title: Static contributions to the persistence length of DNA and dynamic contributions to DNA curvature.
abstract: Long molecules of DNA have the statistical properties of a worm-like coil. Deviations from linearity occur both because of small dynamic bends induced by thermal motion and from a random distribution of static bends. The latter originate in the different conformations of each of the possible base pair sequences. In this paper a statistical theory of the persistence length of DNA is developed which includes both static and dynamic effects for each base pair sequence, as well as the sequence-dependent correlations of bending angles. The result applies to a generic DNA, i.e., the average over an ensemble of all possible sequences. The theory is also applied to the generation of the average properties of curved DNAs by an analytic method that includes dynamic averaging as well as correlated bends. These results provide information which supplements that obtained by others using Monte Carlo methods. The additivity relation 1/P = 1/P(S) + 1/P(d) proposed by Trifonov et al., where P is the persistence length and P(S) and P(d) are the persistence lengths arising from purely static and dynamic effects, respectively, has been verified to be accurate to better than 0.5%. This is true for both a simplified model and one that includes a complete set of static bends at all base pair sequences.
authors.affiliation: Institute for Molecular Biology, University of Oregon, Eugene, USA.
authors.forename: J A
authors.initials: JA
authors.lastname: Schellman
authors.forename: S C
authors.initials: SC
authors.lastname: Harvey
mesh_terms: D001482:Base Composition; D001483:Base Sequence; D004247:DNA / Q000737:chemistry*; D008433:Mathematics; D008962:Models, Theoretical; D009690:Nucleic Acid Conformation
chemical_list: D004247:DNA