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Incorporation and Utility of a Responsive Ribonucleoside Analogue in Probing the Conformation of a Viral RNA Motif by Fluorescence and 19F NMR Spectroscopy

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dc.contributor.author MANNA, SUDESHNA en_US
dc.contributor.author SONTAKKE, VYANKAT A. en_US
dc.contributor.author SRIVATSAN, SEERGAZHI G. en_US
dc.date.accessioned 2021-12-10T06:33:55Z
dc.date.available 2021-12-10T06:33:55Z
dc.date.issued 2022-02 en_US
dc.identifier.citation ChemBioChem, 23(3), e202100601. en_US
dc.identifier.issn 1439-7633 en_US
dc.identifier.uri http://dr.iiserpune.ac.in:8080/xmlui/handle/123456789/6442
dc.identifier.uri https://doi.org/10.1002/cbic.202100601 en_US
dc.description.abstract Development of versatile probes that can enable the study of different conformations and recognition properties of therapeutic nucleic acid motifs by complementing biophysical techniques can greatly aid nucleic acid analysis and therapy. Here, we report the design, synthesis and incorporation of an environment-sensitive ribonucleoside analogue, which serves as a two-channel biophysical platform to investigate RNA structure and recognition by fluorescence and 19F NMR spectroscopy techniques. The nucleoside analogue is based on a 5-fluorobenzofuran-uracil core and its fluorescence and 19F NMR chemical shifts are highly sensitive to changes in solvent polarity and viscosity. Notably, the modified ribonucleotide and phosphoramidite substrates can be efficiently incorporated into RNA oligonucleotides (ONs) by in vitro transcription and standard solid-phase ON synthesis protocol, respectively. Fluorescence and 19F readouts of the nucleoside incorporated into model RNA ONs are sensitive to the neighbouring base environment. The responsiveness of the probe was aptly utilized in detecting and quantifying the metal ion-induced conformational change in an internal ribosome entry site RNA motif of hepatitis C virus, which is an important therapeutic target. Taken together, our probe is a good addition to the nucleic acid analysis toolbox with the advantage that it can be used to study nucleic acid conformation and recognition simultaneously by two biophysical techniques. en_US
dc.language.iso en en_US
dc.publisher Wiley en_US
dc.subject Chemistry en_US
dc.subject 2021-DEC-WEEK2 en_US
dc.subject TOC-DEC-2021 en_US
dc.subject 2022 en_US
dc.title Incorporation and Utility of a Responsive Ribonucleoside Analogue in Probing the Conformation of a Viral RNA Motif by Fluorescence and 19F NMR Spectroscopy en_US
dc.type Article en_US
dc.contributor.department Dept. of Chemistry en_US
dc.identifier.sourcetitle ChemBioChem en_US
dc.publication.originofpublisher Foreign en_US


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