Literature DB >> 16833907

Global mapping of equilibrium and transition structures on potential energy surfaces by the scaled hypersphere search method: applications to ab initio surfaces of formaldehyde and propyne molecules.

Satoshi Maeda1, Koichi Ohno.   

Abstract

Technical details of a new global mapping technique for finding equilibrium (EQ) and transition structures (TS) on potential energy surfaces (PES), the scaled hypersphere search (SHS) method (Ohno, K.; Maeda, S. Chem. Phys. Lett. 2004, 384, 277), are presented. On the basis of a simple principle that reaction pathways are found as anharmonic downward distortions of PES around an EQ point, the reaction pathways can be obtained as energy minima on the scaled hypersphere surface, which would have a constant energy when the potentials are harmonic. Connections of SHS paths between each EQ are very similar to corresponding intrinsic reaction coordinate (IRC) connections. The energy maximum along the SHS path reaches a region in close proximity to the TS of the reaction pathway, and the subsequent geometry optimization from the SHS maximum structure easily converges to the TS. The SHS method, using the one-after-another algorithm connecting EQ and TS, considerably reduces the multidimensional space to be searched to certain limited regions around the pathways connecting each EQ with the neighboring TS. Applications of the SHS method have been made to ab initio surfaces of formaldehyde and propyne molecules to obtain systematically five EQ and nine TS for formaldehyde and seven EQ and 32 TS for propyne.

Entities:  

Year:  2005        PMID: 16833907     DOI: 10.1021/jp0513162

Source DB:  PubMed          Journal:  J Phys Chem A        ISSN: 1089-5639            Impact factor:   2.781


  9 in total

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2.  Theoretical studies on a carbonaceous molecular bearing: association thermodynamics and dual-mode rolling dynamics.

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Journal:  Chem Sci       Date:  2015-02-18       Impact factor: 9.825

3.  Efficient prediction of reaction paths through molecular graph and reaction network analysis.

Authors:  Yeonjoon Kim; Jin Woo Kim; Zeehyo Kim; Woo Youn Kim
Journal:  Chem Sci       Date:  2017-12-12       Impact factor: 9.825

Review 4.  A Trajectory-Based Method to Explore Reaction Mechanisms.

Authors:  Saulo A Vázquez; Xose L Otero; Emilio Martinez-Nunez
Journal:  Molecules       Date:  2018-11-30       Impact factor: 4.411

5.  Inherent atomic mobility changes in carbocation intermediates during the sesterterpene cyclization cascade.

Authors:  Hajime Sato; Takaaki Mitsuhashi; Mami Yamazaki; Ikuro Abe; Masanobu Uchiyama
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6.  Global ab initio exploration of potential energy surfaces for radical generation in the initial stage of benzene oxidation.

Authors:  Hai-Bei Li; Qingqing Jia
Journal:  RSC Adv       Date:  2019-05-29       Impact factor: 3.361

Review 7.  Graph-Driven Reaction Discovery: Progress, Challenges, and Future Opportunities.

Authors:  Idil Ismail; Raphael Chantreau Majerus; Scott Habershon
Journal:  J Phys Chem A       Date:  2022-10-03       Impact factor: 2.944

8.  Computational study on a puzzle in the biosynthetic pathway of anthocyanin: Why is an enzymatic oxidation/ reduction process required for a simple tautomerization?

Authors:  Hajime Sato; Chao Wang; Mami Yamazaki; Kazuki Saito; Masanobu Uchiyama
Journal:  PLoS One       Date:  2018-06-13       Impact factor: 3.240

Review 9.  Water Radical Cations in the Gas Phase: Methods and Mechanisms of Formation, Structure and Chemical Properties.

Authors:  Dongbo Mi; Konstantin Chingin
Journal:  Molecules       Date:  2020-07-31       Impact factor: 4.411

  9 in total

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