Long-lived states of oscillator chain with dynamical traps

A simple model of oscillator chain with dynamical traps and additive white noise is considered. Its dynamics was studied numerically. As demonstrated, when the trap effect is pronounced nonequilibrium phase transitions of a new type arise. Locally they manifest themselves via distortion of the particle arrangement symmetry. Depending on the system parameters the particle arrangement is characterized by the corresponding distributions taking either a bimodal form, or twoscale one, or unimodal onescale form which, however, deviates substantially from the Gaussian distribution. The individual particle velocities exhibit also a number of anomalies, in particular, their distribution can be extremely wide or take a quasi-cusp form. A large number of different cooperative structures and superstructures made of these formations are found in the visualized time patterns. Their evolution is, in some sense, independent of the individual particle dynamics, enabling us to regard them as dynamical phases.Comment: 8 pages, 5 figurs, TeX style of European Physical Journa

Weak temporal signals can synchronize and accelerate the transition dynamics of biopolymers under tension

In addition to thermal noise, which is essential to promote conformational transitions in biopolymers, cellular environment is replete with a spectrum of athermal fluctuations that are produced from a plethora of active processes. To understand the effect of athermal noise on biological processes, we studied how a small oscillatory force affects the thermally induced folding and unfolding transition of an RNA hairpin, whose response to constant tension had been investigated extensively in both theory and experiments. Strikingly, our molecular simulations performed under overdamped condition show that even at a high (low) tension that renders the hairpin (un)folding improbable, a weak external oscillatory force at a certain frequency can synchronously enhance the transition dynamics of RNA hairpin and increase the mean transition rate. Furthermore, the RNA dynamics can still discriminate a signal with resonance frequency even when the signal is mixed among other signals with nonresonant frequencies. In fact, our computational demonstration of thermally induced resonance in RNA hairpin dynamics is a direct realization of the phenomena called stochastic resonance (SR) and resonant activation (RA). Our study, amenable to experimental tests using optical tweezers, is of great significance to the folding of biopolymers in vivo that are subject to the broad spectrum of cellular noises.Comment: 22 pages, 7 figure

MOBILITY IN A ONE-DIMENSIONAL DISORDER POTENTIAL

In this article the one-dimensional, overdamped motion of a classical particle is considered, which is coupled to a thermal bath and is drifting in a quenched disorder potential. The mobility of the particle is examined as a function of temperature and driving force acting on the particle. A framework is presented, which reveals the dependence of mobility on spatial correlations of the disorder potential. Mobility is then calculated explicitly for new models of disorder, in particular with spatial correlations. It exhibits interesting dynamical phenomena. Most markedly, the temperature dependence of mobility may deviate qualitatively from Arrhenius formula and a localization transition from zero to finite mobility may occur at finite temperature. Examples show a suppression of this transition by disorder correlations.Comment: 10 pages, latex, with 3 figures, to be published in Z. Phys.