ArticleJournal of molecular evolution2005
Parallel selections in vitro reveal a preference for 2'-5' RNA ligation upon deoxyribozyme-mediated opening of a 2',3'-cyclic phosphate.
Article in Journal of molecular evolution, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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Who cites it
9 citing papers in PubMed, 19 citations in OpenAlex.
- Fluorescent detection of brown spot of tobacco caused byRSC advances · 2023Article
- Efficient Exchange in a Bioinspired Dynamic Covalent Polymer Network via a Cyclic Phosphate Triester Intermediate.Macromolecules · 2021Article
- Cotranscriptional 3'-End Processing of T7 RNA Polymerase Transcripts by a Smaller HDV Ribozyme.Journal of molecular evolution · 2018Article
- Deoxyribozymes: selection design and serendipity in the development of DNA catalysts.Accounts of chemical research · 2009Review
- Use of deoxyribozymes in RNA research.Methods in enzymology · 2009Article
- Controlling the direction of site-selectivity and regioselectivity in RNA ligation by Zn2+-dependent deoxyribozymes that use 2',3'-cyclic phosphate RNA substrates.Organic & biomolecular chemistry · 2008Article
- Searching genomes for ribozymes and riboswitches.Genome biology · 2007Review
- Zn2+-dependent deoxyribozymes that form natural and unnatural RNA linkages.Biochemistry · 2005Article
- A deoxyribozyme that synthesizes 2',5'-branched RNA with any branch-site nucleotide.Nucleic acids research · 2005Article
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
Abstract
We previously used in vitro selection to identify Mg(2+)-dependent deoxyribozymes that mediate the ligation reaction of an RNA 5'-hydroxyl group with a 2',3'-cyclic phosphate. In these efforts, all of the deoxyribozymes were identified via a common in vitro selection strategy, and all of the newly formed RNA linkages were non-native 2'-5' phosphodiester bonds rather than native 3'-5' linkages. Here we performed several new selections in which the relative arrangements of RNA and DNA were different as compared with the earlier studies. In all cases, we again find deoxyribozymes that create only 2'-5' linkages. This includes deoxyribozymes with an arrangement that favors 3'-5' linkages for a different chemical reaction, that of a 2',3'-diol plus 5'-triphosphate. These data indicate a strong and context-independent chemical preference for creating 2'-5' RNA linkages upon opening of a 2',3'-cyclic phosphate with a 5'-hydroxyl group. Preliminary assays show that some of the newly identified deoxyribozymes have promise for ligating RNA in a sequence-general fashion. Because 2',3'-cyclic phosphates are the products of uncatalyzed RNA backbone cleavage, their ligation reactions may be of direct relevance to the RNA World hypothesis.
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