title: Two-phase stretching of molecular chains.
abstract: Although stretching of most polymer chains leads to rather featureless force-extension diagrams, some, notably DNA, exhibit nontrivial behavior with a distinct plateau region. Here, we propose a unified theory that connects force-extension characteristics of the polymer chain with the convexity properties of the extension energy profile of its individual monomer subunits. Namely, if the effective monomer deformation energy as a function of its extension has a nonconvex (concave up) region, the stretched polymer chain separates into two phases: the weakly and strongly stretched monomers. Simplified planar and 3D polymer models are used to illustrate the basic principles of the proposed model. Specifically, we show rigorously that, when the secondary structure of a polymer is mostly caused by weak noncovalent interactions, the stretching is two phase, and the force-stretching diagram has the characteristic plateau. We then use realistic coarse-grained models to confirm the main findings and make direct connection to the microscopic structure of the monomers. We show in detail how the two-phase scenario is realized in the α-helix and DNA double helix. The predicted plateau parameters are consistent with single-molecules experiments. Detailed analysis of DNA stretching shows that breaking of Watson-Crick bonds is not necessary for the existence of the plateau, although some of the bonds do break as the double helix extends at room temperature. The main strengths of the proposed theory are its generality and direct microscopic connection.
authors: Semenov Institute of Chemical Physics,  Russian Academy of Sciences, Moscow 119991,  Russia.
authors: Alexander V
authors: AV
authors: Savin
authors: Irina P
authors: IP
authors: Kikot
authors: Mikhail A
authors: MA
authors: Mazo
authors: Alexey V
authors: AV
authors: Onufriev
mesh_terms: D004247:DNA / Q000737:chemistry*; D008962:Models, Theoretical; D009690:Nucleic Acid Conformation
chemical_list: D004247:DNA
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