相关论文: Discrete breathers in nonlinear network models of …
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…
Recently, using a numerical surface cooling approach, we have shown that highly energetic discrete breathers (DB) can form in the stiffest parts of nonlinear network models of large protein structures. In the present study, using an…
We investigate how nonlinearity and topological disorder affect the energy relaxation of local kicks in coarse-grained network models of proteins. We find that nonlinearity promotes long-range, coherent transfer of substantial energy to…
We discuss the process by which energy, initially evenly distributed in a nonlinear lattice, can localize itself into large amplitude excitations. We show that, the standard modulational instability mechanism, which can initiate the process…
In this paper we propose a novel theoretical framework for interpreting long-range dynamical correlations unveiled in proteins through NMR measurements. The theoretical rationale relies on the hypothesis that correlated motions in proteins…
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…
Protein machines often exhibit long range interplay between different sites in order to achieve their biological tasks. We investigate and characterize the non--linear energy localization and the basic mechanisms of energy transfer in…
We report the observation of spontaneous localization of energy in two spatial dimensions in the context of nonlinear electrical lattices. Both stationary and traveling self-localized modes were generated experimentally and theoretically in…
Collective protein modes are expected to be important for facilitating energy transfer in the Fenna-Matthews-Olson (FMO) complex, however to date little work has focussed on the microscopic details of these vibrations. The nonlinear network…
Localized receptive fields -- neurons that are selective for certain contiguous spatiotemporal features of their input -- populate early sensory regions of the mammalian brain. Unsupervised learning algorithms that optimize explicit…
We explore dynamics of discrete breathers and multi-breathers in finite one-dimensional chain. The model involves parabolic on-site potential with rigid constraints and linear nearest-neighbor coupling. The rigid non-ideal impact…
The spatial organization of complex biochemical reactions is essential for the regulation of cellular processes. Membrane-less structures called foci containing high concentrations of specific proteins have been reported in a variety of…
Intrinsic localized modes, also called discrete breathers, can exist under certain conditions in one-dimensional nonlinear electrical lattices driven by external harmonic excitations. In this work, we have studied experimentally the…
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…
The network paradigm is increasingly used to describe the topology and dynamics of complex systems. Here we review the results of the topological analysis of protein structures as molecular networks describing their small-world character,…
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…
We theoretically study the transport properties of self-propelled particles on complex structures, such as motor proteins on filament networks. A general master equation formalism is developed to investigate the persistent motion of…
We investigate transient nonlinear localization, namely the self-excitation of energy bursts in an atomic lattice at finite temperature. As a basic model we consider the diatomic Lennard-Jones chain. Numerical simulations suggest that the…
Artificial intelligence in the form of deep learning is now very popular and directly implemented in many areas of science and technology. In the present work we study time evolution of Discrete Breathers in one-dimensional nonlinear chains…
We report on the existence of discrete breathers in a one-dimensional, mass-in-mass chain with linear intersite coupling and nonlinear Hertzian local resonators, which is motivated by recent studies of the dynamics of microspheres adhered…