UPF1 promotes the formation of R loops to stimulate DNA double-strand break repair
Nature Communications, 2021 R loops are formed when single-stranded RNA anneals to one strand of DNA, forming three-stranded structures containing DNA-RNA hybrids and the displaced non-template single-stranded DNA. Here the authors reveal that the DNA:RNA helicase UPF1 plays a role
Greg H. P. Ngo +2 more
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Recognition of two distinct elements in the RNA substrate by the RNA-binding domain of the T. thermophilus DEAD box helicase Hera [PDF]
, 2013 DEAD box helicases catalyze the ATP-dependent destabilization of RNA duplexes. Whereas duplex separation is mediated by the helicase core shared by all members of the family, flanking domains often contribute to binding of the RNA substrate.
Klostermeier, Dagmar +5 more
core +1 more source
Supercoiling Double-Stranded RNA [PDF]
Biophysical Journal, 2010 Through a novel "polymerase-stall" labeling procedure, we have successfully generated torsionally constrained molecules of double-stranded RNA (dsRNA). We have anchored these molecules within a magnetic tweezers apparatus, and by rotating the magnets, induced both positive and negative supercoils within these molecules.
Skinner, Gary M. +3 more
openaire +1 more source
Protein-RNA interactions: a structural analysis [PDF]
, 2001 A detailed computational analysis of 32 protein-RNA complexes is presented. A number of physical and chemical properties of the intermolecular interfaces are calculated and compared with those observed in protein-double-stranded DNA and protein-single ...
Berman, HM +4 more
core +2 more sources
Efficiency of RNA interference is improved by knockdown of dsRNA nucleases in tephritid fruit flies [PDF]
Open Biology, 2019 RNA interference (RNAi) in insects is routinely used to ascertain gene function, but also has potential as a technology to control pest species. For some insects, such as beetles, ingestion of small quantities of double-stranded RNA (dsRNA) is able to ...
Alison Tayler +4 more
doaj +1 more source
A small RNA response at DNA ends in Drosophila [PDF]
, 2012 Small RNAs have been implicated in numerous cellular processes, including effects on chromatin structure and the repression of transposons. We describe the generation of a small RNA response at DNA ends in Drosophila that is analogous to the recently ...
Böttcher, Romy +2 more
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TRBP and eIF6 homologue in Marsupenaeus japonicus play crucial roles in antiviral response. [PDF]
PLoS ONE, 2012 Plants and invertebrates can suppress viral infection through RNA silencing, mediated by RNA-induced silencing complex (RISC). Trans-activation response RNA-binding protein (TRBP), consisting of three double-stranded RNA-binding domains, is a component ...
Shuai Wang +4 more
doaj +1 more source
Targeting mitochondrial metabolites and nucleic acids as an anti-inflammatory strategy
Frontiers in Drug Discovery, 2023 Mitochondrial metabolites and their derivatives have been the focus of recent efforts to develop new anti-inflammatory therapeutics. The widely used therapeutic agents dimethyl fumarate (DMF) and metformin have anti-inflammatory properties and have been ...
Yukun Min, Luke A. J. O’Neill
doaj +1 more source
Direct comparison of nick-joining activity of the nucleic acid ligases from bacteriophage T4 [PDF]
, 2006 The genome of bacteriophage T4 encodes three polynucleotide ligases, which seal the backbone of nucleic acids during infection of host bacteria. The T4Dnl (T4 DNA ligase) and two RNA ligases [T4Rnl1 (T4 RNA ligase 1) and T4Rnl2] join a diverse array of ...
Amitsur +61 more
core +5 more sources
Tracking Cryptosporidium parvum by Sequence Analysis of Small Double-Stranded RNA
Emerging Infectious Diseases, 2001 We sequenced a 173-nucleotide fragment of the small double-stranded viruslike RNA of Cryptosporidium parvum isolates from 23 calves and 38 humans. Sequence diversity was detected at 17 sites.
Lihua Xiao +3 more
doaj +1 more source