A novel method for molecular dynamics simulation in the isothermal-isobaric ensemble

Cunkui Huang*, Chunli Li, Phillip Y.K. Choi, K. Nandakumar, Larry W. Kostiuk

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

5 Scopus citations

Abstract

A novel algorithm is proposed to study fluid properties in the isothermal-isobaric (NPT) ensemble. The major feature of this approach is that the constant pressure in the NPT ensemble is created by two auto-adjusting boundaries that allow the system volume to fluctuate. Relative to other methods used to create the NPT ensemble, this approach is simpler to perform since no additional variables are introduced into the simulation system. To test this method, two systems with the same constant target pressure and temperature but different thermostats (Nose-Hoover and Berendsen) were performed by using a commonly used cut-off distance (i.e. rc =2.5σ). The simulation results show that the proposed method works well in terms of creating spatially uniform mean temperature, pressure and density while still allowing ppropriate levels of instantaneous fluctuations for observable quantities. The fluctuations of the system volume produced by this method were compared with that calculated by the theoretical equation. To test the reliability of the proposed method, additional simulations were carried out at eight different thermodynamic states but with the use of a longer cut-off distance (rc = 4.5σ). The results were compared with those obtained using the Nose-Hoover barostat with an rc of 4.5σ, as well as with experiments. The comparison shows that the results using the algorithm proposed in this article agree well with those obtained using other methods.

Original languageEnglish
Pages (from-to)191-202
Number of pages12
JournalMolecular Physics
Volume109
Issue number2
DOIs
StatePublished - 20 Jan 2011
Externally publishedYes

Keywords

  • isothermal-isobaric ensemble
  • molecular simulation
  • statistical mechanics

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