Within the recently developed Hamiltonian formulation of the Zimm and Bragg model we re-evaluate several size dependent approximations of model partition function. Our size analysis is based on the ...comparison of chain length
with the maximal correlation (persistence) length ξ of helical conformation. For the first time we re-derive the partition function of zipper model by taking the limits of the Zimm-Bragg eigenvalues. The critical consideration of applicability boundaries for the single-sequence (zipper) and the long chain approximations has shown a gap in description for the range of experimentally relevant chain lengths of 5-10 persistence lengths ξ. Correction to the helicity degree expression is reported. For the exact partition function we have additionally found, that: at N/ξ≈10 the transition temperature Tm reaches its asymptotic behavior of infinite
; the transition interval ΔT needs about a thousand persistence lengths to saturate at its asymptotic, infinite length value. Obtained results not only contribute to the development of the Zimm-Bragg model, but are also relevant for a wide range of Biotechnologies, including the Biosensing applications.
A theory of DNA condensation by multivalent cations in the presence of an external stretching force is presented. It is shown that in the mean-field approximation the system is described by the ...Zimm-Bragg model with effective parameters of growth of ordered phase and cooperativity. Within the frames of the proposed model the experimental results on stretching of a double-stranded DNA of λ-phage are interpreted. Possible scenarios of homo- and heteropolymeric behavior of DNA during condensation are analyzed. A possible mechanism restricting the growth of linear size of DNA is proposed.
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