Related papers: Moving breathers in a bent DNA-related model

We report the results of molecular dynamics simulations of an off-lattice protein model featuring a physical force-field and amino-acid sequence. We show that localized modes of nonlinear origin (discrete breathers) emerge naturally as…

An enhancement of localized nonlinear modes in coupled systems gives rise to a novel type of escape process. We study a spatially one dimensional set-up consisting of a linearly coupled oscillator chain of $N$ mass-points situated in a…

Collision process between breather and moving kink-soliton is investigated both analytically and numerically in Fermi-Pasta-Ulam (FPU) chains. As it is shown by both analytical and numerical consideration low amplitude breathers and soft…

The unique geometry of the two-dimensional tripartite Kagome lattice is responsible for shaping diverse families of spatially localized and time-periodic nonlinear modes known as discrete breathers. We state conditions for the existence of…

Discrete breathers, or intrinsic localized modes, are spatially localized, time--periodic, nonlinear excitations that can exist and propagate in systems of coupled dynamical units. Recently, some experiments show the sighting of a form of…

An 1d model with time-dependent random hopping is proposed to describe charge transport in DNA. It admits to investigate both diffusion of electrons and their tunneling between different sites in DNA. The tunneling appears to be strongly…

We study the existence and stability of multibreathers in Klein-Gordon chains with interactions that are not restricted to nearest neighbors. We provide a general framework where such long range effects can be taken into consideration for…

We study the tautomeric transitions in base pairs of DNA considering elastic properties of DNA as classical and tunneling of protons as quantum, and show that the dynamics of the transitions admits of soliton like solutions whose shape and…

We study the dynamics of the discrete nonlinear Schr{\"o}dinger lattice initialized such that a very long transitory period of time in which standard Boltzmann statistics is insufficient is reached. Our study of the nonlinear system locked…

Crowded environments modify the diffusion of macromolecules, generally slowing their movement and inducing transient anomalous subdiffusion. The presence of obstacles also modifies the kinetics and equilibrium behavior of tracers. While…

We study metastable motions in weakly damped Hamiltonian systems. These are believed to inhibit the transport of energy through Hamiltonian, or nearly Hamiltonian, systems with many degrees of freedom. We investigate this question in a very…

In this paper, we present a theory to efficiently deal with mechanical properties of heterogeneous polymer chain in free space and the central problem is to evaluate the diffusion equation and orientation-orientation correlation function,…

Following Poland and Scheraga, we consider a simplified model for the denaturation transition of DNA. The two strands are modeled as interacting polymer chains. The attractive interactions, which mimic the pairing between the four bases,…

In the present work, we examine a prototypical model for the formation of bright breathers in nonlinear left-handed metamaterial lattices. Utilizing the paradigm of nonlinear transmission lines, we build a relevant lattice and develop a…

Metamaterials, i.e., artificially structured ("synthetic") media comprising weakly coupled discrete elements, exhibit extraordinary properties and they hold a great promise for novel applications including super-resolution imaging,…

We propose a dynamical model depicting the interactions between DNA and a specific binding protein involving long range transmissions. The dynamics rely on the coupling between Hydrogen bonds formed between DNA and protein and between the…

We generate and observe discrete rotobreathers in Josephson junction ladders with open boundaries. Rotobreathers are localized excitations that persist under the action of a spatially uniform force. We find a rich variety of stable dynamic…

One-dimensional chain of pointwise particles harmonically coupled with nearest neighbors and placed in six-order polynomial on-site potentials is considered. Power of the energy source in the form of single ac driven particles is calculated…

The quantum modes of a nonlinear Klein Gordon lattice have been computed numerically [L. Proville, Phys. Rev. B, vol. 71, 104306 (2005)]. The on-site nonlinearity has been found to lead to a phonon pairing and consequently some phonon bound…

Quantum breathers are studied numerically in several electron-phonon coupled finite chain systems, in which the coupling results in intrinsic nonlinearity but with varying degrees of nonadiabaticity. As for quantum nonlinear lattice…