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Journal Article

Compaction of RNA duplexes in the cell

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von Bülow,  Sören
Department of Theoretical Biophysics, Max Planck Institute of Biophysics, Max Planck Society;

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Stelzl,  Lukas S.
Department of Theoretical Biophysics, Max Planck Institute of Biophysics, Max Planck Society;

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Hummer,  Gerhard
Department of Theoretical Biophysics, Max Planck Institute of Biophysics, Max Planck Society;
Institute for Biophysics, Goethe University Frankfurt, Frankfurt am Main, Germany;

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Citation

Collauto, A., von Bülow, S., Gophane, D., Saha, S., Stelzl, L. S., Hummer, G., et al. (2020). Compaction of RNA duplexes in the cell. Angewandte Chemie, International Edition in English, 59. doi:10.1002/anie.202009800.


Cite as: http://hdl.handle.net/21.11116/0000-0006-E87E-8
Abstract
The structure and flexibility of RNA depend sensitively on the microenvironment. Using pulsed electron-electron double-resonance (PELDOR) spectroscopy combined with advanced labeling techniques, we show that the structure of double-stranded RNA (dsRNA) changes upon internalization into Xenopus laevis oocytes. Compared to dilute solution, the dsRNA A-helix is more compact in cells. We recapitulate this compaction in a densely crowded protein solution. Atomic-resolution molecular dynamics simulations of dsRNA capture semi-quantitatively the compaction, and identify non-specific electrostatic interactions between proteins and dsRNA as a possible driver of this effect.