Simulating a flexible water model as rigid: Best practices and lessons learned.


Journal

The Journal of chemical physics
ISSN: 1089-7690
Titre abrégé: J Chem Phys
Pays: United States
ID NLM: 0375360

Informations de publication

Date de publication:
07 Apr 2023
Historique:
medline: 9 4 2023
entrez: 8 4 2023
pubmed: 9 4 2023
Statut: ppublish

Résumé

Two ways to create rigid versions of flexible models are explored. The rigid model can assume the Model's Geometry (MG) as if the molecule is not interacting with any other molecules or the ensemble averaged geometry (EG) under a particular thermodynamic condition. Although the MG model is more straightforward to create, it leads to relatively poor performance. The EG model behaves similarly to the corresponding flexible model (the FL model) and, in some cases, agrees even better with experiments. While the difference between the EG and the FL models is mostly a result of flexibility, the MG and EG models have different dipole moments as a result of an effective induction in the condensed phase. For the three water models studied, the property that shows the most difference is the temperature dependence of density. The MG version of the water model by adaptive force matching for ice and liquid does not possess a temperature of maximum density, which is attributed to a downshift of the putative liquid-liquid phase transition line, leading to the hypothesized second critical point of liquid water to manifest at negative pressure. A new three-phase coexistence method for determining the melting temperature of ice is also presented.

Identifiants

pubmed: 37031157
doi: 10.1063/5.0143836
pmc: PMC10076064
doi:

Types de publication

Journal Article

Langues

eng

Sous-ensembles de citation

IM

Pagination

134506

Subventions

Organisme : NIGMS NIH HHS
ID : P20 GM103429
Pays : United States
Organisme : NIGMS NIH HHS
ID : R01 GM120578
Pays : United States

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Auteurs

Raymond Weldon (R)

Department of Chemistry and Biochemistry, University of Arkansas, Fayetteville, Arkansas 72701, USA.

Feng Wang (F)

Department of Chemistry and Biochemistry, University of Arkansas, Fayetteville, Arkansas 72701, USA.

Classifications MeSH