A guide to large-scale RNA sample preparation

L Baronti, H Karlsson, M Marušič, K Petzold - Analytical and bioanalytical …, 2018 - Springer
RNA is becoming more important as an increasing number of functions, both regulatory and
enzymatic, are being discovered on a daily basis. As the RNA boom has just begun, most …

RNA dynamics by NMR spectroscopy

M Marušič, J Schlagnitweit, K Petzold - ChemBioChem, 2019 - Wiley Online Library
An ever‐increasing number of functional RNAs require a mechanistic understanding. RNA
function relies on changes in its structure, so‐called dynamics. To reveal dynamic processes …

Multi‐Site Conformational Exchange in the Synthetic Neomycin‐Sensing Riboswitch Studied by 19F NMR

JH Overbeck, J Vögele, F Nussbaumer… - Angewandte Chemie …, 2023 - Wiley Online Library
The synthetic neomycin‐sensing riboswitch interacts with its cognate ligand neomycin as
well as with the related antibiotics ribostamycin and paromomycin. Binding of these …

Base-pair conformational switch modulates miR-34a targeting of Sirt1 mRNA

L Baronti, I Guzzetti, P Ebrahimi, S Friebe Sandoz… - Nature, 2020 - nature.com
MicroRNAs (miRNAs) regulate the levels of translation of messenger RNAs (mRNAs). At
present, the major parameter that can explain the selection of the target mRNA and the …

Characterizing micro-to-millisecond chemical exchange in nucleic acids using off-resonance R1ρ relaxation dispersion

A Rangadurai, ES Szymaski, IJ Kimsey, H Shi… - Progress in nuclear …, 2019 - Elsevier
This review describes off-resonance R 1ρ relaxation dispersion NMR methods for
characterizing microsecond-to-millisecond chemical exchange in uniformly 13 C/15 N …

A suite of 19F based relaxation dispersion experiments to assess biomolecular motions

JH Overbeck, W Kremer, R Sprangers - Journal of biomolecular NMR, 2020 - Springer
Proteins and nucleic acids are highly dynamic bio-molecules that can populate a variety of
conformational states. NMR relaxation dispersion (RD) methods are uniquely suited to …

Resolving sugar puckers in RNA excited states exposes slow modes of repuckering dynamics

MC Clay, LR Ganser, DK Merriman… - Nucleic acids …, 2017 - academic.oup.com
Recent studies have shown that RNAs exist in dynamic equilibrium with short-lived low-
abundance 'excited states' that form by reshuffling base pairs in and around non-canonical …

Efficient detection of structure and dynamics in unlabeled RNAs: the SELOPE approach

J Schlagnitweit, E Steiner, H Karlsson… - … –A European Journal, 2018 - Wiley Online Library
The knowledge of structure and dynamics is crucial to explain the function of RNAs. While
nuclear magnetic resonance (NMR) is well suited to probe these for complex biomolecules …

Dynamic ensemble of HIV-1 RRE stem IIB reveals non-native conformations that disrupt the Rev-binding site

CC Chu, R Plangger, C Kreutz… - Nucleic acids …, 2019 - academic.oup.com
The HIV-1 Rev response element (RRE) RNA element mediates the nuclear export of intron
containing viral RNAs by forming an oligomeric complex with the viral protein Rev. Stem IIB …

A robust and versatile method for production and purification of large-scale RNA samples for structural biology

H Karlsson, L Baronti, K Petzold - Rna, 2020 - rnajournal.cshlp.org
Recent findings in genome-wide transcriptomics revealed that RNAs are involved in almost
every biological process, across all domains of life. The characterization of native RNAs of …