to the disodium form led to a significant (3–10-fold) decrease in affinity. D-mannitol exhibited a clear, selective positive effect: it significantly enhanced the binding of AMP, UMP and ORNs, reducing Kd to up to 30% of the initial value, and this effect was most pronounced in the functional heterodimeric IFN–IFNAR1 complex. For isolated proteins (IFN α-2b and IFNAR1), the modulatory effect of mannitol was much weaker. Molecular docking confirmed the experimental data and revealed that GMP+D-mannitol forms the most stable complex with the IFN–IFNAR1 heterodimer (ΔG dock = –9.4 kcal/mol). Analysis of intermolecular contacts revealed an extensive network of hydrogen bonds and the participation of D-mannitol as a “bridging� modulator that stabilises the conformation of the binding site. We found significant differences in the GMP+D-mannitol binding profiles between individual proteins and their complex, indicating allosteric effects in the formation of a functional receptor heterodimer. Conclusions. The data demonstrate that free ribonucleotides and their D-mannitol complexes can serve as effective low-molecular-weight modulators of the interferon system. These findings provide a foundation for the development of next-generation interferon therapeutics with improved stability, enhanced receptor affinity, and potentially superior therapeutic efficacy. Grants. IMBG Simons Foundation Grant for Ukrainian institutions № SFI-PD-Ukraine-00017453.
Keywords: interferon α-2b, IFNAR1, ribonucleotides, D-mannitol, allosteric modulation, fluorescence spectroscopy, molecular docking, next-generation therapeutics
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