Oscillations in p-adic diffusion processes and simulation of the conformational dynamics of protein

Logarithmic oscillations superimposed on a power-law trend appear in the behavior of various complex hierarchical systems. In this paper, we study the logarithmic oscillations of relaxation curves in p-adic diffusion models that are used to describe the conformational dynamics of protein. We consider the case of a purely p-adic diffusion, as well as the case of p-adic diffusion with a reaction sink. We show that, relaxation curves for large times in these two cases are described by a power law on which logarithmic oscillations are superimposed whose period and amplitude are determined by the parameters of the model. We also provide a physical explanation of the emergence of oscillations in relaxation curves and discuss the relation of the results to the experiments on relaxation dynamics of protein.Comment: 23 pages, 5 figure

Random Hierarchical Matrices: Spectral Properties and Relation to Polymers on Disordered Trees

We study the statistical and dynamic properties of the systems characterized by an ultrametric space of states and translationary non-invariant symmetric transition matrices of the Parisi type subjected to "locally constant" randomization. Using the explicit expression for eigenvalues of such matrices, we compute the spectral density for the Gaussian distribution of matrix elements. We also compute the averaged "survival probability" (SP) having sense of the probability to find a system in the initial state by time $t$. Using the similarity between the averaged SP for locally constant randomized Parisi matrices and the partition function of directed polymers on disordered trees, we show that for times $t>t_{\rm cr}$ (where $t_{\rm cr}$ is some critical time) a "lacunary" structure of the ultrametric space occurs with the probability $1-{\rm const}/t$. This means that the escape from some bounded areas of the ultrametric space of states is locked and the kinetics is confined in these areas for infinitely long time.Comment: 7 pages, 2 figures (the paper is essentially reworked

First Passage Time Distribution and Number of Returns for Ultrametric Random Walk

In this paper, we consider a homogeneous Markov process \xi(t;\omega) on an ultrametric space Q_p, with distribution density f(x,t), x in Q_p, t in R_+, satisfying the ultrametric diffusion equation df(x,t)/dt =-Df(x,t). We construct and examine a random variable \tau (\omega) that has the meaning the first passage times. Also, we obtain a formula for the mean number of returns on the interval (0,t] and give its asymptotic estimates for large t.Comment: 20 page

p-Adic description of characteristic relaxation in complex systems

This work is a further development of an approach to the description of relaxation processes in complex systems on the basis of the p-adic analysis. We show that three types of relaxation fitted into the Kohlrausch-Williams-Watts law, the power decay law, or the logarithmic decay law, are similar random processes. Inherently, these processes are ultrametric and are described by the p-adic master equation. The physical meaning of this equation is explained in terms of a random walk constrained by a hierarchical energy landscape. We also discuss relations between the relaxation kinetics and the energy landscapes.Comment: AMS-LaTeX (+iopart style), 9 pages, submitted to J.Phys.

Some aspects of the mm-adic analysis and its applications to mm-adic stochastic processes

In this paper we consider a generalization of analysis on $p$-adic numbers field to the $m$ case of $m$-adic numbers ring. The basic statements, theorems and formulas of $p$-adic analysis can be used for the case of $m$-adic analysis without changing. We discuss basic properties of $m$-adic numbers and consider some properties of $m$-adic integration and $m$-adic Fourier analysis. The class of infinitely divisible $m$-adic distributions and the class of $m$-adic stochastic Levi processes were introduced. The special class of $m$-adic CTRW process and fractional-time $m$-adic random walk as the diffusive limit of it is considered. We found the asymptotic behavior of the probability measure of initial distribution support for fractional-time $m$-adic random walk.Comment: 18 page