How RNA-binding proteins interact with RNA: molecules and mechanisms

M Corley, MC Burns, GW Yeo - Molecular cell, 2020 - cell.com
RNA-binding proteins (RBPs) comprise a large class of over 2,000 proteins that interact with
transcripts in all manner of RNA-driven processes. The structures and mechanisms that …

Methylated nucleosides in tRNA and tRNA methyltransferases

H Hori - Frontiers in genetics, 2014 - frontiersin.org
To date, more than 90 modified nucleosides have been found in tRNA and the biosynthetic
pathways of the majority of tRNA modifications include a methylation step (s). Recent studies …

NPDock: a web server for protein–nucleic acid docking

I Tuszynska, M Magnus, K Jonak… - Nucleic acids …, 2015 - academic.oup.com
Protein–RNA and protein–DNA interactions play fundamental roles in many biological
processes. A detailed understanding of these interactions requires knowledge about protein …

Matching tRNA modifications in humans to their known and predicted enzymes

V de Crécy-Lagard, P Boccaletto… - Nucleic acids …, 2019 - academic.oup.com
Abstract tRNA are post-transcriptionally modified by chemical modifications that affect all
aspects of tRNA biology. An increasing number of mutations underlying human genetic …

A subclass of archaeal U8-tRNA sulfurases requires a [4Fe–4S] cluster for catalysis

N He, J Zhou, O Bimai, J Oltmanns… - Nucleic Acids …, 2022 - academic.oup.com
Sulfuration of uridine 8, in bacterial and archaeal tRNAs, is catalyzed by enzymes formerly
known as ThiI, but renamed here TtuI. Two different classes of TtuI proteins, which possess a …

THUMPD3–TRMT112 is am2G methyltransferase working on a broad range of tRNA substrates

WQ Yang, QP Xiong, JY Ge, H Li, WY Zhu… - Nucleic acids …, 2021 - academic.oup.com
Post-transcriptional modifications affect tRNA biology and are closely associated with
human diseases. However, progress on the functional analysis of tRNA modifications in …

THUMPD2 catalyzes the N2-methylation of U6 snRNA of the spliceosome catalytic center and regulates pre-mRNA splicing and retinal degeneration

WQ Yang, JY Ge, X Zhang, WY Zhu, L Lin… - Nucleic Acids …, 2024 - academic.oup.com
The mechanisms by which the relatively conserved spliceosome manages the enormously
large number of splicing events that occur in humans (∼ 200 000 versus∼ 300 in yeast) are …

The occurrence order and cross-talk of different tRNA modifications

J Li, WY Zhu, WQ Yang, CT Li, RJ Liu - Science China Life Sciences, 2021 - Springer
Chemical modifications expand the composition of RNA molecules from four standard
nucleosides to over 160 modified nucleosides, which greatly increase the complexity and …

Transfer RNA modification enzymes from thermophiles and their modified nucleosides in tRNA

H Hori, T Kawamura, T Awai, A Ochi, R Yamagami… - Microorganisms, 2018 - mdpi.com
To date, numerous modified nucleosides in tRNA as well as tRNA modification enzymes
have been identified not only in thermophiles but also in mesophiles. Because most …

Trm112, a protein activator of methyltransferases modifying actors of the eukaryotic translational apparatus

G Bourgeois, J Létoquart, N Van Tran, M Graille - Biomolecules, 2017 - mdpi.com
Post-transcriptional and post-translational modifications are very important for the control
and optimal efficiency of messenger RNA (mRNA) translation. Among these, methylation is …