RNA recognition by double-stranded RNA binding domains: a matter of shape and sequence

G Masliah, P Barraud, FHT Allain - Cellular and molecular life sciences, 2013 - Springer
The double-stranded RNA binding domain (dsRBD) is a small protein domain of 65–70
amino acids adopting an αβββα fold, whose central property is to bind to double-stranded …

Ribonuclease III mechanisms of double‐stranded RNA cleavage

AW Nicholson - Wiley Interdisciplinary Reviews: RNA, 2014 - Wiley Online Library
Double‐stranded (ds) RNA has diverse roles in gene expression and regulation, host
defense, and genome surveillance in bacterial and eukaryotic cells. A central aspect of …

Comparison of preribosomal RNA processing pathways in yeast, plant and human cells–focus on coordinated action of endo‐and exoribonucleases

R Tomecki, PJ Sikorski, M Zakrzewska‐Placzek - FEBS letters, 2017 - Wiley Online Library
Proper regulation of ribosome biosynthesis is mandatory for cellular adaptation, growth and
proliferation. Ribosome biogenesis is the most energetically demanding cellular process …

Insights into biomolecular hydrogen bonds from hydrogen bond scalar couplings

S Grzesiek, F Cordier, V Jaravine, M Barfield - Progress in Nuclear …, 2004 - Elsevier
Despite their crucial role in the stabilization of biomolecular structures and their almost
ubiquitous involvement in biomolecular reactions, such as enzymatic cleavage or ligand …

Structural basis for recognition of the AGNN tetraloop RNA fold by the double-stranded RNA-binding domain of Rnt1p RNase III

H Wu, A Henras, G Chanfreau… - Proceedings of the …, 2004 - National Acad Sciences
Specific recognition of double-stranded RNA (dsRNA) by dsRNA-binding domains
(dsRBDs) is involved in a large number of biological and regulatory processes. Although …

Dynamics of strand slippage in DNA hairpins formed by CAG repeats: roles of sequence parity and trinucleotide interrupts

P Xu, F Pan, C Roland, C Sagui… - Nucleic acids …, 2020 - academic.oup.com
DNA trinucleotide repeats (TRs) can exhibit dynamic expansions by integer numbers of
trinucleotides that lead to neurodegenerative disorders. Strand slipped hairpins during DNA …

Unusual DNA duplex and hairpin motifs

SH Chou, KH Chin, AHJ Wang - Nucleic Acids Research, 2003 - academic.oup.com
Single‐stranded DNA or double‐stranded DNA has the potential to adopt a wide variety of
unusual duplex and hairpin motifs in the presence (trans) or absence (cis) of ligands …

Recognition modes of RNA tetraloops and tetraloop‐like motifs by RNA‐binding proteins

R Thapar, AP Denmon… - Wiley Interdisciplinary …, 2014 - Wiley Online Library
RNA hairpins are the most commonly occurring secondary structural elements in RNAs and
serve as nucleation sites for RNA folding, RNA–RNA, and RNA–protein interactions. RNA …

Solution structure of the HIV‐1 frameshift inducing stem–loop RNA

DW Staple, SE Butcher - Nucleic acids research, 2003 - academic.oup.com
The translation of reverse transcriptase and other essential viral proteins from the HIV‐1 Pol
mRNA requires a programmed–1 ribosomal frameshift. This frameshift is induced by two …

Structure of a yeast RNase III dsRBD complex with a noncanonical RNA substrate provides new insights into binding specificity of dsRBDs

Z Wang, E Hartman, K Roy, G Chanfreau, J Feigon - Structure, 2011 - cell.com
Summary dsRBDs often bind dsRNAs with some specificity, yet the basis for this is poorly
understood. Rnt1p, the major RNase III in Saccharomyces cerevisiae, cleaves RNA …