ArticleArchives of biochemistry and biophysics2009
Rational optimization of the DSL ligase ribozyme with GNRA/receptor interacting modules.
Article in Archives of biochemistry and biophysics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
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Who cites it
10 citing papers in PubMed.
- Minimizing amplification bias during reverse transcription for in vitro selections.RNA (New York, N.Y.) · 2023Article
- In vitro selected GUAA tetraloop-binding receptors with structural plasticity and evolvability towards natural RNA structural modules.Nucleic acids research · 2021Article
- Responsive self-assembly of tectoRNAs with loop-receptor interactions from the tetrahydrofolate (THF) riboswitch.Nucleic acids research · 2019Article
- Article
- An in vitro-selected RNA receptor for the GAAC loop: modular receptor for non-GNRA-type tetraloop.Nucleic acids research · 2013Article
- Fixation and accumulation of thermotolerant catalytic competence of a pair of ligase ribozymes through complex formation and cross ligation.Journal of molecular evolution · 2013Article
- Self-replication reactions dependent on tertiary interaction motifs in an RNA ligase ribozyme.Journal of molecular evolution · 2011Article
- Generation and development of RNA ligase ribozymes with modular architecture through "design and selection".Molecules (Basel, Switzerland) · 2010Review
- Computational generation and screening of RNA motifs in large nucleotide sequence pools.Nucleic acids research · 2010Article
- Evolutionary optimization of a modular ligase ribozyme: a small catalytic unit and a hairpin motif masking an element that could form an inactive structure.Nucleic acids research · 2010Article
Corrections and comments
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Authors and funding
6 authors.
Funding
Abstract
The DSL ribozyme is a class of artificial ligase ribozymes with a highly modular architecture, which catalyzes template-directed RNA ligation on a helical substrate module that can be either covalently connected (cis-DSL) or physically separated (trans-DSL) from the catalytic module. Substrate recognition by the catalytic module is promoted by one or two sets of GNRA/receptor interactions acting as clamps in the cis or trans configurations, respectively. In this study, we have rationally designed and analyzed the catalytic and self-assembly properties of several trans-DSL ribozymes with different sets of natural and artificial GNRA-receptor clamps. Two variants newly designed in this study showed significantly enhanced catalytic properties with respect of the original trans-DSL construct. While this work allows dissection of the turnover and catalytic properties of the trans-DSL ribozyme, it also emphasizes the remarkable modularity of RNA tertiary structure for nano-construction of complex functions.
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