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Flow of Energy and Information in Molecular Machines

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arxiv 2406.10355 v1 pith:U442T6KF submitted 2024-06-14 cond-mat.stat-mech physics.bio-ph

classification cond-mat.stat-mechphysics.bio-ph
keywords machinesmolecularenergyinformationcomponentsfreefree-energyreview
verification ladder T0 review T1 audit T2 compute T3 formal
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Molecular machines transduce free energy between different forms throughout all living organisms. While truly machines in their own right, unlike their macroscopic counterparts molecular machines are characterized by stochastic fluctuations, overdamped dynamics, and soft components, and operate far from thermodynamic equilibrium. In addition, information is a relevant free-energy resource for molecular machines, leading to new modes of operation for nanoscale engines. Towards the objective of engineering synthetic nanomachines, an important goal is to understand how molecular machines transduce free energy to perform their functions in biological systems. In this review we discuss the nonequilibrium thermodynamics of free-energy transduction within molecular machines, with a focus on quantifying energy and information flows between their components. We review results from theory, modeling, and inference from experiments that shed light on the internal thermodynamics of molecular machines, and ultimately explore what we can learn from considering these interactions.

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Cited by 2 Pith papers

Reviewed papers in the Pith corpus that reference this work. Sorted by Pith novelty score. Full citation record

  1. Large Interconnected Thermodynamic Systems Nearly Minimize Entropy Production

    cond-mat.stat-mech 2025-07 conditional novelty 6.0 of 10

    Numerical sampling of random nonequilibrium Markov chains shows steady-state entropy production approaching its minimum as the number of states grows.

  2. Information thermodynamics for Markov jump processes coupled to underdamped diffusion: Application to nanoelectromechanics

    cond-mat.stat-mech 2024-12 conditional novelty 6.0 of 10

    The authors derive information-thermodynamic fluctuation theorems for mixed jump-diffusion systems and apply them to show that self-oscillations in a single-electron shuttle are fueled by energy transfer rather than i...

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