Journal
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
Volume 60, Issue 2, Pages 865-872Publisher
WILEY-V C H VERLAG GMBH
DOI: 10.1002/anie.202007184
Keywords
aptamers; 2′ -deoxyguanosine riboswitch; HeLa cells; RNA structures; structural biology
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Funding
- Czech Science Foundation [19-26041X]
- project SYMBIT - European Regional Development Fund [CZ.02.1.01/0.0/0.0/15_003/0000477]
- Ministry of Education, Youth, and Sports of the Czech Republic (MEYS CR)
- MEYS CR [LQ1601, LM2015062, LM2015064, LM2015043]
- DFG [CRC902]
- iNEXT-discovery European access programme [871037]
- state of Hesse (BMRZ)
- Projekt DEAL
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This study reports the in-cell NMR-spectroscopic observation of the binding of the bacterial riboswitch ligand with the aptamer domain in eukaryotic cells, demonstrating the maintenance of binding mode in eukaryotic cellular environment. Additionally, the study shows that the in-cell NMR setup can be used for characterization of large, non-modified RNA molecules in cells.
We report here the in-cell NMR-spectroscopic observation of the binding of the cognate ligand 2 '-deoxyguanosine to the aptamer domain of the bacterial 2 '-deoxyguanosine-sensing riboswitch in eukaryotic cells, namely Xenopus laevis oocytes and in human HeLa cells. The riboswitch is sufficiently stable in both cell types to allow for detection of binding of the ligand to the riboswitch. Most importantly, we show that the binding mode established by in vitro characterization of this prokaryotic riboswitch is maintained in eukaryotic cellular environment. Our data also bring important methodological insights: Thus far, in-cell NMR studies on RNA in mammalian cells have been limited to investigations of short (<15 nt) RNA fragments that were extensively modified by protecting groups to limit their degradation in the intracellular space. Here, we show that the in-cell NMR setup can be adjusted for characterization of much larger (approximate to 70 nt) functional and chemically non-modified RNA.
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