Related papers: Entropy and efficiency of a molecular motor model
Torque is ubiquitous in many molecular systems, including collisions, chemical reactions, vibrations, electronic excitations and especially rotor molecules. We present a straightforward theoretical method based on forces acting on atoms and…
Biomolecular machines transduce free energy from one form to another to fulfill many important roles inside cells, with dissipation required to achieve directed progress. We investigate how to break time-reversal symmetry at a given…
Biological transport is supported by collective dynamics of enzymatic molecules that are called motor proteins or molecular motors. Experiments suggest that motor proteins interact locally via short-range potentials. We investigate the…
We derive a bound on the efficiency of thermal engines that can be sharper than Carnot's limit. It is a function of statistical correlations between the engine internal state and Hamiltonian, can be saturated even in finite-time cycles, and…
The emergence of a direction of time in statistical mechanics from an underlying time-reversal-invariant dynamics is explained by examining a simple model. The manner in which time-reversal symmetry is preserved and the role of initial…
The Carnot engine sets an upper limit to the efficiency of a practical heat engine. An arbitrary irreversible engine is sometimes believed to behave closely as the Curzon-Ahlborn engine. Efficiency of the latter is obtained commonly by…
We introduce an alternative route for obtaining reliable cyclic engines, based on interacting Brownian particles under time-periodic drivings. General expressions for the thermodynamic fluxes, such as power and heat, are obtained using the…
Characterizing the efficiency of movements is important for a better management of the cities. More specifically, the connection between the efficiency and uncertainty (entropy) production of a transport process is not established yet. In…
For periodically driven systems, we derive a family of inequalities that relate entropy production with experimentally accessible data for the mean, its dependence on driving frequency, and the variance of a large class of observables. With…
We show that transport in the presence of entropic barriers exhibits peculiar characteristics which makes it distinctly different from that occurring through energy barriers. The constrained dynamics yields a scaling regime for the particle…
We investigate the dependence of the displacements of a molecular motor embedded inside a glassy material on its folding characteristic time. We observe two different time regimes. For slow foldings (regime I) the diffusion evolves very…
Three problems in the statistical mechanics of models for an assembly of molecular motors interacting with cytoskeletal filaments are reviewed. First, a description of the hydrodynamical behaviour of density-density correlations in…
The efficiency of different types of Brownian motors is calculated analytically and numerically. We find that motors based on flashing ratchets present a low efficiency and an unavoidable entropy production. On the other hand, a certain…
We consider a molecular machine described as a Brownian particle diffusing in a tilted periodic potential. We evaluate the absorbed and released power of the machine as a function of the applied molecular and chemical forces, by using the…
Motor enzymes are remarkable molecular machines that use the energy derived from the hydrolysis of a nucleoside triphosphate to generate mechanical movement, achieved through different steps that constitute their kinetic cycle. These…
There is a relation between the irreversibility of thermodynamic processes as expressed by the breaking of time-reversal symmetry, and the entropy production in such processes. We explain on an elementary mathematical level the relations…
A new approach is developed to integrate numerically the equations of motion for systems of interacting rigid polyatomic molecules. With the aid of a leapfrog framework, we directly involve principal angular velocities into the integration,…
From an entropy-based formulation of the first law of thermodynamics in the quantum regime, we investigate the performance of Otto-like and Carnot-like engines for a single-qubit working medium. Within this framework, the first law includes…
Incorporating time into thermodynamics allows addressing the tradeoff between efficiency and power. A qubit engine serves as a toy model to study this tradeoff from first principles, based on the quantum theory of open systems. We study the…
We investigate the thermodynamic efficiency of sub-micro-scale heat engines operating under the conditions described by over-damped stochastic thermodynamics. We prove that at maximum power the efficiency obeys for constant isotropic…