Catalytic strategies of self-cleaving ribozymes

JC Cochrane, SA Strobel - Accounts of chemical research, 2008 - ACS Publications
Five naturally occurring nucleolytic ribozymes have been identified: the hammerhead,
hairpin, glmS, hepatitis delta virus (HDV), and Varkud satellite (VS) ribozymes. All of these …

Strategies for the design of drugs targeting RNA and RNA–protein complexes

T Hermann - Angewandte Chemie International Edition, 2000 - Wiley Online Library
In many steps of gene replication and expression, RNA molecules participate as key
players, which renders them attractive targets for therapeutic intervention. While the function …

Crystal structure of a hepatitis delta virus ribozyme

AR Ferré-D'Amaré, K Zhou, JA Doudna - Nature, 1998 - nature.com
The self-cleaving ribozyme of the hepatitis delta virus (HDV) is the only catalytic RNA known
to be required for the viability of a human pathogen. We obtained crystals of a 72-nucleotide …

Reversible cross-linking combined with immunoprecipitation to study RNA–protein interactions in vivo

S Niranjanakumari, E Lasda, R Brazas… - Methods, 2002 - Elsevier
Protein–RNA interactions play indispensable structural, catalytic, and regulatory roles within
the cell. Understanding their physical association in vivo provides valuable insight into their …

General acid-base catalysis in the mechanism of a hepatitis delta virus ribozyme

S Nakano, DM Chadalavada, PC Bevilacqua - Science, 2000 - science.org
Many protein enzymes use general acid-base catalysis as a way to increase reaction rates.
The amino acid histidine is optimized for this function because it has ap K a (where K a is the …

One sequence, two ribozymes: implications for the emergence of new ribozyme folds

EA Schultes, DP Bartel - Science, 2000 - science.org
We describe a single RNA sequence that can assume either of two ribozyme folds and
catalyze the two respective reactions. The two ribozyme folds share no evolutionary history …

[HTML][HTML] Peripheral regions of natural hammerhead ribozymes greatly increase their self‐cleavage activity

M De la Peña, S Gago, R Flores - The EMBO journal, 2003 - embopress.org
Natural hammerhead ribozymes are mostly found in some viroid and viroid‐like RNAs and
catalyze their cis cleavage during replication. Hammerheads have been manipulated to act …

Identification of a novel deltavirus in boa constrictors

U Hetzel, L Szirovicza, T Smura, B Prähauser… - MBio, 2019 - Am Soc Microbiol
Hepatitis D virus (HDV) forms the genus Deltavirus unassigned to any virus family. HDV is a
satellite virus and needs hepatitis B virus (HBV) to make infectious particles. Deltaviruses …

Modeling RNA folding paths with pseudoknots: application to hepatitis delta virus ribozyme

H Isambert, ED Siggia - Proceedings of the National …, 2000 - National Acad Sciences
A quantitative understanding of nucleic acid hybridization is essential to many aspects of
biotechnology, such as DNA microarrays, as well as to the structure and folding kinetics of …

An improved method for recovering rabies virus from cloned cDNA

K Inoue, Y Shoji, I Kurane, T Iijima, T Sakai… - Journal of virological …, 2003 - Elsevier
A new system for recovery of rabies virus from cDNA plasmid, the transcription of which was
driven by cellular RNA polymerase II, was developed. The plasmid contains full-length viral …