ArticleJournal of the American Chemical Society2008
Specific RNA self-assembly with minimal paranemic motifs.
Article in Journal of the American Chemical Society, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 45 papers.
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Who cites it
45 citing papers in PubMed, 71 citations in OpenAlex.
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- Tools For Building Artificial Biological Nanostructures.ACS nano · 2026Review
- Paranemic Cohesion of DNA under Isothermal Conditions.JACS Au · 2026Article
- Cytoskeletal prestress homeostasis is a biological principle that governs living cell structure and function.Mechanobiology in medicine · 2026Review
- Designer RNA nanostructures co-transcribed and self-assembled inside human cell nuclei.Nature communications · 2025Article
- Switchback RNA.ACS chemical biology · 2024Article
- Therapeutic applications of RNA nanostructures.RSC advances · 2024Review
- RNA four-way junction (4WJ) for spontaneous cancer-targeting, effective tumor-regression, metastasis suppression, fast renal excretion and undetectable toxicity.Biomaterials · 2024Article
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- A DNA rotary nanodevice operated by enzyme-initiated strand resetting.Chemical communications (Cambridge, England) · 2024Article
- Diversity of Self-Assembled RNA Complexes: From Nanoarchitecture to Nanomachines.Molecules (Basel, Switzerland) · 2023Article
- RNA origami: design, simulation and application.RNA biology · 2023Review
- Rational design for controlled release of Dicer-substrate siRNA harbored in phi29 pRNA-based nanoparticles.Molecular therapy. Nucleic acids · 2021Article
- Thermostability, Tunability, and Tenacity of RNA as Rubbery Anionic Polymeric Materials in Nanotechnology and Nanomedicine-Specific Cancer Targeting with Undetectable Toxicity.Chemical reviews · 2021Review
- Branched kissing loops for the construction of diverse RNA homooligomeric nanostructures.Nature chemistry · 2020Article
- Tuning the size, shape and structure of RNA nanoparticles for favorable cancer targeting and immunostimulation.Wiley interdisciplinary reviews. Nanomedicine and nanobiotechnology · 2020Review
- Nucleic Acid Nanoparticles at a Crossroads of Vaccines and Immunotherapies.Molecules (Basel, Switzerland) · 2019Review
- Modulating Immune Response with Nucleic Acid Nanoparticles.Molecules (Basel, Switzerland) · 2019Review
- Programming Structured DNA Assemblies to Probe Biophysical Processes.Annual review of biophysics · 2019Review
- First Step Towards Larger DNA-Based Assemblies of Fluorescent Silver Nanoclusters: Template Design and Detailed Characterization of Optical Properties.Nanomaterials (Basel, Switzerland) · 2019Article
Corrections and comments
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
Abstract
The paranemic crossover (PX) is a motif for assembling two nucleic acid molecules using Watson-Crick (WC) basepairing without unfolding preformed secondary structure in the individual molecules. Once formed, the paranemic assembly motif comprises adjacent parallel double helices that crossover at every possible point over the length of the motif. The interaction is reversible as it does not require denaturation of basepairs internal to each interacting molecular unit. Paranemic assembly has been demonstrated for DNA but not for RNA and only for motifs with four or more crossover points and lengths of five or more helical half-turns. Here we report the design of RNA molecules that paranemically assemble with the minimum number of two crossovers spanning the major groove to form paranemic motifs with a length of three half turns (3HT). Dissociation constants (Kd's) were measured for a series of molecules in which the number of basepairs between the crossover points was varied from five to eight basepairs. The paranemic 3HT complex with six basepairs (3HT_6M) was found to be the most stable with Kd = 1 x 10-8 M. The half-time for kinetic exchange of the 3HT_6M complex was determined to be approximately 100 min, from which we calculated association and dissociation rate constants ka = 5.11 x 103 M-1s-1 and kd = 5.11 x 10-5 s-1. RNA paranemic assembly of 3HT and 5HT complexes is blocked by single-base substitutions that disrupt individual intermolecular Watson-Crick basepairs and is restored by compensatory substitutions that restore those basepairs. The 3HT motif appears suitable for specific, programmable, and reversible tecto-RNA self-assembly for constructing artificial RNA molecular machines.
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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.