Ratcheting synthesis

S Borsley, JM Gallagher, DA Leigh… - Nature Reviews …, 2024 - nature.com
Synthetic chemistry has traditionally relied on reactions between reactants of high chemical
potential and transformations that proceed energetically downhill to either a global or local …

[HTML][HTML] Challenges, advances, and opportunities in RNA structural biology by Cryo-EM

SL Bonilla, K Jang - Current Opinion in Structural Biology, 2024 - Elsevier
RNAs are remarkably versatile molecules that can fold into intricate three-dimensional (3D)
structures to perform diverse cellular and viral functions. Despite their biological importance …

gRNAde: Geometric Deep Learning for 3D RNA inverse design

CK Joshi, AR Jamasb, R Viñas, C Harris, S Mathis… - …, 2024 - pmc.ncbi.nlm.nih.gov
Computational RNA design tasks are often posed as inverse problems, where sequences
are designed based on adopting a single desired secondary structure without considering …

Functional Nucleic Acid Enzymes: Nucleic Acid-Based Catalytic Factories

M Yang, Y Xie, L Zhu, X Li, W Xu - ACS Catalysis, 2024 - ACS Publications
Biocatalysis plays a vital role in the operations of all living organisms, which is usually
thought to be mediated by protein enzymes. However, the pioneering discovery of self …

[HTML][HTML] Structural and biophysical dissection of RNA conformational ensembles

SL Bonilla, AN Jones, D Incarnato - Current Opinion in Structural Biology, 2024 - Elsevier
RNA's ability to form and interconvert between multiple secondary and tertiary structures is
critical to its functional versatility and the traditional view of RNA structures as static entities …

RNA sample optimization for cryo-EM analysis

X Chen, L Wang, J Xie, JS Nowak, B Luo, C Zhang… - Nature …, 2024 - nature.com
RNAs play critical roles in most biological processes. Although the three-dimensional (3D)
structures of RNAs primarily determine their functions, it remains challenging to …

Cryo-EM: A window into the dynamic world of RNA molecules

X Zhang, S Li, K Zhang - Current Opinion in Structural Biology, 2024 - Elsevier
RNAs are critical for complex cellular functions, characterized by their structural versatility
and ability to undergo conformational transitions in response to cellular cues. The elusive …

Architecture of an RNA polymerase ribozyme illuminates the RNA World

DM Shechner - Trends in Genetics, 2024 - cell.com
Abstract'Ribo-organisms' of the primordial RNA World would have needed ribozymes that
catalyze RNA replication. McRae, Wan, Kristoffersen et al. recently revealed how these RNA …

Trinucleotide building blocks enable exponential ribozyme-catalysed RNA replication and open-ended growth of diverse RNA sequence pools

J Attwater, T Augustin, JF Curran, S Kwok, E Gianni… - bioRxiv, 2023 - biorxiv.org
RNA replication is considered a crucial stage in the origins of life. However, both enzymatic
and non-enzymatic RNA replication cycles are impeded by the “strand separation …

Biomathematical enzyme kinetics model of prebiotic autocatalytic RNA networks: degenerating parasite-specific hyperparasite catalysts confer parasite resistance and …

M Pirovino, C Iseli, JA Curran, B Conrad - bioRxiv, 2024 - biorxiv.org
Catalysis and specifically autocatalysis are the quintessential building blocks of life. Yet,
although autocatalytic networks are necessary, they are not sufficient for the emergence of …