RNA structure refinement using NMR solvent accessibility data

Abstract NMR spectroscopy is a powerful technique to study ribonucleic acids (RNAs) which are key players in a plethora of cellular processes. Although the NMR toolbox for structural studies of RNAs expanded during the last decades, they often remain challenging. Here, we show that solvent paramagne...

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Autores principales:	Christoph Hartlmüller, Johannes C. Günther, Antje C. Wolter, Jens Wöhnert, Michael Sattler, Tobias Madl
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2017
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/571a8eb104594df097d82b96bf1d137f
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id	oai:doaj.org-article:571a8eb104594df097d82b96bf1d137f
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spelling	oai:doaj.org-article:571a8eb104594df097d82b96bf1d137f2021-12-02T15:05:49ZRNA structure refinement using NMR solvent accessibility data10.1038/s41598-017-05821-z2045-2322https://doaj.org/article/571a8eb104594df097d82b96bf1d137f2017-07-01T00:00:00Zhttps://doi.org/10.1038/s41598-017-05821-zhttps://doaj.org/toc/2045-2322Abstract NMR spectroscopy is a powerful technique to study ribonucleic acids (RNAs) which are key players in a plethora of cellular processes. Although the NMR toolbox for structural studies of RNAs expanded during the last decades, they often remain challenging. Here, we show that solvent paramagnetic relaxation enhancements (sPRE) induced by the soluble, paramagnetic compound Gd(DTPA-BMA) provide a quantitative measure for RNA solvent accessibility and encode distance-to-surface information that correlates well with RNA structure and improves accuracy and convergence of RNA structure determination. Moreover, we show that sPRE data can be easily obtained for RNAs with any isotope labeling scheme and is advantageous regarding sample preparation, stability and recovery. sPRE data show a large dynamic range and reflect the global fold of the RNA suggesting that they are well suited to identify interaction surfaces, to score structural models and as restraints in RNA structure determination.Christoph HartlmüllerJohannes C. GüntherAntje C. WolterJens WöhnertMichael SattlerTobias MadlNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 7, Iss 1, Pp 1-10 (2017)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Christoph Hartlmüller Johannes C. Günther Antje C. Wolter Jens Wöhnert Michael Sattler Tobias Madl RNA structure refinement using NMR solvent accessibility data
description	Abstract NMR spectroscopy is a powerful technique to study ribonucleic acids (RNAs) which are key players in a plethora of cellular processes. Although the NMR toolbox for structural studies of RNAs expanded during the last decades, they often remain challenging. Here, we show that solvent paramagnetic relaxation enhancements (sPRE) induced by the soluble, paramagnetic compound Gd(DTPA-BMA) provide a quantitative measure for RNA solvent accessibility and encode distance-to-surface information that correlates well with RNA structure and improves accuracy and convergence of RNA structure determination. Moreover, we show that sPRE data can be easily obtained for RNAs with any isotope labeling scheme and is advantageous regarding sample preparation, stability and recovery. sPRE data show a large dynamic range and reflect the global fold of the RNA suggesting that they are well suited to identify interaction surfaces, to score structural models and as restraints in RNA structure determination.
format	article
author	Christoph Hartlmüller Johannes C. Günther Antje C. Wolter Jens Wöhnert Michael Sattler Tobias Madl
author_facet	Christoph Hartlmüller Johannes C. Günther Antje C. Wolter Jens Wöhnert Michael Sattler Tobias Madl
author_sort	Christoph Hartlmüller
title	RNA structure refinement using NMR solvent accessibility data
title_short	RNA structure refinement using NMR solvent accessibility data
title_full	RNA structure refinement using NMR solvent accessibility data
title_fullStr	RNA structure refinement using NMR solvent accessibility data
title_full_unstemmed	RNA structure refinement using NMR solvent accessibility data
title_sort	rna structure refinement using nmr solvent accessibility data
publisher	Nature Portfolio
publishDate	2017
url	https://doaj.org/article/571a8eb104594df097d82b96bf1d137f
work_keys_str_mv	AT christophhartlmuller rnastructurerefinementusingnmrsolventaccessibilitydata AT johannescgunther rnastructurerefinementusingnmrsolventaccessibilitydata AT antjecwolter rnastructurerefinementusingnmrsolventaccessibilitydata AT jenswohnert rnastructurerefinementusingnmrsolventaccessibilitydata AT michaelsattler rnastructurerefinementusingnmrsolventaccessibilitydata AT tobiasmadl rnastructurerefinementusingnmrsolventaccessibilitydata
_version_	1718388704977879040

RNA structure refinement using NMR solvent accessibility data

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