Thermodynamic role of main reaction pathway and multi-body information flow in membrane transport

Abstract

The two classes of membrane transport, namely, secondary active and passive transport, are understood as different reaction pathways in the same protein structure, described by the 16-state model in this paper. To quantify the thermodynamic difference between secondary active transport and passive transport, we extend the second law of information thermodynamics of the autonomous demon in the four-state model composed of two subsystems to the 16-state model composed of four subsystems representing the membrane transport. We reduce the 16 states to 4 states and derive the coarse-grained second law of information thermodynamics, which provides an upper bound of the free energy transport by the coarse-grained information flow. We also derive an upper bound on the free energy transport by the multi-body information flow representing the two-body or four-body correlations in the 16-state model by exploiting the cycle decomposition. The coarse-grained information flow and the multi-body information flows express the quantitative difference between secondary active and passive transport. The numerical analysis shows that the coarse-grained information flow is positive for secondary active transport and negative for passive transport. The four-body correlation is dominant in the multi-body information flows for secondary active transport. In contrast, the two-body correlation is dominant for passive transport. This result shows that both the sign of the coarse-grained information flow and the difference of the four-body correlation and the two-body correlation explain the difference of the free energy transport in secondary active and passive transport.

arXiv comment20 pages, 8 figures

References in corpus (53)

• Stochastic thermodynamics, fluctuation theorems, and molecular machines
• Information heat engine: converting information to energy by feedback control
• The role of quantum information in thermodynamics --- a topical review
• Generalized Jarzynski Equality under Nonequilibrium Feedback Control
• High-precision test of Landauer's principle in a feedback trap
• Experimental realization of a Szilard engine with a single electron
• Stochastic thermodynamics under coarse-graining
• Second law and Landauer principle far from equilibrium
• Work and information processing in a solvable model of Maxwell's demon
• Nonequilibrium Physics in Biology
• Nonequilibrium Thermodynamics of Feedback Control
• The thermodynamics of prediction
• Fluctuation Theorem with Information Exchange: Role of Correlations in Stochastic Thermodynamics
• Thermodynamics of a physical model implementing a Maxwell demon
• Nonequilibrium Thermodynamics of Chemical Reaction Networks: Wisdom from Stochastic Thermodynamics
• Thermodynamics with continuous information flow
• Nonequilibrium Detailed Fluctuation Theorem for Repeated Discrete Feedback
• Fluctuation theorem for currents and Schnakenberg network theory
• Stochastic thermodynamics of bipartite systems: transfer entropy inequalities and a Maxwell's demon interpretation
• Thermodynamic costs of information processing in sensory adaption
• Efficiency of cellular information processing
• Information Thermodynamics on Causal Networks
• Maxwell's demon in biochemical signal transduction with feedback loop
• Fluctuation Theorem for Partially-masked Nonequilibrium Dynamics
• Second-law-like inequalities with information and their interpretations
• Large work extraction and the Landauer limit in a continuous Maxwell demon
• An autonomous and reversible Maxwell's demon
• Thermodynamic efficiency of information and heat flow
• Information Thermodynamics of Turing Patterns
• Geometrical aspects of entropy production in stochastic thermodynamics based on Wasserstein distance
• Sensory capacity: an information theoretical measure of the performance of a sensor
• Multipartite information flow for multiple Maxwell demons
• The thermodynamics of computational copying in biochemical systems
• Biochemical machines for the interconversion of mutual information and work
• Thermodynamic uncertainty relation and thermodynamic speed limit in deterministic chemical reaction networks
• Stochastic Thermodynamics of Learning
• General Principles of Secondary Active Transporter Function
• Role of measurement-feedback separation in autonomous Maxwell's demons
• Thermodynamic limits to information harvesting by sensory systems
• Correlation-powered Information Engines and the Thermodynamics of Self-Correction
• Mutual Entropy-Production and Sensing in Bipartite Systems
• Coarse-grained entropy production with multiple reservoirs: unraveling the role of time-scales and detailed balance in biology-inspired systems
• Information Geometric Inequalities of Chemical Thermodynamics
• Backward transfer entropy: Informational measure for detecting hidden Markov models and its interpretations in thermodynamics, gambling and causality
• Uncertainty relations and fluctuation theorems for Bayes nets
• Marginal and Conditional Second Laws of Thermodynamics
• Linear Irreversible Thermodynamics and Onsager Reciprocity for Information-driven Engines
• Continuous information flow fluctuations
• Unified framework for the entropy production and the stochastic interaction based on information geometry
• Information-theoretic analysis of the directional influence between cellular processes
• Dissipation reduction and information-to-measurement conversion in DNA pulling experiments with feedback protocols
• Nonequilibrium free energy and information flow of a double quantum-dot system with Coulomb coupling
• Fluctuation theorems for multiple co-evolving systems