Pressure-dependent rate constants for PAH growth: formation of indene and its conversion to naphthalene

2016 ◽  
Vol 195 ◽  
pp. 637-670 ◽  
Author(s):  
Alexander M. Mebel ◽  
Yuri Georgievskii ◽  
Ahren W. Jasper ◽  
Stephen J. Klippenstein

Unraveling the mechanisms for growth of polycyclic aromatic hydrocarbons (PAHs) requires accurate temperature- and pressure-dependent rate coefficients for a great variety of feasible pathways. Even the pathways for the formation of the simplest PAHs, indene and naphthalene, are fairly complex. These pathways provide important prototypes for modeling larger PAH growth. In this work we employ the ab initio RRKM theory-based master equation approach to predict the rate constants involved in the formation of indene and its conversion to naphthalene. The reactions eventually leading to indene involve C9Hx (x = 8–11) potential energy surfaces (PESs) and include C6H5 + C3H4 (allene and propyne), C6H6 + C3H3, benzyl + C2H2, C6H5 + C3H6, C6H6 + C3H5 and C6H5 + C3H5. These predictions allow us to make a number of valuable observations on the role of various mechanisms. For instance, we demonstrate that reactions which can significantly contribute to the formation of indene include phenyl + allene and H-assisted isomerization to indene of its major product, 3-phenylpropyne, benzyl + acetylene, and the reactions of the phenyl radical with propene and the allyl radical, both proceeding via the 3-phenylpropene intermediate. 3-Phenylpropene can be activated to a 1-phenylallyl radical, which in turn rapidly decomposes to indene. Next, indene can be converted to benzofulvene or naphthalene under typical combustion conditions, via its activation by H atom abstraction and methyl substitution on the five-membered ring followed by isomerization and decomposition of the resulting 1-methylindenyl radical, C10H9 → C10H8 + H. Alternatively, the same region of the C10H9 PES can be accessed through the reaction of benzyl with propargyl, C7H7 + C3H3 → C10H10 → C10H9 + H, which therefore can also contribute to the formation of benzofulvene or naphthalene. Benzofulvene easily transforms to naphthalene by H-assisted isomerization. An analysis of the effect of pressure on the reaction outcome and relative product yields is given, and modified Arrhenius fits of the rate constants are reported for the majority of the considered reactions. Ultimately, the implementation of such expressions in detailed kinetic models will help quantify the role of these reactions for PAH growth in various environments.

2017 ◽  
Vol 19 (18) ◽  
pp. 11206-11211 ◽  
Author(s):  
Ernesto Garcia ◽  
Fernando Pirani ◽  
Antonio Laganà ◽  
Carles Martí

Vibrational state-to-state rate coefficients for the O2(v = 19) + N2(u = 0) → O2(v′) + N2(u′ = 0) process computed at T = 1000 K on three potential energy surfaces with different long-range interaction.


2020 ◽  
Author(s):  
zheng zhao ◽  
Phil bourne ◽  
Hao Hu ◽  
Huanyu Chu

Acylphosphatase is one of the vital enzymes in many organs/tissues to catalyze an acylphosphate molecule into carboxylate and phosphate. Here we use a combined <i>ab initio</i> QM/MM approach to reveal the catalytic mechanism of the benzoylphosphate-bound acylphosphatase system. Using a multi-dimensional reaction-coordinates-driving scheme, we obtained a detailed catalytic process including one nucleophilic-attack and then an ensuing carbonyl-shuttle catalytic mechanism by calculating two-dimensional potential energy surfaces. We also obtained an experiment-agreeable energy barrier and validated the role of the key amino acid Asn38. Additionally, we qualified the transition state stabilization strategy based on the amino acids-contributed interaction networks revealed in the enzymatic environment. This study provided usefule insights into the underlying catalytic mechanism to contribute to disease-involved research.


2007 ◽  
Vol 118 (3) ◽  
pp. 649-663 ◽  
Author(s):  
Rachel Crespo-Otero ◽  
Yoana Pérez-Badell ◽  
Juan Alexander Padrón-García ◽  
Luis Alberto Montero-Cabrera

2012 ◽  
Vol 90 (8) ◽  
pp. 708-715 ◽  
Author(s):  
Yuyang Zhao ◽  
Jing Bai ◽  
Chenxi Zhang ◽  
Chen Gong ◽  
Xiaomin Sun

Density functional theory (DFT) was used to study the β-myrcene ozonolysis reaction. The reactants, intermediates, transition states, and products were optimized at the MPWB1K/6–31G(d,p) level. The single-point energies were performed at the MPWB1K/6–311+G(3df,2p) level. The profiles of the potential energy surfaces were constructed and the rate constants of the reaction steps were analyzed. The possible reaction mechanisms for the ozonolysis intermediates in real atmosphere are also discussed. Based on quantum chemistry information, the rate constants were calculated using Rice–Ramsperger–Kassel–Marcus (RRKM) theory and the canonical variational transition-state theory (CVT) with small curvature tunneling effect (SCT). Arrhenius equations of rate constants over the temperature range of 200–800 K are provided, and the lifetimes of the reaction species in the troposphere were estimated according to rate constants.


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