Protonation-dependent base flipping in the catalytic triad of a small RNA
Sign Up to like & getrecommendations! Published in 2017 at "Chemical Physics Letters"
DOI: 10.1016/j.cplett.2017.07.003
Abstract: Abstract Protonation dependent base flipping in RNA has never been studied theoretically. In this work we studied protonation-dependent behavior of the base flipping in the catalytic triad of a single-stranded RNA which was previously characterized… read more here.
Keywords: protonation dependent; base flipping; base; dependent base ... See more keywords
Reaction Coordinate and Thermodynamics of Base Flipping in RNA.
Sign Up to like & getrecommendations! Published in 2021 at "Journal of chemical theory and computation"
DOI: 10.1021/acs.jctc.0c01199
Abstract: Base flipping is a key biophysical event involved in recognition of various ligands by ribonucleic acid (RNA) molecules. However, the mechanism of base flipping in RNA remains poorly understood, in part due to the lack… read more here.
Keywords: thermodynamics; base flipping; flipping rna; base ... See more keywords
Base-flipping dynamics from an intrahelical to an extrahelical state exerted by thymine DNA glycosylase during DNA repair process
Sign Up to like & getrecommendations! Published in 2018 at "Nucleic Acids Research"
DOI: 10.1093/nar/gky386
Abstract: Abstract Thymine DNA glycosylase (TDG) is a DNA repair enzyme that excises a variety of mismatched or damaged nucleotides (nts), e.g. dU, dT, 5fC and 5caC. TDG is shown to play essential roles in maintaining… read more here.
Keywords: state; dna; base flipping; process ... See more keywords
Assessing the feasibility and stability of uracil base flipping in RNA–small molecule complexes using molecular dynamics simulations
Sign Up to like & getrecommendations! Published in 2020 at "Canadian Journal of Chemistry"
DOI: 10.1139/cjc-2019-0421
Abstract: Small molecules can be used to target RNAs that mediate disease. A fundamental understanding of binding interactions between RNA and small molecules and the structure of their complexes will furthe... read more here.
Keywords: feasibility stability; uracil base; base flipping; rna small ... See more keywords