Cryo-EM advances in RNA structure determination

H Ma, X Jia, K Zhang, Z Su - Signal Transduction and Targeted Therapy, 2022 - nature.com
Cryo-electron microscopy (cryo-EM) has emerged as an unprecedented tool to resolve
protein structures at atomic resolution. Structural insights of biological samples not …

Geometric deep learning of RNA structure

RJL Townshend, S Eismann, AM Watkins, R Rangan… - Science, 2021 - science.org
RNA molecules adopt three-dimensional structures that are critical to their function and of
interest in drug discovery. Few RNA structures are known, however, and predicting them …

RNA sample optimization for cryo-EM analysis

X Chen, L Wang, J **e, 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 and antisense targeting of the 28-kDa frameshift stimulation element from the SARS-CoV-2 RNA genome

K Zhang, IN Zheludev, RJ Hagey, R Haslecker… - Nature Structural & …, 2021 - nature.com
Drug discovery campaigns against COVID-19 are beginning to target the SARS-CoV-2 RNA
genome. The highly conserved frameshift stimulation element (FSE), required for balanced …

CryoREAD: de novo structure modeling for nucleic acids in cryo-EM maps using deep learning

X Wang, G Terashi, D Kihara - Nature Methods, 2023 - nature.com
DNA and RNA play fundamental roles in various cellular processes, where their three-
dimensional structures provide information critical to understanding the molecular …

Accelerated cryo-EM-guided determination of three-dimensional RNA-only structures

K Kappel, K Zhang, Z Su, AM Watkins, W Kladwang… - Nature …, 2020 - nature.com
The discovery and design of biologically important RNA molecules is outpacing three-
dimensional structural characterization. Here, we demonstrate that cryo-electron microscopy …

Structural basis of MALAT1 RNA maturation and mascRNA biogenesis

I Skeparnias, C Bou-Nader, DG Anastasakis… - Nature Structural & …, 2024 - nature.com
The metastasis-associated lung adenocarcinoma transcript 1 (MALAT1) long noncoding
RNA (lncRNA) has key roles in regulating transcription, splicing, tumorigenesis, etc. Its …

Direct observation of tRNA-chaperoned folding of a dynamic mRNA ensemble

KC Suddala, J Yoo, L Fan, X Zuo, YX Wang… - Nature …, 2023 - nature.com
T-box riboswitches are multi-domain noncoding RNAs that surveil individual amino acid
availabilities in most Gram-positive bacteria. T-boxes directly bind specific tRNAs, query …

Gcn2 structurally mimics and functionally repurposes the HisRS enzyme for the integrated stress response

C Bou-Nader, S Gaikwad, S Bahmanjah… - Proceedings of the …, 2024 - pnas.org
Protein kinase Gcn2 attenuates protein synthesis in response to amino acid starvation while
stimulating translation of a transcriptional activator of amino acid biosynthesis. Gcn2 …

Sub-3-Å cryo-EM structure of RNA enabled by engineered homomeric self-assembly

D Liu, FA Thélot, JA Piccirilli, M Liao, P Yin - Nature Methods, 2022 - nature.com
High-resolution structural studies are essential for understanding the folding and function of
diverse RNAs. Herein, we present a nanoarchitectural engineering strategy for efficient …