ReviewNucleic acids research2001
Recent advances in the elucidation of the mechanisms of action of ribozymes.
Review in Nucleic acids research, 2001. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
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Who cites it
28 citing papers in PubMed, 121 citations in OpenAlex.
- Nucleic Acid Catalysis under Potential Prebiotic Conditions.Chemistry, an Asian journal · 2020Review
- Phosphodiester models for cleavage of nucleic acids.Beilstein journal of organic chemistry · 2018Review
- A Two-Metal-Ion-Mediated Conformational Switching Pathway for HDV Ribozyme Activation.ACS catalysis · 2016Article
- DNA Catalysis: The Chemical Repertoire of DNAzymes.Molecules (Basel, Switzerland) · 2015Review
- Endogenous polyamine function--the RNA perspective.Nucleic acids research · 2014Review
- The glmS ribozyme cofactor is a general acid-base catalyst.Journal of the American Chemical Society · 2012Article
- Non-enzymatic hydrolysis of RNA in workers of the ant Nylanderia pubens.Journal of insect science (Online) · 2012Article
- Cation-dependent cleavage of the duplex form of the subtype-B HIV-1 RNA dimerization initiation site.Nucleic acids research · 2010Article
- Hammerhead ribozymes: true metal or nucleobase catalysis? Where is the catalytic power from?Molecules (Basel, Switzerland) · 2010Article
- Functional nucleic acid sensors.Chemical reviews · 2009Review
- Activity, folding and Z-DNA formation of the 8-17 DNAzyme in the presence of monovalent ions.Journal of the American Chemical Society · 2009Article
- RNA fragmentation in MALDI mass spectrometry studied by H/D-exchange: mechanisms of general applicability to nucleic acids.Journal of the American Society for Mass Spectrometry · 2006Article
- Extraordinary rates of transition metal ion-mediated ribozyme catalysis.RNA (New York, N.Y.) · 2006Article
- Characterization of a native hammerhead ribozyme derived from schistosomes.RNA (New York, N.Y.) · 2005Article
- The naturally trans-acting ribozyme RNase P RNA has leadzyme properties.Nucleic acids research · 2005Article
- Synthesis of ribozyme against vascular endothelial growth factor165 and its biological activity in vitro.World journal of gastroenterology · 2004Article
- Folding of the natural hammerhead ribozyme is enhanced by interaction of auxiliary elements.RNA (New York, N.Y.) · 2004Article
- Bcl2-low-expressing MCF7 cells undergo necrosis rather than apoptosis upon staurosporine treatment.The Biochemical journal · 2004Article
- Phosphorylation at 5' end of guanosine stretches inhibits dimerization of G-quadruplexes and formation of a G-quadruplex interferes with the enzymatic activities of DNA enzymes.Nucleic acids research · 2004Article
- Importance in catalysis of a magnesium ion with very low affinity for a hammerhead ribozyme.Nucleic acids research · 2004Article
Corrections and comments
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Authors and funding
5 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The cleavage of RNA can be accelerated by a number of factors. These factors include an acidic group (Lewis acid) or a basic group that aids in the deprotonation of the attacking nucleophile, in effect enhancing the nucleophilicity of the nucleophile; an acidic group that can neutralize and stabilize the leaving group; and any environment that can stabilize the pentavalent species that is either a transition state or a short-lived intermediate. The catalytic properties of ribozymes are due to factors that are derived from the complicated and specific structure of the ribozyme-substrate complex. It was postulated initially that nature had adopted a rather narrowly defined mechanism for the cleavage of RNA. However, recent findings have clearly demonstrated the diversity of the mechanisms of ribozyme-catalyzed reactions. Such mechanisms include the metal-independent cleavage that occurs in reactions catalyzed by hairpin ribozymes and the general double-metal-ion mechanism of catalysis in reactions catalyzed by the Tetrahymena group I ribozyme. Furthermore, the architecture of the complex between the substrate and the hepatitis delta virus ribozyme allows perturbation of the pK(a) of ring nitrogens of cytosine and adenine. The resultant perturbed ring nitrogens appear to be directly involved in acid/base catalysis. Moreover, while high concentrations of monovalent metal ions or polyamines can facilitate cleavage by hammerhead ribozymes, divalent metal ions are the most effective acid/base catalysts under physiological conditions.
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