Do you want to publish a course? Click here

Non-Markovian fluctuations in Markovian models of protein dynamics

260   0   0.0 ( 0 )
 Added by Ronojoy Adhikari
 Publication date 2008
  fields Physics
and research's language is English




Ask ChatGPT about the research

Recent experiments using fluorescence spectroscopy have been able to probe the dynamics of conformational fluctuations in proteins. The fluctuations are Gaussian but do not decay exponentially, and are therefore, non-Markovian. We present a theory where non-Markovian fluctuation dynamics emerges naturally from the superposition of the Markovian fluctuations of the normal modes of the protein. A Rouse-like dynamics of the normal modes provides very good agreement to the experimentally measured correlation functions. We provide simple scaling arguments rationalising our results.



rate research

Read More

Most theories of homogeneous nucleation are based on a Fokker-Planck-like description of the behavior of the mass of clusters. Here we will show that these approaches are incomplete for a large class of nucleating systems, as they assume the effective dynamics of the clusters to be Markovian, i.e., memoryless. We characterize these non-Markovian dynamics and show how this influences the dynamics of clusters during nucleation. Our results are validated by simulations of a three-dimensional Ising model with locally conserved magnetization.
The persistence exponent theta for the global order parameter, M(t), of a system quenched from the disordered phase to its critical point describes the probability, p(t) sim t^{-theta}, that M(t) does not change sign in the time interval t following the quench. We calculate theta to O(epsilon^2) for model A of critical dynamics (and to order epsilon for model C) and show that at this order M(t) is a non-Markov process. Consequently, theta is a new exponent. The calculation is performed by expanding around a Markov process, using a simplified version of the perturbation theory recently introduced by Majumdar and Sire [Phys. Rev. Lett. _77_, 1420 (1996); cond-mat/9604151].
Non-Markovian dynamics pervades human activity and social networks and it induces memory effects and burstiness in a wide range of processes including inter-event time distributions, duration of interactions in temporal networks and human mobility. Here we propose a non-Markovian Majority-Vote model (NMMV) that introduces non-Markovian effects in the standard (Markovian) Majority-Vote model (SMV). The SMV model is one of the simplest two-state stochastic models for studying opinion dynamics, and displays a continuous order-disorder phase transition at a critical noise. In the NMMV model we assume that the probability that an agent changes state is not only dependent on the majority state of his neighbors but it also depends on his {em age}, i.e. how long the agent has been in his current state. The NMMV model has two regimes: the aging regime implies that the probability that an agent changes state is decreasing with his age, while in the anti-aging regime the probability that an agent changes state is increasing with his age. Interestingly, we find that the critical noise at which we observe the order-disorder phase transition is a non-monotonic function of the rate $beta$ of the aging (anti-aging) process. In particular the critical noise in the aging regime displays a maximum as a function of $beta$ while in the anti-aging regime displays a minimum. This implies that the aging/anti-aging dynamics can retard/anticipate the transition and that there is an optimal rate $beta$ for maximally perturbing the value of the critical noise. The analytical results obtained in the framework of the heterogeneous mean-field approach are validated by extensive numerical simulations on a large variety of network topologies.
We investigate what a snapshot of a quantum evolution - a quantum channel reflecting open system dynamics - reveals about the underlying continuous time evolution. Remarkably, from such a snapshot, and without imposing additional assumptions, it can be decided whether or not a channel is consistent with a time (in)dependent Markovian evolution, for which we provide computable necessary and sufficient criteria. Based on these, a computable measure of `Markovianity is introduced. We discuss how the consistency with Markovian dynamics can be checked in quantum process tomography. The results also clarify the geometry of the set of quantum channels with respect to being solutions of time (in)dependent master equations.
The classical Hall effect resulting from the impact of external magnetic and electric fields on the non-Markovian dynamics of charge carriers is studied. The dependence of the tangent of the Hall angle on the magnetic field is derived and compared with the experimental data for Zn. The method is proposed to determine experimentally the memory time in a system.
comments
Fetching comments Fetching comments
Sign in to be able to follow your search criteria
mircosoft-partner

هل ترغب بارسال اشعارات عن اخر التحديثات في شمرا-اكاديميا