A review on recent advances in methods for site-directed spin labeling of long RNAs

K Huang, X Fang - International Journal of Biological Macromolecules, 2023 - Elsevier
… is inherently more flexible, which makes some well-established techniques for structural
determination of proteins, such as X-ray crystallography (XRC) and cryo-electron microscopy (…

Synthesis of DNA and RNA containing rigid spin-and fluorescent labels for studies by EPR and fluorescence spectroscopies

ALJ Segler - 2021 - opinvisindi.is
… problem associated with spin-labeling by chemical synthesis of … label Çm into RNA with
quantitative spin-labeling efficiency. … and their spin labeling efficiency was determined by spin-…

Advancements in site-directed incorporation of rigid spin-labels into nucleic acids

HY Júlíusson - 2020 - opinvisindi.is
… in nitroxide spin-labeling of nucleic acids for structure determination using rigid … spin-labeling
of duplex DNA and RNA containing abasic sites. No specific binding was observed for RNA

Preparation of site-specifically spin-labeled RNA by in vitro transcription using an expanded genetic alphabet

L Bornewasser, S Kath-Schorr - DNAzymes: Methods and Protocols, 2022 - Springer
… Depending on the desired positions for spin labeling within the RNA sequence of interest, …
Determine the concentration of cleaned spin-labeled RNA by measuring the absorption at …

The 'hidden side'of spin labelled oligonucleotides: Molecular dynamics study focusing on the EPR-silent components of base pairing

SC Dantu, G Sicoli - Journal of Magnetic Resonance, 2021 - Elsevier
… used to determine the structural properties of deoxyribonucleic acid (DNA), ribonucleic acid
(… In this work, we performed extensive MD simulations of RNA structures with either N T (N = …

Spin labeling of long RNAs via click reaction and enzymatic ligation

MF Vicino, C Wuebben, M Kerzhner, M Famulok… - … : Methods and Protocols, 2022 - Springer
… Moreover, it sets the path to label, for example, long riboswitches, ribozymes, and
DNAzymes for coarse-grained structure determination and enables to investigate mechanistical …

A carbazole-derived nitroxide that is an analogue of cytidine: a rigid spin label for DNA and RNA

ALJ Segler, ST Sigurdsson - The Journal of Organic Chemistry, 2021 - ACS Publications
… DPAGE, the spin-labeling efficiency was determined (Figure … DNA and RNA, respectively,
with high spin-labeling efficiency… are nonperturbing of duplex structures. These new rigid spin …

2′-Alkynyl spin-labelling is a minimally perturbing tool for DNA structural analysis

JS Hardwick, MM Haugland… - Nucleic Acids …, 2020 - academic.oup.com
… Efforts to obtain well-diffracting crystals of the 5 U analogue duplex 5 were unsuccessful;
however, we could determine the structure of the related single spin-labelled duplex 7 (Figure …

[HTML][HTML] Synthesis of nucleobase-modified RNA oligonucleotides by post-synthetic approach

K Bartosik, K Debiec, A Czarnecka, E Sochacka… - Molecules, 2020 - mdpi.com
… active esters was utilized for RNA site-specific spin labeling with nitroxide radicals for EPR
… To determine the effect of hydantoin structure on the biological activity of tRNAs, model 17-…

Studying Ribozymes with Electron Paramagnetic Resonance Spectroscopy

O Schiemann - Ribozymes, 2021 - Wiley Online Library
… by a section on site-directed spin labeling of RNA, and then several examples are summarized
Base-specific spin-labeling of RNA for structure determination. Nucleic Acids Res. 35 (9): …