Entropy production for mechanically or chemically driven biomolecules
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Publication:2641385
biomoleculesBrownian motionchemical kinetics in biological systemsfluctuation phenomenarandom processesthermodynamics
Stochastic methods (Fokker-Planck, Langevin, etc.) applied to problems in time-dependent statistical mechanics (82C31) Irreversible thermodynamics, including Onsager-Machlup theory (82C35) Biochemistry, molecular biology (92C40) Kinetics in biochemical problems (pharmacokinetics, enzyme kinetics, etc.) (92C45)
Abstract: Entropy production along a single stochastic trajectory of a biomolecule is discussed for two different sources of non-equilibrium. For a molecule manipulated mechanically by an AFM or an optical tweezer, entropy production (or annihilation) occurs in the molecular conformation proper or in the surrounding medium. Within a Langevin dynamics, a unique identification of these two contributions is possible. The total entropy change obeys an integral fluctuation theorem and a class of further exact relations, which we prove for arbitrarily coupled slow degrees of freedom including hydrodynamic interactions. These theoretical results can therefore also be applied to driven colloidal systems. For transitions between different internal conformations of a biomolecule involving unbalanced chemical reactions, we provide a thermodynamically consistent formulation and identify again the two sources of entropy production, which obey similar exact relations. We clarify the particular role degenerate states have in such a description.
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Cites work
- A Gallavotti-Cohen-type symmetry in the large deviation functional for stochastic dynamics
- A Markov model for kinesin
- Brownian motors: noisy transport far from equilibrium
- Fluctuation theorem for stochastic dynamics
- Free energy transduction in a chemical motor model
- scientific article; zbMATH DE number 5278506 (Why is no real title available?)
- scientific article; zbMATH DE number 3566657 (Why is no real title available?)
- Microscopic analysis of Clausius-Duhem processes
- Quantal-classical correspondence impulse theory
Cited in
(13)- Entropy generation at the cellular level during freezing process of biological materials
- On the stochastic thermodynamics of reactive systems
- Entropy production of a mechanically driven single oligomeric enzyme: a consequence of fluctuation theorem
- A model of cooperativity based on restricted binding: kinetic and thermodynamic analysis
- Fluctuation relations for non-Markovian and heterogeneous temperature systems
- Ergodic pumping: a mechanism to drive biomolecular conformation changes
- Entropy production of active particles and for particles in active baths
- Entropy and Free Energy in Structural Biology
- Fluctuation theorems for stochastic dynamics
- Entropic force between biomembranes
- Chemomechanical coupling of molecular motors: thermodynamics, network representations, and balance conditions
- Charged Brownian particles: Kramers and Smoluchowski equations and the hydrothermodynamical picture
- Stochastic thermodynamics: principles and perspectives
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