Quantum chemical study on the abstraction reaction of alkylidenegermylene with oxirane and thiirane

The mechanisms of theion reaction of alkylidenegermylene with oxirane and thiirane have been characterized detail in using density functional theory, as well as ab initio method, including geometry optimization and vibrational analysis for the involved stationary points on the potential energy surface. Energies were calculated by CCSD(T)/6-311G(d)//B3LYP/6-311G(d,p) method for the involved conformations. The results show that the reaction pathways for both reactions consist of two ways: (1) the reactants can yield bent products (P1; P4) by syn-isomers; (2) the reactants can also yield three-membered products (P2; P5) by anti-isomers, which then further react with oxirane and thiirane to form the ultimate products (P3-1, P3-2; P6). Furthermore, a comparison with alkylidenecarbene, oxirane, and thiirane was done.     

丙烯醛光致脱羰机理的量子化学研究

用量子化学方法研究了丙烯醛基态和激发态的反应途径, 通过比较不同反应途径的反应势垒和中间产物构型的稳定性, 从理论上得出该反应的反应机理。     

Quantum chemical study on the thermal rearrangements of HNCRCR''''CO

MINDO/3 molecular orbital theory has been used to study the thermal rearrangements of HNCRCR'CO.The results obtained show that the activation energy of this rearrangement depends on the migrating group R and the group R'.     

A quantum chemical study on the mechanism of the consecutive addition of HCN to propionitrile

MINDO/3 MO method has been used to study the mechanism of the consecutive addition of HCN to propionitrile. The results obtained for the first five steps show that the reaction is exothermic, and step 1 is the rate determining step.     

亚烷基卡宾及取代亚烷基卡宾与环硫乙烷反应的量子化学研究

用量子化学的密度泛函理论(DFT)在6-311G(d, p)水平上对亚烷基卡宾及取代亚烷基卡宾与环硫乙烷的硫转移反应机理进行了系统的研究. 用IRC对过渡态进行了确认. 并用组态混合模型讨论了反应势垒(ΔE^≠)与XYC＝C的单-三态能量差ΔE_ST之间的关系. 结果表明, 取代基的电负性是控制反应的主要因素, 取代基的电负性越大, 取代基越多, π电子给予体越多, 单-三态能量差ΔE_ST就越小, 该反应的活化能就越小, 反应越容易发生. 同时还讨论了该反应中环硫乙烷的C—S键的解离过程. 并与标题化合物和环氧乙烷的氧转移反应进行了比较.     

Theoretical Study on the Reaction Mechanism of SiCl_4 with H in the Gas Phase

1 INTRODUCTION Semiconductor silicon materials are vital for mi- croelectronic and information industry. Silicon has many advantages, for example, rich resource, out- standing quality and sophisticated processing tech- nology. So it has been widely used in semiconduc- tor industry. One of the key techniques of mo- dern microelectronic industry is epitaxial growth of single crystal thin film on single crystal silicon and its ba- cking materials. In the chemical vapour deposition of Si, g…     

亚烷基卡宾及取代亚烷基卡宾与环氧乙烷反应的量子化学研究

用量子化学的密度泛函理论(DFT)在6-311G(d,p)水平上对亚烷基卡宾及取代亚烷基卡宾与环氧乙烷的氧转移反应机理进行了系统的研究. 用IRC对过渡态进行了确认. 并用组态混合模型讨论了反应势垒(ΔE^≠)与XYC＝C:的单-三态能量差ΔE_ST之间的关系, 结果表明, 取代基的电负性是控制反应的主要因素, 取代基的电负性越大, 取代基越多, π电子给予体越多, 单-三态能量差ΔE_ST就越小, 该反应的活化能就越小, 反应越容易发生. 同时还研究了该反应中环氧乙烷中C—O键的解离过程. 发现两个C—O键解离是一个不同步的协同过程.     

Density Functional Study on the Mechanism of Collision Reaction among Protons, N2 and Water Vapor

The mechanism of collision reaction among protons, N2 and water vapor was theoretically studied using Density Functional Theory. The geometries of reactants, transition states, intermediates and products were optimized at the B3LYP/6-311 G^** level by the BERNY gradient analysis method. Transition states and intermediates have been identified by vibrational frequency analysis. The relationship among reactants, intermediates, transition states and products was affirmed by IRC calculation. The variations of energy and geometry along the IRC-determined reaction paths were described. The possible reaction pathways were represented and the optimal one was decided from the viewpoint of energy.     

Theoretical study on the ring-opening isomerization reaction mechanism of the ring isomers of N8H8

Ring-opening isomerization from ring-shaped isomers to chain-shaped isomers of N(8)H(8) has been studied by a density function B3LYP method at 6-311+ +G** level. 20 ring-shaped isomers have been found to be able to transform into chain-shaped isomers, with 20 possible transition states got by ring-opening structure optimization. Furthermore, the ring-openings have been found in the longer N-N single bond by analyzing the length change of N-N bond of ring-shaped isomers in ring-opening processes. In addition, with the activation energies in ring-opening processes, the differences of the activation energies in isomerization between the isomers have been found according to the classification of rings. The activation energies in ring-opening isomerization of six-membered ring-shaped isomers are higher than that of the four-membered ring-shaped isomers. It indicates that six-membered ring-shaped isomers difficult in ring-opening in the isomerization are the steadiest ring-shaped isomers of N(8)H(8) while four-membered ring-shaped isomers easy in ring-opening are the most unstable.     

Theoretical investigation on the detailed mechanism of the OH‐initiated atmospheric photooxidation of o‐xylene

The reaction mechanism for o‐xylene with OH radical and O₂ was studied by density functional theory (DFT) method. The geometries of the reactants, intermediates, transition states, and products were optimized at B3LYP/6‐31G(d,p) level. The corresponding vibration frequencies were calculated at the same level. The single‐point calculations for all the stationary points were carried out at the B3LYP/6‐311++G(2df,2pd) level using the B3LYP/6‐31G(d,p) optimized geometries. Reaction energies for the formation of the aromatic intermediate radicals have been obtained to determine their relative stability and reversibility, and their activation barriers have been analyzed to assess the energetically favorable pathways to propagate the o‐xylene oxidation. The results of the theoretical study indicate that OH addition to o‐xylene forms ipso, meta, and para isomers of o‐xylene‐OH adducts, and the ipso o‐xylene adduct is the most stable among these isomers. Oxygen is expected to add to the o‐xylene‐OH adducts forming o‐xylene peroxy radicals. And subsequent ring closure of the peroxyl radicals to form bicyclic radicals. With relatively low barriers, isomerization of the o‐xylene bicyclic radicals to more stable epoxide radicals likely occurs, competing with O₂ addition to form bicyclic peroxy radicals. The study provides thermochemical data for assessment of the photochemical production potential of ozone and formation of toxic products and secondary organic aerosol from o‐xylene photooxidation. © 2007 Wiley Periodicals, Inc. Int J Quantum Chem, 2008     

An investigation on the reaction mechanism of the F2+Cl2→2ClF using the B3LYP method

The reaction mechanism of F₂+Cl₂→2ClF has been investigated with the density functional theory at the B3LYP/6‐311G* level. Six transition states have been found for the three possible reaction paths and verified by the normal mode vibrational and IRC analyses. Ab initio MP2/6‐311G* geometry optimizations and CCSD(T)/6‐311G(2df)//MP2/6‐311G* single‐point energy calculations have been performed for comparison. It is found that when the F₂ (or Cl₂) molecule decomposes into atoms first and then the F (or Cl) atom reacts with the molecule Cl₂ (or F₂) nearly along the molecular axis, the energy barrier is very low. The calculated energy barrier of F attacking Cl₂ is zero and that of Cl attacking F₂ is only 15.57 kJ?mol^?1 at the B3LYP level. However, the calculated dissociation energies of F₂ and Cl₂ are as high as 145.40 and 192.48 kJ?mol^?1, respectively. When the reaction proceeds through a bimolecular reaction mechanism, two four‐center transition states are obtained and the lower energy barrier is 218.69 kJ?mol^?1. Therefore, the title reaction F₂+Cl₂→2ClF is most probably initiated from the atomization of the F₂ molecule and terminated by the reaction of F attacking Cl₂ nearly along the Cl? Cl bond. MP2 calculations lead to the same conclusion, but the geometry of TS and the energy barrier are somewhat different. © 2002 John Wiley & Sons, Inc. Int J Quantum Chem, 2002     

Quantum chemical study of IrFn (n = 1–7) clusters: An investigation of superhalogen properties

In present investigation, the interactions of iridium (Ir) atom with fluorine (F) atoms have been studied using the density functional theory. Up to seven F atoms were able to bind to a single Ir atom which resulted in increase of electron affinities successively, reaching a peak value of 7.85 eV for IrF₇. The stability and reactivity of these clusters were analyzed by calculating highest occupied molecular orbital (HOMO)–LUMO gaps, molecular orbitals and binding energies of these clusters. The unusual properties of these clusters are due to the involvement of inner shell 5d‐electrons, which not only allows IrF_n clusters to belong to the class of superhalogens but also shows that its valence can exceed the nominal value of 2. © 2012 Wiley Periodicals, Inc.     

A TD‐DFT study on the cyanide‐chemosensing mechanism of 8‐formyl‐7‐hydroxycoumarin

Proton transfer (PT) and excited‐state PT process are proposed to account for the fluorescent sensing mechanism of a cyanide chemosensor, 8‐formyl‐7‐hydroxycoumarin. The time‐dependent density functional theory method has been applied to investigate the ground and the first singlet excited electronic states of this chemosensor as well as its nucleophilic addition product with cyanide, with a view to monitoring their geometries and spectrophotometrical properties. The present theoretical study indicates that phenol proton of the chemosensor transfers to the formyl group along the intramolecular hydrogen bond in the first singlet excited state. Correspondingly, the nucleophilic addition product undergoes a PT process in the ground state, and shows a similar structure in the first singlet excited state. This could explain the observed strong fluorescence upon the addition of the cyanide anion in the relevant fluorescent sensing mechanism. © 2010 Wiley Periodicals, Inc. J Comput Chem, 2011     

Mechanism of the reaction of the [W3S4H3(dmpe)3]+ cluster with acids: evidence for the acid-promoted substitution of coordinated hydrides and the effect of the attacking species on the kinetics of protonation of the metal-hydride bonds

The cluster [W(3)S(4)H(3)(dmpe)(3)](+) (1) (dmpe=1,2-bis(dimethylphosphino)ethane) reacts with HX (X=Cl, Br) to form the corresponding [W(3)S(4)X(3)(dmpe)(3)](+) (2) complexes, but no reaction is observed when 1 is treated with an excess of halide salts. Kinetic studies indicate that the hydride 1 reacts with HX in MeCN and MeCN-H(2)O mixtures to form 2 in three kinetically distinguishable steps. In the initial step, the W-H bonds are attacked by the acid to form an unstable dihydrogen species that releases H(2) and yields a coordinatively unsaturated intermediate. This intermediate adds a solvent molecule (second step) and then replaces the coordinated solvent with X(-) (third step). The kinetic results show that the first step is faster with HCl than with solvated H(+). This indicates that the rate of protonation of this metal hydride is determined not only by reorganization of the electron density at the M-H bonds but also by breakage of the H-X or H(+)-solvent bonds. It also indicates that the latter process can be more important in determining the rate of protonation.     

Unexpected reaction of the unsaturated cluster host and catalyst [Pd3(mu3-CO)(dppm)3]2+ with the hydroxide ion: spectroscopic and kinetic evidence of an inner-sphere mechanism

The title cluster, [Pd(3)(mu(3)-CO)(dppm)(3)](2+) (dppm=bis(diphenylphosphino)methane), reacts with one equivalent of hydroxide anions (OH(-)), from tetrabutylammonium hydroxide (Bu(4)NOH), to give the paramagnetic [Pd(3)(mu(3)-CO)(dppm)(3)](+) species. Reaction with another equivalent of OH(-) leads to the zero-valent compound [Pd(3)(mu(3)-CO)(dppm)(3)](0). From electron paramagnetic resonance analysis of the reaction medium using the spin-trap agent 5,5-dimethyl-1-pyrroline-N-oxide (DMPO), the 2-tetrahydrofuryl or methyl radicals, deriving from the tetrahydrofuran (THF) or dimethyl sulfoxide (DMSO) solvent, respectively, were detected. For both [Pd(3)(mu(3)-CO)(dppm)(3)](2+) and [Pd(3)(mu(3)-CO)(dppm)(3)](+), the mechanism involves, in a first equilibrated step, the formation of a hydroxide adduct, [Pd(3)(mu(3)-CO)(dppm)(3)(OH)]((n-1)+) (n=1, 2), which reacts irreversibly with the solvent. The kinetics were resolved by means of stopped-flow experiments and are consistent with the proposed mechanism. In the presence of an excess of Bu(4)NOH, an electrocatalytic process was observed with modest turnover numbers (7-8). The hydroxide adducts [Pd(3)(mu(3)-CO)(dppm)(3)(OH)]((n-1)+) (n=1, 2), which bear important similarities to the well-known corresponding halide adducts [Pd(3)(mu(3)-CO)(dppm)(3)(mu(3)-X)](n) (X=Cl, Br, I), have been studied by using density functional theory (DFT). Although the optimised geometry for the cluster in its +2 and 0 oxidation states (i.e., cation and anion clusters, respectively) is the anticipated mu(3)-OH form, the paramagnetic species, [Pd(3)(mu(3)-CO)(dppm)(3)(OH)](0), shows a mu(2)-OH form; this suggests an important difference in electronic structure between these three species.     

CH3SS与OH自由基反应机理的理论研究

应用密度泛函理论(DFT)对CH3SS与OH自由基单重态反应机理进行了研究.在B3PW91/6-311+G(d,p)水平上优化了反应通道上各驻点(反应物、中间体、过渡态和产物)的几何构型,用内禀反应坐标(IRC)计算和频率分析方法对过渡态进行了验证.在QCISD(T)/6-311++G(d,p)水平上计算了各物种的单点能,并对总能量进行了零点能校正.研究结果表明,CH3SS与OH反应为多通道反应,有5条可能的反应通道.反应物首先通过不同的S—O键相互作用形成具有竞争反应机理的中间体IM1和IM2.再经过氢迁移、脱氢和裂解等机理得到主要产物P1(CH2SS+H2O),次要产物P2(CH2S+HSOH),P3(CH3SH+1SO)和P4(CH2SSO+H2),其中最低反应通道的势垒为174.6kJ.mol-1.     

A Computational Study of Conformers of 2-Thiaoxacyclohexane (1,2-Oxathiane)

Ab initio molecular orbital theory with the 6-31G(d), 6-31G(2d), 6-31+G(d), 6-31G(d,p), 6-31+G(d,p), and 6-311G(d,p) basis sets and the hybrid density functionals B3LYP, B3P86, and B3PW91 have been used to calculate the optimized geometries and relative energies of the chair, half-chair, sofa, twist, and boat structures of 2-thiaoxacyclohexane (1,2-oxathiane). The values of the energy difference (E, kcal/mol) between the chair and 3,6-twist structures of 1,2-oxathiane were 4.92 (HF), 4.73 (MP2), and 4.66 (DFT). The HF chair–twist energy difference (G _c–t ^o) for 1,2-oxathane was 5.16 kcal/mol. Intrinsic reaction coordinate (IRC) calculations connected a transition state (TS-A) between the chair conformation and the less stable 2,5-twist form and connected two transition states (TS-B, TS-C) between the chair conformation and the more stable 3,6-twist conformer. The DFT energy differences between the chair and TS-A, TS-B, and TS-C were 11.4, 10.8, and 12.6 kcal/mol, respectively. Hyperconjugative stereoelectronic interactions were observed in the chair (n _o and ) and 3,6-twist (n _S and n _O ) conformers of 1,2-oxathiane. The chair conformation of 1,2-oxthiane is 9.6 and 10.0 kcal/mol, respectively, less stable than the chair conformations of 3-thiaoxacyclohexane (1,3-oxathiane) and 4-thiaoxacyclohexane (1,4-oxathiane, thioxane).     

Theoretical studies on the reaction mechanism of CH2CH radical with HNCO

The reaction mechanism of CH₂CH radical with HNCO has been investigated systematically by density functional theory (DFT). The geometries and harmonic frequencies of reactants, intermediates, transition states, and products have been optimized with the B3LYP at different levels. At the same time, AIM is performed to calculate the charge density of some bonding critical points and the charges of some atoms. Nine feasible reaction pathways have been investigated. The results indicated that the main pathway is CH₂CH + HNCO → IMA1 → TSA1 → CH₂CH₂ + NCO, which is characterized by hydrogen atom transferring. © 2006 Wiley Periodicals, Inc. Int J Quantum Chem, 2006     

Exploring chemical reactivity of complex systems with path‐based coordinates: Role of the distance metric

Path‐based reaction coordinates constitute a valuable tool for free‐energy calculations in complex processes. When a reference path is defined by means of collective variables, a nonconstant distance metric that incorporates the nonorthonormality of these variables should be taken into account. In this work, we show that, accounting for the correct metric tensor, these kind of variables can provide iso‐hypersurfaces that coincide with the iso‐committor surfaces and that activation free energies equal the value that would be obtained if the committor function itself were used as reaction coordinate. The advantages of the incorporation of the variable metric tensor are illustrated with the analysis of the enzymatic reaction catalyzed by isochorismate‐pyruvate lyase. Hybrid QM/MM techniques are used to obtain the free energy profile and to analyze reactive trajectories initiated at the transition state. For this example, the committor histogram is peaked at 0.5 only when a variable metric tensor is incorporated in the definition of the path‐based coordinate. © 2014 Wiley Periodicals, Inc.