Literature DB >> 27732782

Analyzing Complex Reaction Mechanisms Using Path Sampling.

Titus S van Erp1, Mahmoud Moqadam1, Enrico Riccardi1, Anders Lervik1.   

Abstract

We introduce an approach to analyze collective variables (CVs) regarding their predictive power for a reaction. The method is based on already available path sampling data produced by, for instance, transition interface sampling or forward flux sampling, which are path sampling methods used for efficient computation of reaction rates. By a search in CV space, a measure of predictiveness can be optimized and, in addition, the number of CVs can be reduced using projection operations which keep this measure invariant. The approach allows testing hypotheses on the reaction mechanism but could, in principle, also be used to construct the phase-space committor surfaces without the need of additional trajectory sampling. The procedure is illustrated for a one-dimensional double-well potential, a theoretical model for an ion-transfer reaction in which the solvent structure can lower the barrier, and an ab initio molecular dynamics study of water auto-ionization. The analysis technique enhances the quantitative interpretation of path sampling data which can provide clues on how chemical reactions can be steered in desired directions.

Entities:  

Year:  2016        PMID: 27732782     DOI: 10.1021/acs.jctc.6b00642

Source DB:  PubMed          Journal:  J Chem Theory Comput        ISSN: 1549-9618            Impact factor:   6.006


  2 in total

1.  Local initiation conditions for water autoionization.

Authors:  Mahmoud Moqadam; Anders Lervik; Enrico Riccardi; Vishwesh Venkatraman; Bjørn Kåre Alsberg; Titus S van Erp
Journal:  Proc Natl Acad Sci U S A       Date:  2018-04-30       Impact factor: 11.205

2.  Machine Learning Identifies Chemical Characteristics That Promote Enzyme Catalysis.

Authors:  Brian M Bonk; James W Weis; Bruce Tidor
Journal:  J Am Chem Soc       Date:  2019-02-21       Impact factor: 15.419

  2 in total

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