The DOI matches its Crossref record; 117 of the 117 references it cites were found in a registry or an index.
The Effect of Secondary Structure on Cleavage of the Phosphodiester Bonds of RNA
Abstract
This review discusses the effects the secondary structure of an RNA molecule has on the inherent reactivity of its phosphodiester bonds, and on the catalytic activity of metal ion-based cleaving agents. The basic principles of the intramolecular transesterification of RNA phosphodiester bonds, particularly cleavage, are first briefly described. Studies of the structural effects on the cleavage, in the absence and in the presence of metal ion catalysts, are then reviewed, and the sources of the reactivity differences observed in different structures are discussed.
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“In particular, we obtained single-nucleotide-resolution measurements of 3030 RNA fragments using In-line-seq, a version of a low-bias ligation and reverse transcription protocol (MAP-seq)64 adapted here for in-line hydrolysis profiles65 (Fig. 3B).”
From Combinatorial optimization of mRNA structure, stability, and translation for RNA-based therapeutics (2022) · cites this paper as [64]
In the citing paper
“In two publications on mRNA hydrolysis the authors state that the base sequence and secondary structure of mRNA influence the rate of hydrolysis (Kaukinen et al., 2002, Mikkola et al., 2001).”
From mRNA-lipid nanoparticle COVID-19 vaccines: structure and stability (2021) · cites this paper as Mikkola et al., 2001
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“Specifically, base-stacking may decrease the cleavage rate of phosphodiester bonds.”
From mRNA-lipid nanoparticle COVID-19 vaccines: structure and stability (2021) · cites this paper as Mikkola et al., 2001
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Metadata
- Authors
- Mikkola, S., Kaukinen, U., & Lönnberg, H.
- Affiliations
- University of Turku (FI)
- Venue
- Cell Biochemistry and Biophysics
- Published
- 2001
- Volume
- 34
- Issue
- 1
- Pages
- 95-119
- ISSN
- 1085-9195 (ISSN-L)
- OpenAlex
- W1980553137
- Cited by
- 67
- References
- 117
- Citations by year
- 2026: 4 · 2025: 1 · 2024: 4 · 2023: 5 · 2022: 8 · 2021: 2 · 2020: 1 · 2019: 2 · 2018: 2 · 2017: 1 · 2016: 1 · 2015: 2 · 2014: 4
- FWCI
- 1.04
- Type
- journal article
- Language
- en
- Open access
- closed
- Locations
- Cell Biochemistry and Biophysics (publishedVersion)
- PubMed (publishedVersion)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA and protein synthesis mechanisms
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › DNA and Nucleic Acid Chemistry
- Physical Sciences › Chemistry › Organic Chemistry › Physical Organic Chemistry and Reaction Kinetics
- Keywords
- RNA secondary structure, phosphodiester bond cleavage, metal ion catalysis
- MeSH terms
- Base Sequence, Catalysis, Chemistry, Physical, Esterification, Hydrogen-Ion Concentration, Metals, Nucleic Acid Conformation, RNA, RNA, Double-Stranded, RNA, Transfer, RNA, Catalytic, Chemical Phenomena
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