ArticleBiochemistry2009
Monovalent cation binding in the minor groove of DNA A-tracts.
Article in Biochemistry, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 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.
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Who cites it
11 citing papers in PubMed, 35 citations in OpenAlex.
- Capillary Electrophoresis Can Detect the Simultaneous Presence of Hairpins and Self-Dimers in Non-Symmetric, Single-Stranded DNA Oligomers.Electrophoresis · 2025Article
- Effect of Internal and Bulge Loops on the Thermal Stability of Small DNA Duplexes.The journal of physical chemistry. B · 2024Article
- Examining the Effects of Netropsin on the Curvature of DNA A-Tracts Using Electrophoresis.Molecules (Basel, Switzerland) · 2021Article
- The structural plasticity of nucleic acid duplexes revealed by WAXS and MD.Science advances · 2021Article
- Electrophoretic Mobility of DNA in Solutions of High Ionic Strength.Biophysical journal · 2020Article
- Effects of trimethylamineScience and technology of advanced materials · 2016Article
- Flanking A·T basepairs destabilize the B(∗) conformation of DNA A-tracts.Biophysical journal · 2015Article
- The free solution mobility of DNA and other analytes varies as the logarithm of the fractional negative charge.Electrophoresis · 2014Article
- DNA A-tracts are not curved in solutions containing high concentrations of monovalent cations.Biochemistry · 2013Article
- Effect of molecular crowding and ionic strength on the isothermal hybridization of oligonucleotides.The journal of physical chemistry. B · 2010Article
- DNA curvature and flexibility in vitro and in vivo.Quarterly reviews of biophysics · 2010Review
Corrections and comments
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
Abstract
The binding of five different monovalent cations to DNA oligomers containing A-tracts, runs of four or more contiguous adenine residues, has been assessed by capillary electrophoresis, using the Replacement Ion method. In this method, a nonbinding cation in the background electrolyte is gradually replaced by a binding cation, keeping the ionic strength of the solution constant. Monovalent cation binding reduces the effective charge of an A-tract-containing oligomer, decreasing its free solution mobility. The cations bind in the A-tract minor groove, because the binding site can be blocked by the minor groove binding drug netropsin. Li(+), NH(4)(+), and Tris(+) ions bind to A-tracts with similar affinities; the binding of Na(+) ions is weaker, and K(+) ion binding is highly variable. Each A-tract appears to bind one monovalent cation upon saturation of the binding site(s). For a given cation, the apparent dissociation constants depend on A-tract sequence and orientation, but not on the phasing of the A-tracts with respect to the helix repeat. Differences in the cooperativity of binding of the various cations to A-tracts with different sequences suggest that monovalent cation binding may be coupled with a conformational transition leading to the formation of the characteristic narrow minor groove A-tract structure.
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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.