The roles of structural dynamics in the cellular functions of RNAs

LR Ganser, ML Kelly, D Herschlag… - … reviews Molecular cell …, 2019 - nature.com
RNAs fold into 3D structures that range from simple helical elements to complex tertiary
structures and quaternary ribonucleoprotein assemblies. The functions of many regulatory …

Peptides before and during the nucleotide world: An origins story emphasizing cooperation between proteins and nucleic acids

SD Fried, K Fujishima, M Makarov… - Journal of the …, 2022 - royalsocietypublishing.org
Recent developments in Origins of Life research have focused on substantiating the
narrative of an abiotic emergence of nucleic acids from organic molecules of low molecular …

How does RNA fold dynamically?

DZ Bushhouse, EK Choi, LM Hertz, JB Lucks - Journal of molecular biology, 2022 - Elsevier
Recent advances in interrogating RNA folding dynamics have shown the classical model of
RNA folding to be incomplete. Here, we pose three prominent questions for the field that are …

Single-molecule analysis and engineering of DNA motors

S Mohapatra, CT Lin, XA Feng, A Basu, T Ha - Chemical reviews, 2019 - ACS Publications
Molecular motors are diverse enzymes that transduce chemical energy into mechanical
work and, in doing so, perform critical cellular functions such as DNA replication and …

Observation of coordinated RNA folding events by systematic cotranscriptional RNA structure probing

CE Szyjka, EJ Strobel - Nature Communications, 2023 - nature.com
RNA begins to fold as it is transcribed by an RNA polymerase. Consequently, RNA folding is
constrained by the direction and rate of transcription. Understanding how RNA folds into …

Monitoring RNA dynamics in native transcriptional complexes

A Chauvier, P St-Pierre, JF Nadon… - Proceedings of the …, 2021 - National Acad Sciences
Cotranscriptional RNA folding is crucial for the timely control of biological processes, but
because of its transient nature, its study has remained challenging. While single-molecule …

A roadmap for rRNA folding and assembly during transcription

ML Rodgers, SA Woodson - Trends in biochemical sciences, 2021 - cell.com
Ribonucleoprotein (RNP) assembly typically begins during transcription when folding of the
newly synthesized RNA is coupled with the recruitment of RNA-binding proteins (RBPs) …

Transcription increases the cooperativity of ribonucleoprotein assembly

ML Rodgers, SA Woodson - Cell, 2019 - cell.com
The synthesis of new ribosomes begins during transcription of the rRNA and is widely
assumed to follow an orderly 5′ to 3′ gradient. To visualize co-transcriptional assembly of …

Transcription regulation through nascent RNA folding

L Schärfen, KM Neugebauer - Journal of molecular biology, 2021 - Elsevier
Folding of RNA into secondary structures through intramolecular base pairing determines an
RNA's three-dimensional architecture and associated function. Simple RNA structures like …

Real-time monitoring of single ZTP riboswitches reveals a complex and kinetically controlled decision landscape

B Hua, CP Jones, J Mitra, PJ Murray… - Nature …, 2020 - nature.com
RNAs begin to fold and function during transcription. Riboswitches undergo
cotranscriptional switching in the context of transcription elongation, RNA folding, and ligand …