Cited by 216RNA and protein synthesis mechanismsPhysical Organic Chemistry and Reaction KineticsDNA and Nucleic Acid Chemistry

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Ribozyme speed limits

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EMILSSON, GAIL MITCHELL, NAKAMURA, SHINGO, ROTH, ADAM, BREAKER, RONALD R.·2003·RNA

DOI 10.1261/rna.5680603PMC PMC1370456

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Abstract

The speed at which RNA molecules decompose is a critical determinant of many biological processes, including those directly involved in the storage and expression of genetic information. One mechanism for RNA cleavage involves internal phosphoester transfer, wherein the 2′-oxygen atom carries out an S N 2-like nucleophilic attack on the adjacent phosphorus center (transesterification). In this article, we discuss fundamental principles of RNA transesterification and define a conceptual framework that can be used to assess the catalytic power of enzymes that cleave RNA. We deduce that certain ribozymes and deoxyribozymes, like their protein enzyme counterparts, can bring about enormous rate enhancements.

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Authors: EMILSSON, G. M., NAKAMURA, S., ROTH, A., & BREAKER, R. R.
Affiliations: Yale University (US)
Corresponding author: BREAKER, RONALD R.
ORCID: NAKAMURA, SHINGO
BREAKER, RONALD R.
Venue: RNA
Publisher: Cold Spring Harbor Laboratory
Published: 2003-07-17
Volume: 9
Issue: 8
Pages: 907-918
ISSN: 1355-8382 (ISSN-L)
1469-9001
DOI: 10.1261/rna.5680603
PMC: PMC1370456
OpenAlex: W2160498409
Cited by: 216
References: 70
Citations by year: 2026: 4 · 2025: 5 · 2024: 11 · 2023: 6 · 2022: 11 · 2021: 18 · 2020: 7 · 2019: 16 · 2018: 9 · 2017: 16 · 2016: 8 · 2015: 6 · 2014: 5 · 2013: 10 · 2012: 5
FWCI: 0.68
Type: journal article
Language: en
Open access: bronze
doi.org
Locations: RNA (publishedVersion)
PubMed Central (publishedVersion)
PubMed (publishedVersion)
Funders: David and Lucile Packard Foundation
National Institutes of Health (5r01gm057500-03)
National Institute of General Medical Sciences (GM559343, GM57500)
Topics: Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA and protein synthesis mechanisms
Physical Sciences › Chemistry › Organic Chemistry › Physical Organic Chemistry and Reaction Kinetics
Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › DNA and Nucleic Acid Chemistry
Keywords: ribozymes, deoxyribozymes, RNA cleavage, catalytic rate enhancement
MeSH terms: Esterification, Hydrolysis, Oxygen, RNA, RNA, Catalytic, Hydroxyl Radical

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