Sphere Encapsulated Monte Carlo: Obtaining Minimum Energy Configurations of Large Aromatic Systems.


Journal

The journal of physical chemistry. A
ISSN: 1520-5215
Titre abrégé: J Phys Chem A
Pays: United States
ID NLM: 9890903

Informations de publication

Date de publication:
22 Aug 2019
Historique:
pubmed: 25 7 2019
medline: 25 7 2019
entrez: 25 7 2019
Statut: ppublish

Résumé

We introduce a simple global optimization approach that is able to find minimum energy configurations of clusters containing aromatic molecules. The translational and rotational perturbations required in Monte Carlo-based methods often lead to unrealistic configurations within which two or more molecular rings intersect, causing many of the computational steps to be rejected and the optimization process to be inefficient. Here we develop a modification of the basin-hopping global optimization procedure tailored to tackle problems with intersecting molecular rings. Termed the Sphere Encapsulated Monte Carlo (SEMC) method, this method introduces sphere-based rearrangement and minimization steps at each iteration, and its performance is shown through the exploration of potential energy landscapes of polycyclic aromatic hydrocarbon (PAH) clusters, systems of interest in combustion and astrophysics research. The SEMC method provides clusters that are accurate to 5% mean difference of the minimum energy at a 10-fold speed up compared to previous work using advanced molecular dynamics simulations. Importantly, the SEMC method captures key structural characteristics and molecular size partitioning trends as measured by the molecular radial distances and coordination numbers. The advantages of the SEMC method are further highlighted in its application to previously unstudied heterogeneous PAH clusters.

Identifiants

pubmed: 31339720
doi: 10.1021/acs.jpca.9b04821
doi:

Types de publication

Journal Article

Langues

eng

Sous-ensembles de citation

IM

Pagination

7303-7313

Auteurs

Kimberly Bowal (K)

Department of Chemical Engineering and Biotechnology , University of Cambridge , Cambridge CB3 0AS , U.K.

Peter Grančič (P)

Institute of Soil Research , University of Natural Resources and Life Sciences , Vienna A-1190 , Austria.

Jacob W Martin (JW)

Department of Chemical Engineering and Biotechnology , University of Cambridge , Cambridge CB3 0AS , U.K.
Cambridge Centre for Advanced Research and Education in Singapore (CARES) , Singapore 138602 , Singapore.

Markus Kraft (M)

Department of Chemical Engineering and Biotechnology , University of Cambridge , Cambridge CB3 0AS , U.K.
Cambridge Centre for Advanced Research and Education in Singapore (CARES) , Singapore 138602 , Singapore.
School of Chemical and Biomedical Engineering , Nanyang Technological University , Singapore 637459 , Singapore.

Classifications MeSH