title: The curvature of dA tracts is temperature dependent.
abstract: The curvature of dA tracts has been proposed to be important in the recognition, packaging, and regulation of DNA. The effects of dA tracts on the gel mobility, rate of cyclization, and other properties of DNA have been extensively studied. The consensus value for the curvature induced by a single dA tract is about 18 degrees. There are two main competing models for the origin of the curvature of dA tracts. One model assigns the central role to sequence-dependent steric clashes and the other to sequence dependent interactions with cations. The temperature dependence of the shape functions, the molecule specific part of the diffusion coefficients, of a set of six DNAs has been examined here. The set contains DNAs with dA tracts in or out of phase with respect to the helical repeat as well as those with scrambled dA-dT regions. The results show that the curvature of dA tracts is highly temperature dependent and that the curvature is largely melted out by 40 degrees C. The curvature melts out before there is significant premelting, or breathing of the dA tracts or the scrambled dA-dT regions. The curvature does not appear to reach a plateau value at low temperatures. A qualitative model for the melting of the curvature of dA tracts is proposed.
authors.affiliation: Chemistry Department, Wesleyan University, Middletown, Connecticut 06459, USA.
authors.forename: B
authors.initials: B
authors.lastname: Jerkovic
authors.forename: P H
authors.initials: PH
authors.lastname: Bolton
mesh_terms: D004247:DNA / Q000737:chemistry*; D003839:Deoxyadenosines / Q000737:chemistry; D008956:Models, Chemical; D019906:Nuclear Magnetic Resonance, Biomolecular; D009690:Nucleic Acid Conformation; D009838:Oligodeoxyribonucleotides / Q000737:chemistry*; D011522:Protons; D013329:Structure-Activity Relationship; D013696:Temperature
chemical_list: D003839:Deoxyadenosines; D009838:Oligodeoxyribonucleotides; D011522:Protons; C030570:oligodeoxyadenylic acid; D004247:DNA