Shannon entropy variation as a global indicator of electron density contraction at interatomic regions in chemical reactions

被引:0
作者
Barrales-Martinez, Cesar [1 ,2 ]
Duran, Rocio [3 ]
Caballero, Julio [2 ]
机构
[1] Univ Talca, Inst Invest Interdisciplinaria I3, Vicerrectoria Acad, Campus Talca, Talca, Chile
[2] Univ Talca, Fac Ingn, Ctr Bioinformat Simulac & Modelado CBSM, Campus Talca, Talca, Chile
[3] Univ Catolica Santisima Concepcion, Fac Ciencias, Dept Quim Ambiental, Concepcion, Chile
关键词
Shannon entropy; Electron density contraction; Reaction mechanism; DFT calculation; DOUBLE-PROTON-TRANSFER; REACTION FORCE; FUNCTIONAL THEORY; ENERGY; DECOMPOSITION; VALENCE; LOCALIZATION; DESCRIPTORS; INFORMATION; CONSTANT;
D O I
10.1007/s00894-024-06171-0
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
ContextThe negative of the Shannon entropy derivative is proposed to account for electron density contraction as the chemical bonds are breaking and forming during a chemical reaction. We called this property the electron density contraction index, EDC, which allows identifying stages in a reaction that are dominated by electron contraction or expansion. Four different reactions were analyzed to show how the EDC index changes along the reaction coordinate. The results indicate that the rate of change of Shannon entropy is directly related to the rate of change of the electron density at the bond critical points between all the atomic pairs in the molecular systems. It is expected that EDC will complement the detailed analysis of reaction mechanisms that can be performed with the theoretical tools available to date.MethodsDensity functional theory calculations at the B3LYP/6-31G(d,p) level of theory were carried out using Gaussian 16 to analyze the reaction mechanisms of the four reactions studied. The reaction paths were obtained via the intrinsic reaction coordinate method, which served as the reaction coordinate to obtain the reaction force and the EDC profiles in each case. Shannon entropy and electron density at the bond critical points were calculated using the Multiwfn 3.7 package.
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页数:10
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  • [1] Bader R., 1990, Atoms in Molecules: a Quantum Theory, DOI [10.1093/oso/9780198551683.001.0001, DOI 10.1093/OSO/9780198551683.001.0001]
  • [2] A deeper analysis of the role of synchronicity on the Bell-Evans-Polanyi plot in multibond chemical reactions: a path-dependent reaction force constant
    Barrales-Martinez, Cesar
    Jaque, Pablo
    [J]. PHYSICAL CHEMISTRY CHEMICAL PHYSICS, 2022, 24 (24) : 14772 - 14779
  • [3] Interacting Quantum Atoms Analysis of the Reaction Force: A Tool to Analyze Driving and Retarding Forces in Chemical Reactions
    Barrales-Martinez, Cesar
    Gutierrez-Oliva, Soledad
    Toro-Labbe, Alejandro
    Martin Pendas, Angel
    [J]. CHEMPHYSCHEM, 2021, 22 (19) : 1976 - 1988
  • [4] Molecular hydrogen formation in the interstellar medium: the role of polycyclic aromatic hydrocarbons analysed by the reaction force and activation strain model
    Barrales-Martinez, Cesar
    Cortes-Arriagada, Diego
    Gutierrez-Oliva, Soledad
    [J]. MONTHLY NOTICES OF THE ROYAL ASTRONOMICAL SOCIETY, 2018, 481 (03) : 3052 - 3062
  • [5] A SIMPLE MEASURE OF ELECTRON LOCALIZATION IN ATOMIC AND MOLECULAR-SYSTEMS
    BECKE, AD
    EDGECOMBE, KE
    [J]. JOURNAL OF CHEMICAL PHYSICS, 1990, 92 (09) : 5397 - 5403
  • [6] DENSITY-FUNCTIONAL THERMOCHEMISTRY .3. THE ROLE OF EXACT EXCHANGE
    BECKE, AD
    [J]. JOURNAL OF CHEMICAL PHYSICS, 1993, 98 (07) : 5648 - 5652
  • [7] NCIPLOT: A Program for Plotting Noncovalent Interaction Regions
    Contreras-Garcia, Julia
    Johnson, Erin R.
    Keinan, Shahar
    Chaudret, Robin
    Piquemal, Jean-Philip
    Beratan, David N.
    Yang, Weitao
    [J]. JOURNAL OF CHEMICAL THEORY AND COMPUTATION, 2011, 7 (03) : 625 - 632
  • [8] On the importance of the "density per particle" (shape function) in the density functional theory
    De Proft, F
    Ayers, PW
    Sen, KD
    Geerlings, P
    [J]. JOURNAL OF CHEMICAL PHYSICS, 2004, 120 (21) : 9969 - 9973
  • [9] ETS-NOCV Decomposition of the Reaction Force: The HCN/CNH Isomerization Reaction Assisted by Water
    Diaz, Silvia
    Brela, Mateusz Z.
    Gutierrez-Oliva, Soledad
    Toro-Labbe, Alejandro
    Michalak, Artur
    [J]. JOURNAL OF COMPUTATIONAL CHEMISTRY, 2017, 38 (24) : 2076 - 2087
  • [10] Hidden intermediate activation: a concept to elucidate the reaction mechanism of the Schmittel cyclization of enyne-allenes
    Duran, Rocio
    Barrales-Martinez, Cesar
    Matute, Ricardo A. A.
    [J]. PHYSICAL CHEMISTRY CHEMICAL PHYSICS, 2023, 25 (08) : 6050 - 6059