Nonequilibrium Transport Induced by Biological Nanomachines
arXiv:2206.01019 · doi:10.1142/S1793048022310026
Abstract
Biological nanomachines are nanometer-size macromolecular complexes that catalyze chemical reactions in the presence of substrate molecules. The catalytic functions carried out by such nanomachines in the cytoplasm, and biological membranes are essential for cellular metabolism and homeostasis. During catalytic reactions, enzymes undergo conformational changes induced by substrate binding and product release. In recent years, these conformational dynamics have been considered to account for the nonequilibrium transport phenomena such as diffusion enhancement, chemotaxis, and substantial change in rheological properties, which are observed in biological systems. In this review article, we shall give an overview of the recent theoretical and experimental investigations that deal with nonequilibrium transport phenomena induced by biological nanomachines such as enzymes or proteins.
arXiv comment14 pages, 11 figures
References in corpus (43)
- A Simplest Swimmer at Low Reynolds Number: Three Linked Spheres
- The 2019 Motile Active Matter Roadmap
- Non-Abelian adiabatic statistics and Hall viscosity in quantum Hall states and p_x+ip_y paired superfluids
- Viscosity of Quantum Hall Fluids
- Turning bacteria suspensions into a "superfluid"
- State-dependent diffusion: thermodynamic consistency and its path integral formulation
- Odd viscosity in chiral active fluids
- Effective viscosity of microswimmer suspensions
- Emergent collective phenomena in a mixture of hard shapes through active rotation
- Analytic results for the three-sphere swimmer at low Reynolds number
- Topological waves in fluids with odd viscosity
- Active phase separation in mixtures of chemically interacting particles
- A physical perspective on cytoplasmic streaming (invited)
- Odd viscosity in two-dimensional incompressible fluids
- Enhanced Diffusion of Enzymes that Catalyze Exothermic Reactions
- Hydrodynamic Collective Effects of Active Protein Machines in Solution and Lipid Bilayers
- Statistical mechanics of a chiral active fluid
- Odd viscosity in active matter: microscopic origin and 3D effects
- Exothermicity is not a necessary condition for enhanced diffusion of enzymes
- Nonlinear Relaxation Dynamics in Elastic Networks and Design Principles of Molecular Machines
- Swimming at Low Reynolds Number in Fluids with Odd (Hall) Viscosity
- Correlated diffusion of membrane proteins and their effect on membrane viscosity
- Anomalous bulk-edge correspondence in continuous media
- Direct Single Molecule Imaging of Enhanced Enzyme Diffusion
- A bulk-interface correspondence for equatorial waves
- Robust boundary flow in chiral active fluid
- Stokes flows in three-dimensional fluids with odd and parity-violating viscosities
- Fast crystallization of rotating membrane proteins
- Correlated dynamics of inclusions in a supported membrane
- Time reversal symmetry breaking and odd viscosity in active fluids: Green-Kubo and NEMD results
- Diffusion of an Enzyme: the Role of Fluctuation-Induced Hydrodynamic Coupling
- Non-reciprocal response of a two-dimensional fluid with odd viscosity
- Edge Current and Pairing Order Transition in Chiral Bacterial Vortex
- Time reversal symmetry breaking in two-dimensional non-equilibrium viscous fluids
- Hydrodynamic lift of a two-dimensional liquid domain with odd viscosity
- Non-equilibrium phase separation in mixtures of catalytically active particles: size dispersity and screening effects
- Molecular Diffusivity of Click Reaction Components: The Diffusion Enhancement Question
- Mechanochemical enzymes and protein machines as hydrodynamic force dipoles: The active dimer model
- Lateral diffusion induced by active proteins in a biomembrane
- Chemical and hydrodynamic alignment of an enzyme
- Emergent Stripes of Active Rotors in Shear Flows
- Shear viscosity of two-state enzyme solutions
- Hydrodynamic collective effects of active proteins in biological membranes
Cited by in corpus (13)
- Lorentz Reciprocal Theorem in Fluids with Odd Viscosity
- Hydrodynamics of an odd active surfer in a chiral fluid
- Onsager's variational principle for nonreciprocal systems with odd elasticity
- Pair dynamics of active force dipoles in an odd-viscous fluid
- Generalized Three-Sphere Microswimmers
- Chirotactic response of microswimmers in fluids with odd viscosity
- Odd elasticity of a catalytic micromachine
- Analytical solution for the hydrodynamic resistance of a disk in a compressible fluid layer with odd viscosity on a rigid substrate
- Non-reciprocity is necessary for robust dimensional reduction and strong responses in stochastic topological systems
- Force Dipole Interactions in Tubular Fluid Membranes
- Hydrodynamic flow field and frictional resistance coefficient of a disk rotating steadily in a compressible fluid layer with odd viscosity on a rigid substrate
- Dumbbell dimer dynamics in three-dimensional chiral fluids
- Irreversibility of stochastic state transitions in Langevin systems with odd elasticity