[Published online Journal of Computer Chemistry, Japan -International Edition Vol.6, -, by J-STAGE]
<Title:> Development of PolyParGenv2 Software for Determination of Molecular Dynamics Simulation Parameters for Molecules with Crosslinked or Condensed Ring Structures
<Author(s):> Makoto YABE, Kazuki MORI, Jun KOYANAGI
<Corresponding author E-Mill:> kazuki.mori.013(at)ctc-g.co.jp
<Abstract:> We had previously developed o2p, a parameter conversion semi-automation program for polymers with repeating structures, and PolyParGen, a parameter acquisition program primarily meant for chainlike macromolecules. These programs use the parameters obtained via the automatic parameter generation tool. However, with these programs, it is difficult to acquire parameters of molecules with crosslinked structures or large condensed ring structures. To acquire these parameters, herein we improved the algorithm to develop PolyParGen v2. Further, this program adds Antechamber as the automatic parameter generation tool and can obtain the Amber force field parameter for polymers. This program was evaluated via simulations using graphene, carbon nanotubes, and fullerene. Our results agree with those of previous studies and verify the effectiveness of the proposed program.
<Keywords:> Molecular dynamics simulation, Macromolecules, Parameters, Gromacs, Polymer
<URL:> https://www.jstage.jst.go.jp/article/jccjie/6/0/6_2019-0031/_html
