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 …

Impact of 2′‐hydroxyl sampling on the conformational properties of RNA: update of the CHARMM all‐atom additive force field for RNA

EJ Denning, UD Priyakumar, L Nilsson… - Journal of …, 2011 - Wiley Online Library
Here, we present an update of the CHARMM27 all‐atom additive force field for nucleic acids
that improves the treatment of RNA molecules. The original CHARMM27 force field …

Static solid-state 2H NMR methods in studies of protein side-chain dynamics

L Vugmeyster, D Ostrovsky - Progress in Nuclear Magnetic Resonance …, 2017 - Elsevier
In this review, we discuss the experimental static deuteron NMR techniques and
computational approaches most useful for the investigation of side-chain dynamics in …

NMR studies of dynamic biomolecular conformational ensembles

DA Torchia - Progress in nuclear magnetic resonance spectroscopy, 2015 - Elsevier
Multidimensional heteronuclear NMR approaches can provide nearly complete sequential
signal assignments of isotopically enriched biomolecules. The availability of assignments …

Unraveling the complexity of protein backbone dynamics with combined 13 C and 15 N solid-state NMR relaxation measurements

JM Lamley, MJ Lougher, HJ Sass… - Physical Chemistry …, 2015 - pubs.rsc.org
Typically, protein dynamics involve a complex hierarchy of motions occurring on different
time scales between conformations separated by a range of different energy barriers. NMR …

[HTML][HTML] Dynamics of base pairs with low stability in RNA by solid-state nuclear magnetic resonance exchange spectroscopy

S Zhao, X Li, Z Wen, M Zou, G Yu, X Liu, J Mao… - Iscience, 2022 - cell.com
Base pairs are fundamental building blocks of RNA. The base pairs of low stability are often
critical in RNA functions. Here, we develop a solid-state NMR-based water-RNA exchange …

Dynamics of hydrophobic core phenylalanine residues probed by solid-state deuteron NMR

L Vugmeyster, D Ostrovsky, T Villafranca… - The Journal of …, 2015 - ACS Publications
We conducted a detailed investigation of the dynamics of two phenylalanine side chains in
the hydrophobic core of the villin headpiece subdomain protein (HP36) in the hydrated …

Magic angle spinning NMR of viruses

CM Quinn, M Lu, CL Suiter, G Hou, H Zhang… - Progress in nuclear …, 2015 - Elsevier
Viruses, relatively simple pathogens, are able to replicate in many living organisms and to
adapt to various environments. Conventional atomic-resolution structural biology …

Intermediate rate atomic trajectories of RNA by solid-state NMR spectroscopy

GL Olsen, MF Bardaro Jr, DC Echodu… - Journal of the …, 2010 - ACS Publications
Many RNAs undergo large conformational changes in response to the binding of proteins
and small molecules. However, when RNA functional dynamics occur in the nanosecond …

Glassy dynamics of protein methyl groups revealed by deuteron NMR

L Vugmeyster, D Ostrovsky, K Penland… - The Journal of …, 2013 - ACS Publications
We investigated site-specific dynamics of key methyl groups in the hydrophobic core of
chicken villin headpiece subdomain (HP36) over the temperature range between 298 and …