Nano breathers and molecular dynamics simulations in hydrogen-bonded chains

Energy transport mechanism in the form of proton soliton in a one-dimensional hydrogen-bonded polypeptide chain

The dynamics of protons in a one-dimensional hydrogen-bonded (HB) polypeptide chain (PC) is investigated theoretically. A new Hamiltonian is formulated with the inclusion of higher-order molecular interactions between peptide groups (PGs). The wave function of the excitation state of a single particle is replaced by a new wave function of a two-quanta quasi-coherent state. The dynamics is governed by a higher-order nonlinear Schrödinger equation and the energy transport is performed by the proton soliton. A nonlinear multiple-scale perturbation analysis has been performed and the evolution of soliton parameters such as velocity and amplitude is explored numerically. The proton soliton is thermally stable and very robust against these perturbations. The energy transport by the proton soliton is more appropriate to understand the mechanism of energy transfer in biological processes such as muscle contraction, DNA replication, and neuro-electric pulse transfer on biomembranes.

Heat transport enhanced by optical phonons in one-dimensional anharmonic lattices with alternating bonds

In lattice systems, the effects of optical phonons on heat transport are usually neglected due to their relatively small group velocities compared with acoustic phonons, or even assumed to be negative because introducing optical phonons may simultaneously reduce the group velocities of acoustic phonons. In order to well understand the role played by optical phonons, we propose a one-dimensional anharmonic lattice model with alternating interactions, where the optical phonons can be conveniently tuned. We find that in contrast to previous studies, the optical phonons (in coordination with the nonlinearities) can enhance heat transport in the thermodynamical limit, suggesting that optical phonons can also play an active role. The underlying mechanism is related to the effects of two kinds of nonlinear excitations, i.e., the optical and the gap discrete breathers (DBs). These DBs release energy and in turn facilitate heat transport.