open access

https://hdl.handle.net/2115/97336

Acceleration of Reaction Space Projector Analysis Using Combinatorial Optimization : Application to Organic Chemical Reactions

英語

2024-12-24

American Chemical Society

Journal of chemical theory and computation

20(24)

10931-10941

In recent years, automated reaction path search methods have established the concept of a reaction route network. The Reaction Space Projector (ReSPer) visualizes the potential energy hypersurface into a lower-dimensional subspace using principal coordinates. The main time-consuming process in ReSPer is calculating the structural distance matrix, making it impractical for complex organic reaction route networks. We implemented the Alternate Optimization (AO) algorithm, one of the combinatorial optimizations, in ReSPer to reduce computational costs. Evaluations using gold clusters and the Au5 several reaction route networks showed that ReSPer-AO accurately computes distances with lower computational costs. Applying ReSPer-AO to the C5H8O reaction route network clarified dynamic conformation changes in its potential energy landscape. The ReSPer-AO method enables analysis of chemical reactions and dynamic conformations in a low-dimensional reaction space that accurately represents hydrocarbon reaction route networks.

学術雑誌論文

Accepted Manuscript

This document is the Accepted Manuscript version of a Published Work that appeared in final form in Journal of chemical theory and computation, copyright © American Chemical Society after peer review and technical editing by the publisher. To access the final edited and published work see https://pubs.acs.org/articlesonrequest/AOR-N8URDSR8HDEDP8HSUDTC.

1549-9618