Chemical syntheses of inhibitory substrates of the RNA–RNA ligation reaction catalyzed by the hairpin ribozyme

AP Massey, ST Sigurdsson - Nucleic acids research, 2004 - academic.oup.com
The chemical syntheses of RNA oligomers containing modifications on the 5′‐carbon of
the 5′‐terminal nucleoside for crystallographic and mechanistic studies of the hairpin …

Chemical synthesis of an artificially branched hairpin ribozyme variant with RNA cleavage activity

SA Ivanov, EM Volkov, TS Oretskaya, S Müller - Tetrahedron, 2004 - Elsevier
Due to the development in the field of RNA synthesis over the past decade of years,
preparation of RNA oligonucleotides longer than 50 nucleotides is possible today. In this …

Investigation of the proposed interdomain ribose zipper in hairpin ribozyme cleavage using 2 '-modified nucleosides

DJ Earnshaw, ML Hamm, JA Piccirilli, A Karpeisky… - Biochemistry, 2000 - ACS Publications
The hairpin ribozyme achieves catalytic cleavage through interaction of essential
nucleotides located in two distinct helical domains that include internal loops. Initial docking …

[HTML][HTML] Four ribose 2'-hydroxyl groups essential for catalytic function of the hairpin ribozyme.

BM Chowrira, A Berzal-Herranz, CF Keller… - Journal of Biological …, 1993 - Elsevier
The hairpin ribozyme catalyzes site-specific cleavage of an RNA substrate using a
magnesium-dependent transphosphorylation mechanism. Here, we describe experiments …

Investigation of the recognition of an important uridine in an internal loop of a hairpin ribozyme prepared using post-synthetically modified oligonucleotides

Y Komatsu, I Kumagai, E Ohtsuka - Nucleic acids research, 1999 - academic.oup.com
Abstract We introduced 4-thio-(4SU), 2-thio-(2SU), 4-O-methyl-uridine (4MeU) and cytidine
substitutions for U+ 2, which is an important base for cleavage in a substrate RNA …

Extensive phosphorothioate substitution yields highly active and nuclease-resistant hairpin ribozymes

BM Chowrira, JM Burke - Nucleic acids research, 1992 - academic.oup.com
The catalytic function of the hairpin ribozyme has been investigated by modification-
interference analysis of both ribozyme and substrate, using ribonucleoside …

In Vitro Selection of Hairpin Ribozymes Activated with Short Oligonucleotides

Y Komatsu, K Nobuoka, N Karino-Abe, A Matsuda… - Biochemistry, 2002 - ACS Publications
We have carried out an in vitro selection to obtain an allosteric hairpin ribozyme, which has
cleavage activity in the presence of an exogenous short oligonucleotide as a regulator …

Construction of hairpin ribozymes with a three-way junction

Y Komatsu, M Shirai, S Yamashita, E Ohtsuka - Bioorganic & Medicinal …, 1997 - Elsevier
Hairpin ribozymes with high cleavage activities were designed. An extra sequence was
introduced at the 3′-end of the hairpin ribozyme to increase the binding to the substrate …

Base and sugar requirements for RNA cleavage of essential nucleoside residues in internal loop B of the hairpin ribozyme: implications for secondary structure

S Schmidt, L Beigelman, A Karpeisky… - Nucleic acids …, 1996 - academic.oup.com
The hairpin ribozyme is a small self-cleaving RNA that can be engineered for RNA cleavage
in trans and has potential as a therapeutic agent. We have used a chemical synthesis …

The role of essential pyrimidines in the hairpin ribozyme-catalysed reaction

KJ Young, JS Vyle, TJ Pickering, MA Cohen… - Journal of molecular …, 1999 - Elsevier
The hairpin ribozyme is an example of a small catalytic RNA that catalyses the
endonucleolytic transesterification of RNA in a highly sequence-specific manner. We have …