ArticleNucleic acids research2012
Attenuation of loop-receptor interactions with pseudoknot formation.
Article in Nucleic acids research, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
24 citing papers in PubMed, 33 citations in OpenAlex.
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- In vitro selected GUAA tetraloop-binding receptors with structural plasticity and evolvability towards natural RNA structural modules.Nucleic acids research · 2021Article
- Nucleic Acid Nanoparticles at a Crossroads of Vaccines and Immunotherapies.Molecules (Basel, Switzerland) · 2019Review
- Responsive self-assembly of tectoRNAs with loop-receptor interactions from the tetrahydrofolate (THF) riboswitch.Nucleic acids research · 2019Article
- First Step Towards Larger DNA-Based Assemblies of Fluorescent Silver Nanoclusters: Template Design and Detailed Characterization of Optical Properties.Nanomaterials (Basel, Switzerland) · 2019Article
- Smart-Responsive Nucleic Acid Nanoparticles (NANPs) with the Potential to Modulate Immune Behavior.Nanomaterials (Basel, Switzerland) · 2019Review
- Deducing putative ancestral forms of GNRA/receptor interactions from the ribosome.Nucleic acids research · 2019Article
- RNA versatility, flexibility, and thermostability for practice in RNA nanotechnology and biomedical applications.Wiley interdisciplinary reviews. RNA · 2018Review
- Single-Molecule Fluorescence Reveals Commonalities and Distinctions among Natural and in Vitro-Selected RNA Tertiary Motifs in a Multistep Folding Pathway.Journal of the American Chemical Society · 2017Article
- Cotranscriptional Production of Chemically Modified RNA Nanoparticles.Methods in molecular biology (Clifton, N.J.) · 2017Article
- Multistrand Structure Prediction of Nucleic Acid Assemblies and Design of RNA Switches.Nano letters · 2016Article
- The Use of Minimal RNA Toeholds to Trigger the Activation of Multiple Functionalities.Nano letters · 2016Article
- Engineered RNA Nanodesigns for Applications in RNA Nanotechnology.DNA and RNA nanotechnology · 2015Article
- Silver nanoclusters for RNA nanotechnology: steps towards visualization and tracking of RNA nanoparticle assemblies.Methods in molecular biology (Clifton, N.J.) · 2015Article
- Computational and experimental studies of reassociating RNA/DNA hybrids containing split functionalities.Methods in enzymology · 2015Article
- Triggering RNAi with multifunctional RNA nanoparticles and their delivery.DNA and RNA nanotechnology · 2015Article
- In silico design and enzymatic synthesis of functional RNA nanoparticles.Accounts of chemical research · 2014Article
- Computational and experimental characterization of RNA cubic nanoscaffolds.Methods (San Diego, Calif.) · 2014Article
- Stable RNA nanoparticles as potential new generation drugs for cancer therapy.Advanced drug delivery reviews · 2014Review
- Co-transcriptional production of RNA-DNA hybrids for simultaneous release of multiple split functionalities.Nucleic acids research · 2014Article
Corrections and comments
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
Abstract
RNA tetraloops can recognize receptors to mediate long-range interactions in stable natural RNAs. In vitro selected GNRA tetraloop/receptor interactions are usually more 'G/C-rich' than their 'A/U-rich' natural counterparts. They are not as widespread in nature despite comparable biophysical and chemical properties. Moreover, while AA, AC and GU dinucleotide platforms occur in natural GAAA/11 nt receptors, the AA platform is somewhat preferred to the others. The apparent preference for 'A/U-rich' GNRA/receptor interactions in nature might stem from an evolutionary adaptation to avoid folding traps at the level of the larger molecular context. To provide evidences in favor of this hypothesis, several riboswitches based on natural and artificial GNRA receptors were investigated in vitro for their ability to prevent inter-molecular GNRA/receptor interactions by trapping the receptor sequence into an alternative intra-molecular pseudoknot. Extent of attenuation determined by native gel-shift assays and co-transcriptional assembly is correlated to the G/C content of the GNRA receptor. Our results shed light on the structural evolution of natural long-range interactions and provide design principles for RNA-based attenuator devices to be used in synthetic biology and RNA nanobiotechnology.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.