Severity: Warning
Message: file_get_contents(https://...@pubfacts.com&api_key=b8daa3ad693db53b1410957c26c9a51b4908&a=1): Failed to open stream: HTTP request failed! HTTP/1.1 429 Too Many Requests
Filename: helpers/my_audit_helper.php
Line Number: 176
Backtrace:
File: /var/www/html/application/helpers/my_audit_helper.php
Line: 176
Function: file_get_contents
File: /var/www/html/application/helpers/my_audit_helper.php
Line: 250
Function: simplexml_load_file_from_url
File: /var/www/html/application/helpers/my_audit_helper.php
Line: 3122
Function: getPubMedXML
File: /var/www/html/application/controllers/Detail.php
Line: 575
Function: pubMedSearch_Global
File: /var/www/html/application/controllers/Detail.php
Line: 489
Function: pubMedGetRelatedKeyword
File: /var/www/html/index.php
Line: 316
Function: require_once
Reactive molecular dynamics simulations enable a detailed understanding of solvent effects on chemical reaction mechanisms and reaction rates. While classical molecular dynamics using reactive force fields allows significantly longer simulation time scales and larger system sizes compared with ab initio molecular dynamics, constructing reactive force fields is a difficult and complex task. In this work, we describe a general approach following the empirical valence bond framework for constructing ab initio reactive force fields for condensed phase simulations by combining physics-based methods with neural networks (PB/NNs). The physics-based terms ensure the correct asymptotic behavior of electrostatic, polarization, and dispersion interactions and are compatible with existing solvent force fields. NNs are utilized for a versatile description of short-range orbital interactions within the transition state region and accurate rendering of vibrational motion of the reacting complex. We demonstrate our methodology for a simple deprotonation reaction of the 1-ethyl-3-methylimidazolium cation with acetate to form 1-ethyl-3-methylimidazol-2-ylidene and acetic acid. Our PB/NN force field exhibits ∼1 kJ mol mean absolute error accuracy within the transition state region for the gas-phase complex. To characterize the solvent modulation of the reaction profile, we compute potentials of mean force for the gas-phase reaction as well as the reaction within a four-ion cluster and benchmark against ab initio molecular dynamics simulations. We find that the surrounding ionic environment significantly destabilizes the formation of the carbene product, and we show that this effect is accurately captured by the reactive force field. By construction, the PB/NN potential may be directly employed for simulations of other solvents/chemical environments without additional parameterization.
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Source |
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http://dx.doi.org/10.1063/5.0063187 | DOI Listing |
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