ArticleNucleic acids research2009
Molecular recognition of poly(A) by small ligands: an alternative method of analysis reveals nanomolar, cooperative and shape-selective binding.
Article in Nucleic acids research, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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12 citing papers in PubMed, 74 citations in OpenAlex.
- Article
- Identification of Plant-derived Alkaloids with Therapeutic Potential for Myotonic Dystrophy Type I.The Journal of biological chemistry · 2016Article
- Reprogramming the assembly of unmodified DNA with a small molecule.Nature chemistry · 2016Article
- Nucleic acid-selective light-up fluorescent biosensors for ratiometric two-photon imaging of the viscosity of live cells and tissues.Chemical science · 2016Article
- A small molecule--DNA binding landscape.Biopolymers · 2015Article
- Selective lighting up of epiberberine alkaloid fluorescence by fluorophore-switching aptamer and stoichiometric targeting of human telomeric DNA G-quadruplex multimer.Analytical chemistry · 2015Article
- Natural and artificial binders of polyriboadenylic acid and their effect on RNA structure.Beilstein journal of nanotechnology · 2015Review
- Unexpected complex formation between coralyne and cyclic diadenosine monophosphate providing a simple fluorescent turn-on assay to detect this bacterial second messenger.Analytical chemistry · 2014Article
- Binding of phenazinium dye safranin T to polyriboadenylic acid: spectroscopic and thermodynamic study.PloS one · 2014Article
- RNA targeting by small molecules: Binding of protoberberine, benzophenanthridine and aristolochia alkaloids to various RNA structures.Journal of biosciences · 2012Review
- Intercalation as a means to suppress cyclization and promote polymerization of base-pairing oligonucleotides in a prebiotic world.Proceedings of the National Academy of Sciences of the United States of America · 2010Article
- New aspects of the interaction of the antibiotic coralyne with RNA: coralyne induces triple helix formation in poly(rA)*poly(rU).Nucleic acids research · 2010Article
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Authors and funding
2 authors at 1 institution in 1 country.
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No grant is acknowledged in the PubMed record.
Abstract
A few drug-like molecules have recently been found to bind poly(A) and induce a stable secondary structure (T(m) approximately 60 degrees C), even though this RNA homopolymer is single-stranded in the absence of a ligand. Here, we report results from experiments specifically designed to explore the association of small molecules with poly(A). We demonstrate that coralyne, the first small molecule discovered to bind poly(dA), binds with unexpectedly high affinity (K(a) >10(7) M(-1)), and that the crescent shape of coralyne appears necessary for poly(A) binding. We also show that the binding of similar ligands to poly(A) can be highly cooperative. For one particular ligand, at least six ligand molecules are required to stabilize the poly(A) self-structure at room temperature. This highly cooperative binding produces very sharp transitions between unstructured and structured poly(A) as a function of ligand concentration. Given the fact that junctions between Watson-Crick and A.A duplexes are tolerated, we propose that poly(A) sequence elements and appropriate ligands could be used to reversibly drive transitions in DNA and RNA-based molecular structures by simply diluting/concentrating a sample about the poly(A)-ligand 'critical concentration'. The ligands described here may also find biological or medicinal applications, owing to the 3'-polyadenylation of mRNA in living cells.
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