Base-Pairing and Base-Stacking Contributions to Double-Stranded DNA Formation
نویسندگان
چکیده
منابع مشابه
Base-stacking and base-pairing contributions into thermal stability of the DNA double helix
Two factors are mainly responsible for the stability of the DNA double helix: base pairing between complementary strands and stacking between adjacent bases. By studying DNA molecules with solitary nicks and gaps we measure temperature and salt dependence of the stacking free energy of the DNA double helix. For the first time, DNA stacking parameters are obtained directly (without extrapolation...
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Recent single-macromolecule observations revealed that the force/extension characteristics of single-stranded DNA (ssDNA) are closely related to solution ionic concentration and DNA sequence composition. To understand this, we studied the elastic property of ssDNA through the Monte Carlo implementation of a modified freely jointed chain (FJC), with electrostatic, base-pairing, and base-pair sta...
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We propose a statistical mechanics model for DNA melting in which base stacking and pairing are explicitly introduced as distinct degrees of freedom. Unlike previous approaches, this model describes thermal denaturation of DNA secondary structure in the whole experimentally accessible temperature range. Base pairing is described through a zipper model, base stacking through an Ising model. We p...
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ژورنال
عنوان ژورنال: The Journal of Physical Chemistry B
سال: 2020
ISSN: 1520-6106,1520-5207
DOI: 10.1021/acs.jpcb.0c07670