A non-Markov ratchet model of molecular motors：processive movement of single-headed kinesin KIF1A

A fluctuating ratchet model of non-Markov process is presented to describe the processive movement of molecular motors of single-headed kinesin KIF1A,where the fluctuation perturbation to the local potential is introduced and the detailed ATPase pathway of the motor is included. The theoretical results show good quantitative agreement with the previous experimental ones.     

Double-temperature ratchet model and current reversal of coupled Brownian motors

On the basis of the transport features and experimental phenomena observed in studies of molecular motors, we propose a double-temperature ratchet model of coupled motors to reveal the dynamical mechanism of cooperative transport of motors with two heads, where the interactions and asynchrony between two motor heads are taken into account. We investigate the collective unidirectional transport of coupled system and find that the direction of motion can be reversed under certain conditions. Reverse motion can be achieved by modulating the coupling strength, coupling free length, and asymmetric coefficient of the periodic potential, which is understood in terms of the effective potential theory. The dependence of the directed current on various parameters is studied systematically. Directed transport of coupled Brownian motors can be manipulated and optimized by adjusting the pulsation period or the phase shift of the pulsation temperature.     

Entropy in quantum ratchet for a delta-kicked model

We investigate the evolution of Shannon entropy in quantum ratchet effect for a delta-kicked model, where a particle with initial momentum zero is periodically kicked by an asymmetric potential. It is shown that the evolution of Shannon entropy of the particle can remarkably reflect whether quantum resonance emerges and gives rise to ratchet current or not. Furthermore, for different kinds of quantum resonances, low-order or high-order quantum resonances, the evolutions of the entropy are quite different.     

Force constant analysis of molecular groups in apatite solids

The results of normal coordinte analyses demonstrate that the simple Urey-Bradley force field gives a reasonable representation of the potential-energy function of PO₄^3? in pyromorphite (Pb₁₀(PO₄)₆Cl₂) but is unsatisfactory for AsO₄^3? and VO₄^3? in mimetite (Pb₁₀(AsO₄)₆Cl₂) and vanadinite (Pb₁₀(VO₄)₆Cl₂). respectively. Theoretical band assignments are made for PO₄^3? in pyromorphite using simple Urey-Bradley force field and based on a good frequency fit, a physically reasonable set of molecular force constants and some experimental confirmation. The general order of magnitude and trends in force constants are physically realistic. The theoretical analysis provides additional confirmation for the assignment of the v₂ bending mode to a higher-frequency, lower-intensity band at 436 cm^?1 in the infrared. Eigenvector calculations allow determination of which internal coordinates are major contributors to the various normal modes.     

Current reversal and mass separation of inertial Brownian motors in a two-noise ratchet

Transport of an inertial Brownian motor moving in an asymmetric periodic potential driven by an external force and correlated noises is investigated. Using the numerical algorithm, the asymptotic mean velocity (AMV) for characterizing directed transport is obtained. The effects of the external driving force f and the correlation λ between the two noises on the AMV are discussed. The results manifest: (1) the external driving force and the correlation between the two noises can lead to the phenomena like current reversal. (2) The competitions among the external driving force and the correlation between the two noises are necessary for current reversal, i.e., fλ>0. (3) Different directions of transport are found for different masses of the Brownian particles under the condition fλ>0. Therefore a theoretical study is suggested for separating Brownian particles according to their different masses in the ratchet system.     

A model for the self-organization of microtubules driven by molecular motors

We propose a two-dimensional model for the organization of stabilized microtubules driven by molecular motors in an unconfined geometry. In this model two kinds of dynamics are competing. The first one is purely diffusive, with an interaction between the rotational degrees of freedom, while the second one is a local drive, dependent on microtubule polarity. As a result, there is a configuration dependent driving field. Applying a molecular field approximation, we are able to derive continuum equations. A study on the solutions of these equations shows non-equilibrium inhomogeneous steady states in various regions of the parameter space. The presence and stability of such self-organized states are investigated in terms of entropy production. Numerical simulations confirm our analytic results. Received 4 August 1999 and Received in final form 24 November 1999     

Feedback control of two-headed Brownian motors in flashing ratchet potential

We presented a detailed investigation on the movement of two-headed Brownian motors in an asymmetric potential under a feedback control.By numerical simulations the direct current is obtained.The current is periodic in the initial length of spring.There is an optimal value of the spring constant.And the dependence of the current on the opposing force is reversed.Then we found that when the change of the temperature and the opposing force have optimal values,the Brownian motors can also obtain the optimal efficiency.     

Two-dimensional model of elastically coupled molecular motors

A flashing ratchet model of a two-headed molecular motor in a two-dimensional potential is proposed to simulate the hand-over-hand motion of kinesins. Extensive Langevin simulations of the model are performed. We discuss the dependences of motion and efficiency on the model parameters, including the external force and the temperature. A good qualitative agreement with the expected behavior is observed.     

Two-dimensional model of elastically coupled molecular motors

A flashing ratchet model of a two-headed molecular motor in a two-dimensional potential is proposed to simulate the hand-over-hand motion of kinesins.Extensive Langevin simulations of the model are performed.We discuss the dependences of motion and efficiency on the model parameters,including the external force and the temperature.A good qualitative agreement with the expected behavior is observed.     

分数阶布朗马达在闪烁棘齿势中的合作输运现象

引入分数阶微积分理论,建立耦合分数阶布朗马达在闪烁棘齿势中的合作输运模型, 利用分数阶差分法求得模型数值解并分析了模型参数对合作定向输运性质的影响. 发现在具有记忆性的分数阶棘齿系统中, 系统阶数与粒子间耦合强度不仅可影响粒子链输运速度, 还可使粒子链出现与整数阶方向相反的定向流; 在阶数固定下, 定向输运速度将随参数(噪声强度、耦合强度、棘齿势峰值高度)变化出现广义随机共振现象. 关键词： 分数阶布朗马达 闪烁棘齿势 合作定向输运 广义随机共振     

Medium dependence of the bag constant in the quark-meson coupling model

Possible variations of the quark-meson coupling (QMC) model are examined in which the bag constant decreases in the nuclear medium. The reduction is supposed to depend on either the mean scalar field or the effective mass of the nucleon. It is shown that the electric and magnetic radii of the bound nucleon are almost linearly correlated with the bag constant. Using the fact that the size of the bound nucleon inside a nucleus is strongly constrained by y-scaling data in quasi-elastic, electron-nucleus scattering, we set a limit for the reduction allowed in the bag constant for these two models. The present study implies that the bag constant can decrease up to 10–17% at average nuclear density, depending on the details of the model.     

A general two-cycle network model of molecular motors

Molecular motors are single macromolecules that generate forces at the piconewton range and nanometer scale. They convert chemical energy into mechanical work by moving along filamentous structures. In this paper, we study the velocity of two-head molecular motors in the framework of a mechanochemical network theory. The network model, a generalization of the recently work of Liepelt and Lipowsky [Steffen Liepelt, Reinhard Lipowsky, Kinesins network of chemomechanical motor cycles, Physical Review Letters 98 (25) (2007) 258102], is based on the discrete mechanochemical states of a molecular motor with multiple cycles. By generalizing the mathematical method developed by Fisher and Kolomeisky for a single cycle motor [Michael E. Fisher, Anatoly B. Kolomeisky, Simple mechanochemistry describes the dynamics of kinesin molecules, Proceedings of the National Academy of Sciences 98 (14) (2001) 7748-7753], we are able to obtain an explicit formula for the velocity of a molecular motor.     

Fluctuation symmetry in a two-state Markov model

We show that the scaled cumulant generating and large deviation function, associated to a two-state Markov process involving two processes, obey a symmetry relation reminiscent of the fluctuation theorem, independent from any conditions on the transition rates. The Legendre transform leading from the scaled cumulant generating function to the large deviation function is performed in an ingenious way, avoiding the sign problem associated to taking a square root. Applications to the theory of random walks and to the stochastic thermodynamics for a quantum dot are presented.     

Role of molecular size in ratchet fractionation

We show the importance of finite particle size in microfluidic asymmetric continuous-flow diffusion arrays, specifically the critical nature of the particle size with respect to the barrier gaps. We show that particles much smaller than the barrier gap follow individual field lines through narrow gaps and are poorly fractionated. In contrast, particles comparable to the gap size lose memory of their incoming field line and can be fractionated with high resolution. We demonstrate this effect using a new technological approach to create very straight and narrow injection bands in such arrays, and completely resolve bands of DNA of lengths 48,500 and 16,7000 base pairs.     

带反馈的分数阶耦合布朗马达的定向输运

研究具有幂律记忆性的带反馈耦合布朗马达的定向输运现象, 引入分数阶理论, 建立了带反馈的分数阶耦合布朗马达模型, 利用分数阶差分法求得模型数值解并分析了模型参数对合作定向输运性质的影响. 仿真结果表明, 系统的记忆性通过影响带反馈的棘齿势的打开和闭合而影响粒子的定向输运, 即当系统的阶数在较小的范围内, 系统的记忆性会使带反馈的棘齿势的开关频率增加, 从而增大定向流速; 当系统其他参数(势垒高度、噪声强度等)固定时, 输运速度随着阶数的变化出现广义随机共振现象.     

Low-order harmonic generation of hydrogen molecular ion in laser field studied by the two-state model

The low-order harmonic generation of hydrogen molecular ion interacting with a linearly polarized laser field has been investigated theoretically by using a simple two-state model. The validity of the two-state model is carefully examined by comparing the harmonic spectra of hydrogen molecular ion obtained from this model with those from the three-dimensional time-dependent Schr¨odinger equation. When combined with the Morlet transform of quantum time-frequency spectrum,the two-state model can be used to study the dynamical origin of the low-order harmonic generation of hydrogen molecular ion driven by low-frequency pulses. In addition, some interesting structures of the time profiles for low order harmonics are obtained.     

Coupling constant dependence in a special model of nonlinear field theory with internal symmetry

Localized excitations in the form of solitary waves of the Klein-Gordon-equation with cubic nonlinearity in one space and time dimension are studied and the observable physical quantities are investigated with respect to their dependence on the coupling constant. A complete and consistent calculation is possible by imposing an U(1)-symmetry, i.e. using complex fields. Two dispersion branches occur, where the corresponding energies are regular in one and highly singular in the other case.Presented at the International Symposium Selected Topics in Quantum Field Theory and Mathematical Physics, Bechyn, Czechoslovakia, June 14–19, 1981.