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Updated: Oct 18, 2026

Analyzing Melts and Fluids from Ab Initio Molecular Dynamics Simulations with the UMD Package
Published on: September 17, 2021
Thermal melting of finite-time bonds
Debbie Zhuang1, Dimitrios Fraggedakis2
1Princeton University, Princeton University, Andlinger Center for Energy and the Environment, Princeton, New Jersey 08544, USA and Department of Chemical and Biological Engineering, Princeton, New Jersey 08544, USA.
Abstract:
At finite temperature, an attractive pair potential does not by itself define a bond between two particles. Specifically, two particles initialized near a potential minimum can remain localized over one observation window and escape over another; therefore, bonding is an observation-time-dependent localization problem. Here, we treat bonding as finite-time localization and ask when thermal fluctuations delocalize this state. We measure localization by a fluctuation-derived stiffness, k_{eff}=1/(β〈u^{2}〉), where 〈u^{2}〉 is the variance of the particle separation. For isotropic particle-particle and one-dimensional particle-wall interactions, we derive a nonequilibrium theory based on the finite-time escape problem that yields the nonequilibrium probability density function for the separation coordinate, drawing on ideas from Becker-Döring theory, and thus k_{eff} as a function of temperature and observation time τ_{obs}. We find that as temperature increases or as the sampled region grows, the configuration-space volume outside the well dominates the fluctuations and k_{eff} drops rapidly, signaling the melting of finite-time bonds at a temperature T^{*}. Langevin simulations show the same loss of stiffness for particle-particle and particle-wall potentials, and the theory captures this behavior without any adjustable parameters. The temperature T^{*} marks finite-time escape from the localized state and therefore depends on the observation window. Although the nonequilibrium probability density function is obtained exactly, evaluating k_{eff} from its moments requires numerical quadrature. To provide a simplified analytical representation of this behavior, we introduce a constrained Boltzmann distribution restricted to a finite region of configuration space of size R_{eq}, where R_{eq} is determined from the nonequilibrium theory. We show that both the nonequilibrium theory and constrained Boltzmann-like representation quantitatively capture the melting of finite-time bonds, with the latter providing an approximate coarse-grained description of bond interactions.
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