Functional complexity and regulation through RNA dynamics

EA Dethoff, J Chugh, AM Mustoe, HM Al-Hashimi - Nature, 2012 - nature.com
Abstract Changes to the conformation of coding and non-coding RNAs form the basis of
elements of genetic regulation and provide an important source of complexity, which drives …

Hierarchy of RNA functional dynamics

AM Mustoe, CL Brooks… - Annual review of …, 2014 - annualreviews.org
RNA dynamics play a fundamental role in many cellular functions. However, there is no
general framework to describe these complex processes, which typically consist of many …

Discovery of selective bioactive small molecules by targeting an RNA dynamic ensemble

AC Stelzer, AT Frank, JD Kratz, MD Swanson… - Nature chemical …, 2011 - nature.com
Current approaches used to identify protein-binding small molecules are not suited for
identifying small molecules that can bind emerging RNA drug targets. By docking small …

The dynamic nature of RNA as key to understanding riboswitch mechanisms

A Haller, MF Soulière, R Micura - Accounts of chemical research, 2011 - ACS Publications
Riboswitches are gene regulation elements within RNA that recognize specific metabolites.
They predominantly occur in the untranslated leader regions of bacterial messenger RNA …

Conformational capture of the SAM-II riboswitch

A Haller, U Rieder, M Aigner, SC Blanchard… - Nature chemical …, 2011 - nature.com
Riboswitches are gene regulation elements in mRNA that function by specifically
responding to metabolites. Although the metabolite-bound states of riboswitches have …

Design of a small molecule that stimulates vascular endothelial growth factor A enabled by screening RNA fold–small molecule interactions

HS Haniff, L Knerr, X Liu, G Crynen, J Boström… - Nature …, 2020 - nature.com
Vascular endothelial growth factor A (VEGFA) stimulates angiogenesis in human endothelial
cells, and increasing its expression is a potential treatment for heart failure. Here, we report …

Rapid and accurate determination of atomistic RNA dynamic ensemble models using NMR and structure prediction

H Shi, A Rangadurai, H Abou Assi, R Roy… - Nature …, 2020 - nature.com
Biomolecules form dynamic ensembles of many inter-converting conformations which are
key for understanding how they fold and function. However, determining ensembles is …

A general method for constructing atomic-resolution RNA ensembles using NMR residual dipolar couplings: the basis for interhelical motions revealed

L Salmon, G Bascom, I Andricioaei… - Journal of the …, 2013 - ACS Publications
The ability to modulate alignment and measure multiple independent sets of NMR residual
dipolar couplings (RDCs) has made it possible to characterize internal motions in proteins at …

Understanding biomolecular motion, recognition, and allostery by use of conformational ensembles

RB Fenwick, S Esteban-Martín, X Salvatella - European Biophysics Journal, 2011 - Springer
We review the role conformational ensembles can play in the analysis of biomolecular
dynamics, molecular recognition, and allostery. We introduce currently available methods for …

Methods to enable the design of bioactive small molecules targeting RNA

MD Disney, I Yildirim, JL Childs-Disney - Organic & biomolecular …, 2014 - pubs.rsc.org
RNA is an immensely important target for small molecule therapeutics or chemical probes of
function. However, methods that identify, annotate, and optimize RNA-small molecule …