Analytical aspects of the Brownian motor effect in randomly flashing ratchets

DOI10.1007/S00285-013-0684-4MaRDI QIDQ2249669zbMATH OpenOpenAlexWikidataFDO

Authors Dmitry Vorotnikov

Publication date 3 July 2014

Published in Journal of Mathematical Biology (Search for Journal in Brave)

Full work available at URL https://arxiv.org/abs/1302.0253

zbMATH Keywords

transportFokker-Planck equationstationary solutionflashing ratchetconformationmotor proteinactive sitediffusive mean

Mathematics Subject Classification ID

Applications of functional analysis in biology and other sciences (46N60) Linear boundary value problems for ordinary differential equations (34B05) Reaction-diffusion equations (35K57) Fokker-Planck equations (35Q84) PDEs in connection with biology, chemistry and other natural sciences (35Q92) Fixed-point theorems (47H10) Stochastic methods (Fokker-Planck, Langevin, etc.) applied to problems in time-dependent statistical mechanics (82C31) Statistical mechanics of polymers (82D60)

Abstract: The muscle contraction, operation of ATP synthase, maintaining the shape of a cell are believed to be secured by motor proteins, which can be modelled using the Brownian ratchet mechanism. We consider the randomly flashing ratchet model of a Brownian motor, where the particles can be in two states, only one of which is sensitive the applied spatially periodic potential (the mathematical setting is a pair of weakly coupled reaction-diffusion and Fokker-Planck equations). We prove that this mechanism indeed generates unidirectional transport by showing that the amount of mass in the wells of the potential decreases/increases from left to right. The direction of transport is unambiguously determined by the location of each minimum of the potential with respect to the so-called diffusive mean of its adjacent maxima. The transport can be generated not only by an asymmetric potential, but also by a symmetric potential and asymmetric transition rates, and as a consequence of the general result we derive explicit conditions when the latter happens. When the transitions are localized on narrow active sites in the protein conformation space, we find a more explicit characterization of the bulk transport direction, and infer that some common preconditions of the motor effect are redundant.

Recommendations

• The flashing ratchet and unidirectional transport of matter
• Diffusion-mediated transport and the flashing ratchet.
• Brownian motors: noisy transport far from equilibrium
• Molecular motors, Brownian ratchets, and reflected diffusions
• Transport in a fluctuating potential

Cites work

• scientific article; zbMATH DE number 474678 (Why is no real title available?)
• scientific article; zbMATH DE number 3199943 (Why is no real title available?)
• A homogenization approach for the motion of motor proteins
• A homogenization approach to flashing ratchets
• A variational principle for molecular motors
• Asymmetric potentials and motor effect: a homogenization approach
• Asymmetric potentials and motor effect: a large deviation approach
• Diffusion Mediated Transport in Multiple State Systems
• Diffusion-mediated transport and the flashing ratchet.
• Discrete–time ratchets, the Fokker–Planck equation and Parrondo's paradox
• The Variational Formulation of the Fokker--Planck Equation
• The flashing ratchet and unidirectional transport of matter
• The paradox of Parrondo's games
• Transport in a molecular motor system
• Uniform convergence for approximate traveling waves in linear reaction-hyperbolic systems

Cited in

(16)

• Molecular motors, Brownian ratchets, and reflected diffusions
• On the kinetics that moves myosin V
• Motility and energetics of randomly flashing ratchets
• Large-deviation principles of switching Markov processes via Hamilton-Jacobi equations
• On the bulk velocity of Brownian ratchets
• Mathematical interpretation of Brownian motor model: limit cycles and directed transport phenomena
• Deterministic collective directional transport in one-dimensional flashing ratchet potentials
• Diffusion-mediated transport and the flashing ratchet.
• scientific article; zbMATH DE number 2144579 (Why is no real title available?)
• Brownian motors: noisy transport far from equilibrium
• A homogenization approach to flashing ratchets
• Computer Aided Systems Theory – EUROCAST 2005
• Asymmetric potentials and motor effect: a large deviation approach
• A Brownian ratchet for protein translocation including dissociation of ratcheting sites
• THE CURRENT CHARACTERISTICS OF TWO-STATE FLASHING RATCHETS COMPOSED OF TWO ASYMMETRIC POTENTIALS
• Asymptotics of a Brownian ratchet for protein translocation

This page was built for publication: Analytical aspects of the Brownian motor effect in randomly flashing ratchets

Report a bug (only for logged in users!)Click here to report a bug for this page (MaRDI item Q2249669)