- Open Access
Barrier-crossing and energy relaxation dynamics of non-Markovian inertial systems connected via analytical Green-Fokker-Planck approach
Phys. Rev. Research 8, 033311 – Published 14 September, 2026
DOI: https://doi.org/10.1103/vrtr-9dby
Abstract
From numerical simulations, it is known that the barrier-crossing time of a non-Markovian one-dimensional reaction coordinate with a single exponentially decaying memory function exhibits a memory turnover: For intermediate values of the memory decay time, the barrier-crossing time is reduced compared to the Markovian limit, and for long memory times, it increases quadratically with the memory time when keeping the total integrated friction and the mass constant. The intermediate memory acceleration regime is accurately predicted by Grote-Hynes theory; for the asymptotic long-memory slowdown behavior, no systematic analytically tractable theory is available. Starting from the Green's function for a general inertial (i.e., finite-mass) non-Markovian Gaussian reaction coordinate in a harmonic well, we derive by an exact mapping a generalized Fokker-Planck equation with a time-dependent effective diffusion constant. To first order in a systematic cumulant expansion, we derive an analytical Arrhenius expression for the barrier-crossing time with the preexponential factor given by the energy relaxation time, which can be used to robustly predict barrier-crossing times from simulation or experimental trajectory data of general non-Markovian inertial systems without the need to extract memory functions. For a single-exponential memory kernel, we give a closed-form expression for the barrier-crossing time, which reproduces the Kramers turnover between the high-friction and high-mass limits as well as the memory turnover from the intermediate memory acceleration to the asymptotic long-memory slowdown regime. We also demonstrate that a non-Markovian system with single-exponential memory is singular in the zero-mass limit and that the long-memory barrier-crossing slowdown reflects the interplay between mass and memory effects. Thus, physically sound models for non-Markovian systems should include a finite mass.
Physics Subject Headings (PhySH)
Article Text
References (76)
- H. A. Kramers, Brownian motion in a field of force and the diffusion model of chemical reactions, Physica 7, 284 (1940).
- P. B. Visscher, Escape rate for a Brownian particle in a potential well, Phys. Rev. B 13, 3272 (1976).
- D. Chandler, Statistical mechanics of isomerization dynamics in liquids and the transition state approximation, J. Chem. Phys. 68, 2959 (1978).
- J. L. Skinner and P. G. Wolynes, Relaxation processes and chemical kinetics, J. Chem. Phys. 69, 2143 (1978).
- J. T. Hynes, Chemical reaction dynamics in solution, Annu. Rev. Phys. Chem. 36, 573 (1985).
- B. J. Berne, M. Borkovec, and J. E. Straub, Classical and modern methods in reaction rate theory, J. Phys. Chem. 92, 3711 (1988).
- P. Hänggi, P. Talkner, and M. Borkovec, Reaction-rate theory: Fifty years after Kramers, Rev. Mod. Phys. 62, 251 (1990).
- S. Arrhenius, Über die Reaktionsgeschwindigkeit bei der Inversion von Rohrzucker durch Säuren, Z. Phys. Chem. 4U, 226 (1889).
- H. Eyring, The activated complex in chemical reactions, J. Chem. Phys. 3, 107 (1935).
- K. J. Laidler and M. C. King, Development of transition-state theory, J. Phys. Chem. 87, 2657 (1983).
- M. P. Allen, Brownian dynamics simulation of a chemical reaction in solution, Mol. Phys. 40, 1073 (1980).
- J. Trullàs, A. Giró, and J. A. Padró, Langevin dynamics study of NaCl electrolyte solutions at different concentrations, J. Chem. Phys. 93, 5177 (1990).
- B. Lickert and G. Stock, Modeling non-Markovian data using Markov state and Langevin models, J. Chem. Phys. 153, 244112 (2020).
- V. I. Mel'nikov and S. V. Meshkov, Theory of activated rate processes: Exact solution of the Kramers problem, J. Chem. Phys. 85, 1018 (1986).
- H. Grabert, Escape from a metastable well: The Kramers turnover problem, Phys. Rev. Lett. 61, 1683 (1988).
- R. B. Best and G. Hummer, Diffusive model of protein folding dynamics with Kramers turnover in rate, Phys. Rev. Lett. 96, 228104 (2006).
- R. Zwanzig, Memory effects in irreversible thermodynamics, Phys. Rev. 124, 983 (1961).
- H. Mori, Transport, collective motion, and Brownian motion, Prog. Theor. Phys. 33, 423 (1965).
- S. Acharya and B. Bagchi, Non-Markovian rate theory on a multidimensional reaction surface: Complex interplay between enhanced configuration space and memory, J. Chem. Phys. 156, 134101 (2022).
- J. E. Straub, M. Borkovec, and B. J. Berne, Calculation of dynamic friction on intramolecular degrees of freedom, J. Phys. Chem. 91, 4995 (1987).
- C. Hijón, P. Español, E. Vanden-Eijnden, and R. Delgado-Buscalioni, Mori–Zwanzig formalism as a practical computational tool, Faraday Discuss. 144, 301 (2010).
- A. Carof, R. Vuilleumier, and B. Rotenberg, Two algorithms to compute projected correlation functions in molecular dynamics simulations, J. Chem. Phys. 140, 124103 (2014).
- G. Jung, M. Hanke, and F. Schmid, Iterative reconstruction of memory kernels, J. Chem. Theory Comput. 13, 2481 (2017).
- J. O. Daldrop, B. G. Kowalik, and R. R. Netz, External potential modifies friction of molecular solutes in water, Phys. Rev. X 7, 041065 (2017).
- J. O. Daldrop, J. Kappler, F. N. Brünig, and R. R. Netz, Butane dihedral angle dynamics in water is dominated by internal friction, Proc. Natl. Acad. Sci. USA 115, 5169 (2018).
- B. Kowalik, J. O. Daldrop, J. Kappler, Julius C. F. Schulz, A. Schlaich, and R. R. Netz, Memory-kernel extraction for different molecular solutes in solvents of varying viscosity in confinement, Phys. Rev. E 100, 012126 (2019).
- F. Grogan, H. Lei, X. Li, and N. A. Baker, Data-driven molecular modeling with the generalized Langevin equation, J. Comput. Phys. 418, 109633 (2020).
- V. Klippenstein, M. Tripathy, G. Jung, F. Schmid, and N. F. A. van der Vegt, Introducing memory in coarse-grained molecular simulations, J. Phys. Chem. B 125, 4931 (2021).
- H. Vroylandt, L. Goudenège, P. Monmarché, F. Pietrucci, and B. Rotenberg, Likelihood-based non-Markovian models from molecular dynamics, Proc. Natl. Acad. Sci. USA 119, e2117586119 (2022).
- L. Tepper, B. A. Dalton, and R. R. Netz, Accurate memory kernel extraction from discretized time-series data, J. Chem. Theory Comput. 20, 3061 (2024).
- M. Tuckerman and B. Berne, Vibrational relaxation in simple fluids: Comparison of theory and simulation, J. Chem. Phys. 98, 7301 (1993).
- F. Gottwald, S. D. Ivanov, and O. Kühn, Applicability of the Caldeira–Leggett model to vibrational spectroscopy in solution, J. Phys. Chem. Lett. 6, 2722 (2015).
- F. N. Brünig, O. Geburtig, A. von Canal, J. Kappler, and R. R. Netz, Time-dependent friction effects on vibrational infrared frequencies and line shapes of liquid water, J. Phys. Chem. B 126, 1579 (2022).
- B. Bagchi and D. W. Oxtoby, The effect of frequency dependent friction on isomerization dynamics in solution, J. Chem. Phys. 78, 2735 (1983).
- B. A. Dalton, H. Kiefer, and R. R. Netz, The role of memory-dependent friction and solvent viscosity in isomerization kinetics in viscogenic media, Nat. Commun. 15, 3761 (2024).
- S. A. Adelman, Generalized Langevin theory for many-body problems in chemical dynamics: Reactions in liquids, J. Chem. Phys. 73, 3145 (1980).
- G. Ciccotti and J.-P. Ryckaert, On the derivation of the generalized Langevin equation for interacting Brownian particles, J. Stat. Phys. 26, 73 (1981).
- S. Wolf, B. Lickert, S. Bray, and G. Stock, Multisecond ligand dissociation dynamics from atomistic simulations, Nat. Commun. 11, 2918 (2020).
- F. N. Brünig, J. O. Daldrop, and R. R. Netz, Pair-reaction dynamics in water: Competition of memory, potential shape, and inertial effects, J. Phys. Chem. B 126, 10295 (2022).
- S. S. Plotkin and P. G. Wolynes, Non-Markovian configurational diffusion and reaction coordinates for protein folding, Phys. Rev. Lett. 80, 5015 (1998).
- O. F. Lange and H. Grubmüller, Collective Langevin dynamics of conformational motions in proteins, J. Chem. Phys. 124, 214903 (2006).
- R. Satija and D. E. Makarov, Generalized Langevin equation as a model for barrier crossing dynamics in biomolecular folding, J. Phys. Chem. B 123, 802 (2019).
- H. S. Lee, S.-H. Ahn, and E. F. Darve, The multi-dimensional generalized Langevin equation for conformational motion of proteins, J. Chem. Phys. 150, 174113 (2019).
- C. Ayaz, L. Tepper, F. N. Brünig, J. Kappler, J. O. Daldrop, and R. R. Netz, Non-Markovian modeling of protein folding, Proc. Natl. Acad. Sci. USA 118, e2023856118 (2021).
- B. A. Dalton, C. Ayaz, H. Kiefer, A. Klimek, L. Tepper, and R. R. Netz, Fast protein folding is governed by memory-dependent friction, Proc. Natl. Acad. Sci. USA 120, e2220068120 (2023).
- D. T. Schmitt and M. Schulz, Analyzing memory effects of complex systems from time series, Phys. Rev. E 73, 056204 (2006).
- B. G. Mitterwallner, C. Schreiber, J. O. Daldrop, J. O. Rädler, and R. R. Netz, Non-Markovian data-driven modeling of single-cell motility, Phys. Rev. E 101, 032408 (2020).
- E. Herrera-Delgado, J. Briscoe, and P. Sollich, Tractable nonlinear memory functions as a tool to capture and explain dynamical behaviors, Phys. Rev. Res. 2, 043069 (2020).
- F. Hassanibesheli, N. Boers, and J. Kurths, Reconstructing complex system dynamics from time series: A method comparison, New J. Phys. 22, 073053 (2020).
- O. Vilk, R. Metzler, and M. Assaf, Non-Markovian gene expression, Phys. Rev. Res. 6, L022026 (2024).
- A. Klimek, D. Mondal, S. Block, P. Sharma, and R. R. Netz, Data-driven classification of individual cells by their non-Markovian motion, Biophys. J. 123, 1173 (2024).
- H. Kiefer, D. Furtel, C. Ayaz, A. Klimek, J. O. Daldrop, and R. R. Netz, Prediction of weather and financial time-series data via a Hamiltonian-based filter-projection approach, Newton 1, 100138 (2025).
- B. A. Dalton, A. Klimek, H. Kiefer, F. N. Brünig, H. Colinet, L. Tepper, A. Abbasi, and R. R. Netz, Memory and friction: From the nanoscale to the macroscale, Annu. Rev. Phys. Chem. 76, 431 (2025).
- R. F. Grote and J. T. Hynes, The stable states picture of chemical reactions. II. Rate constants for condensed and gas phase reaction models, J. Chem. Phys. 73, 2715 (1980).
- R. Biswas and B. Bagchi, Activated barrier crossing dynamics in slow, viscous liquids, J. Chem. Phys. 105, 7543 (1996).
- D. G. Truhlar and B. C. Garrett, Multidimensional transition state theory and the validity of Grote-Hynes theory, J. Phys. Chem. B 104, 1069 (2000).
- E. Pollak, H. Grabert, and P. Hänggi, Theory of activated rate processes for arbitrary frequency dependent friction: Solution of the turnover problem, J. Chem. Phys. 91, 4073 (1989).
- E. Pollak and P. Talkner, Activated rate processes: Finite-barrier expansion for the rate in the spatial-diffusion limit, Phys. Rev. E 47, 922 (1993).
- J. D. Bryngelson, J. N. Onuchic, N. D. Socci, and P. G. Wolynes, Funnels, pathways, and the energy landscape of protein folding: A synthesis, Proteins: Struct. 21, 167 (1995) .
- A. Berezhkovskii and A. Szabo, One-dimensional reaction coordinates for diffusive activated rate processes in many dimensions, J. Chem. Phys. 122, 014503 (2005).
- O. K. Dudko, G. Hummer, and A. Szabo, Intrinsic rates and activation free energies from single-molecule pulling experiments, Phys. Rev. Lett. 96, 108101 (2006).
- B. Schüller, A. Meistrenko, H. van Hees, Z. Xu, and C. Greiner, Kramers’ escape rate problem within a non-Markovian description, Ann. Phys. 412, 168045 (2020).
- J. E. Straub, M. Borkovec, and B. J. Berne, Non‐Markovian activated rate processes: Comparison of current theories with numerical simulation data, J. Chem. Phys. 84, 1788 (1986).
- J. Kappler, J. O. Daldrop, F. N. Brünig, M. D. Boehle, and R. R. Netz, Memory-induced acceleration and slowdown of barrier crossing, J. Chem. Phys. 148, 014903 (2018).
- J. Kappler, V. B. Hinrichsen, and R. R. Netz, Non-Markovian barrier crossing with two-time-scale memory is dominated by the faster memory component, Eur. Phys. J. E 42, 119 (2019).
- L. Lavacchi, J. Kappler, and R. R. Netz, Barrier crossing in the presence of multi-exponential memory functions with unequal friction amplitudes and memory times, Europhys. Lett. 131, 40004 (2020).
- R. R. Netz, Time-dependent trajectory of a one-dimensional Gaussian non-Markovian observable does not reveal its nonequilibrium character, Phys. Rev. E 112, 014132 (2025).
- R. Zwanzig, Nonequilibrium Statistical Mechanics (Oxford University Press, Oxford, 2001).
- L. Lavacchi, B. A. Dalton, and R. R. Netz, Non-Markovian equilibrium and non-equilibrium barrier-crossing kinetics in asymmetric double-well potentials, Eur. Phys. J. E 48, 26 (2025).
- H. Kiefer, B. J. A. Hery, L. Tepper, B. A. Dalton, C. Ayaz, and R. R. Netz, Analysis and simulation of generalized Langevin equations with non-Gaussian orthogonal forces, J. Chem. Phys. 163, 184114 (2025).
- F. Glatzel and T. Schilling, The interplay between memory and potentials of mean force: A discussion on the structure of equations of motion for coarse grained observables, Europhys. Lett. 136, 36001 (2021).
- B. J. A. Hery, L. Tepper, and R. R. Netz, Comparison of different exact generalized Langevin equations with a non-linear potential of mean force and an observable-dependent mass and friction, arXiv:2606.28426.
- E. S. E. S. Nascimento and W. A. M. Morgado, Non-Markovian effects on overdamped systems, Europhys. Lett. 126, 10002 (2019).
- R. R. Netz, Temporal coarse graining and elimination of slow and periodic dynamics with the generalized Langevin equation for convolution-time-filtered observables, Phys. Rev. E 111, 054132 (2025).
- M. S. Gomes-Filho, L. C. Lapas, E. Gudowska-Nowak, and F. Albuquerque Oliveira, The fluctuation–dissipation relations: Growth, diffusion, and beyond, Phys. Rep. 1141, 1 (2025).
- Q. Zhou, A. Bakaev, L. Lavacchi, R. R. Netz, and B. A. Dalton, Rapid state-recrossing kinetics and slow escape kinetics in non-Markovian systems, Phys. Rev. E 111, 064110 (2025).