General acid-base catalysis mediated by nucleobases in the hairpin ribozyme. [PDF]
J Am Chem Soc, 2012 The catalytic mechanism by which the hairpin ribozyme accelerates cleavage or ligation of the phosphodiester backbone of RNA has been incompletely understood.
Kath-Schorr S +5 more
europepmc +8 more sources
Hairpin Ribozyme Genes Curtail Alcohol Drinking: from Rational Design to in vivo Effects in the Rat [PDF]
Molecular Therapy: Nucleic Acids, 2016 Ribozyme genes were designed to reduce voluntary alcohol drinking in a rat model of alcohol dependence. Acetaldehyde generated from alcohol in the liver is metabolized by the mitochondrial aldehyde dehydrogenase (ALDH2) such that diminishing ALDH2 ...
Amalia Sapag +5 more
doaj +4 more sources
Pressure modulates the self-cleavage step of the hairpin ribozyme [PDF]
Nature Communications, 2017 Studying the reactivity of ribozymes under extreme pressure could provide insights to optimize biocatalytic RNA design. Here, the authors show that at high pressure the transesterification step of the hairpin ribozyme self-cleavage reaction accelerates ...
Caroline Schuabb +4 more
doaj +3 more sources
Acquisition of Dual Ribozyme-Functions in Nonfunctional Short Hairpin RNAs through Kissing-Loop Interactions [PDF]
Life, 2022 The acquisition of functions via the elongation of nucleotides is an important factor in the development of the RNA world. In our previous study, we found that the introduction of complementary seven-membered kissing loops into inactive R3C ligase ...
Hiromi Mutsuro-Aoki, Koji Tamura
doaj +3 more sources
Thermodynamics and kinetics of RNA tertiary structure formation in the junctionless hairpin ribozyme. [PDF]
Biophys Chem, 2017 White NA, Hoogstraten CG.
europepmc +4 more sources
RNA self-splicing by engineered hairpin ribozyme variants. [PDF]
Nucleic Acids Res, 2022 Small RNAs capable of self-cleavage and ligation might have been the precursors for the much more complex self-splicing group I and II introns in an early RNA world. Here, we demonstrate the activity of engineered hairpin ribozyme variants, which as self-
Hieronymus R, Zhu J, Müller S.
europepmc +2 more sources
Investigation of the pKa of the Nucleophilic O2' of the Hairpin Ribozyme. [PDF]
J Phys Chem B, 2021 Small ribozymes cleave their RNA phosphodiester backbone by catalyzing a transphosphorylation reaction wherein a specific O2' functions as the nucleophile.
Veenis AJ +4 more
europepmc +2 more sources
Intermolecular domain docking in the hairpin ribozyme: metal dependence, binding kinetics and catalysis. [PDF]
RNA Biol, 2013 The hairpin ribozyme is a prototype small, self-cleaving RNA motif. It exists naturally as a four-way RNA junction containing two internal loops on adjoining arms.
Sumita M +3 more
europepmc +2 more sources
Evidence for the role of active site residues in the hairpin ribozyme from molecular simulations along the reaction path. [PDF]
J Am Chem Soc, 2014 The hairpin ribozyme accelerates a phosphoryl transfer reaction without catalytic participation of divalent metal ions. Residues A38 and G8 have been implicated as playing roles in general acid and base catalysis, respectively.
Heldenbrand H +5 more
europepmc +2 more sources
Engineering of Small Ribozymes Acting on RNA: What is Needed to Make a New Function Work with an Existing Catalyst? [PDF]
ChembiochemRational design is a potent strategy for developing ribozymes with advanced functionalities. Engineered variants of the hairpin ribozyme impressively demonstrate how function can be tuned through structural manipulation. The engineering of nucleic acids has been a longstanding objective in research, with the field gaining significant attention ...
Ebermann C, Müller S.
europepmc +2 more sources