Abstract
The SARS-CoV-2 RNA-dependent RNA polymerase (RdRp) is essential for virus replication, therefore it is a promising drug target. Here we present a surface plasmon resonance approach to study the interaction of RdRp with drugs in real time. We monitored the effect of favipiravir, ribavirin, sofosbuvir triphosphate PSI-7409 and suramin on RdRp binding to RNA immobilized on the chip. Suramin precluded interaction of RdRp with RNA and even displaced RdRp from RNA.
Highlights
The SARS-CoV-2 pandemic has changed the world as we know it
A biotinylated, 15 nt oligonucleotide (5’CGCTCGAGTAGTAAC-Bio-3’) with 30 response units (RU) was immo bilized on the surface of flow cells (Fc) 1 and 2 of the SA chip (Fornelos et al, 2015)
We observed that fewer response units of RNA-dependent RNA polymerase (RdRp) associated with RNA over the course of the experiment, as the maximum response of RdRp binding to RNA decreased by approxi mately 20 RU per 60 min
Summary
The SARS-CoV-2 pandemic has changed the world as we know it. With no less than 140 million people infected and over 3 million deaths, it has become a focal point for researchers around the world looking into the nature of the virus and, more importantly, the cure. Annealed RNA at a concentration of 2 μM, was injected over Fc2 (flow rate 5 μL/min, association time 200 s) to 45 RU. To assay the interaction of SARS-CoV-2 RdRp (nsp12-nsp7-nsp8 complex, BPS Bioscience #100839) with RNA immobilized on the chip, we performed the single cycle kinetics experiment.
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