Fundamental studies of functional nucleic acids: aptamers, riboswitches, ribozymes and DNAzymes

R Micura, C Höbartner - Chemical Society Reviews, 2020 - pubs.rsc.org
This review aims at juxtaposing common versus distinct structural and functional strategies
that are applied by aptamers, riboswitches, and ribozymes/DNAzymes. Focusing on recently …

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 …

2′-O-Methylation can increase the abundance and lifetime of alternative RNA conformational states

H Abou Assi, AK Rangadurai, H Shi, B Liu… - Nucleic acids …, 2020 - academic.oup.com
O-Methyl (Nm) is a highly abundant post-transcriptional RNA modification that plays
important biological roles through mechanisms that are not entirely understood. There is …

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 …

Chemical shift prediction of RNA imino groups: application toward characterizing RNA excited states

Y Wang, G Han, X Jiang, T Yuwen, Y Xue - Nature communications, 2021 - nature.com
NH groups in proteins or nucleic acids are the most challenging target for chemical shift
prediction. Here we show that the RNA base pair triplet motif dictates imino chemical shifts in …

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 …

The structure of the SAM/SAH-binding riboswitch

AK Weickhmann, H Keller, JP Wurm… - Nucleic acids …, 2019 - academic.oup.com
S-adenosylmethionine (SAM) is a central metabolite since it is used as a methyl group donor
in many different biochemical reactions. Many bacteria control intracellular SAM …

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 …

A survey of recent unusual high-resolution DNA structures provoked by mismatches, repeats and ligand binding

R Satange, C Chang, MH Hou - Nucleic acids research, 2018 - academic.oup.com
The structure of the DNA duplex is arguably one of the most important biological structures
elucidated in modern history. DNA duplex structure is closely associated with essential …