Theoretical Study of Electronic Structures and Spectra of Chalcogenido Complexes of Molybdenum, trans-Mo(Q)(2)(PH(3))(4) (Q = O, S, Se, Te)

Electronic structures of the title complexes have been studied using quantum chemical computations by different methods. It is shown that the results of Xalpha calculations agree well with expectations from classical ligand-field theory, but both are far from being in agreement with the results given by ab initio calculations. The HOMO in the ab initio Hartree-Fock molecular orbital diagrams of all these complexes is a chalcogen p(pi) lone pair orbital rather than the metal nonbonding d(xy)() orbital previously proposed. Electronic transition energies were calculated by CASSCF and CI methods. The results suggest that in the cases when Q = S, Se, and Te the lowest energy transitions should be those from the p(pi) lone pair orbitals to the metal-chalcogen pi orbitals. The calculated and observed electronic spectra of the oxo complex are in good agreement and very different from the spectra of the other complexes, and the lowest absorptions were accordingly assigned to transitions of different origins.     

CO2与HCN,NH3,H2O分子络合物的从头计算研究

用ab initio能量梯度法(3-21G基组)分别优化CO_2与HCN、NH_3、H_2O_3个分子络合物的平衡几何构型。结果表明HCN、NH_3和H_2O中的N或O原子与CO_2中的C原子之间形成较弱的范德华键,三者的范德华键键长分别为0.2865、0.2775、0.2543nm,稳定化能分别为14.8、27.0、31.2kJ·mol~(-1),3个分子络合物的构型都呈T型,对3个分子络合物的稳定化能的能量分解研究表明它们的形成主要靠静电作用能。     

Theoretical Study on the Long-lived Complexes for the Na＋I2 Collision System

For the Na I2 collision system, theoretical study is performed on the QCISD(T) level by using ab initio method. The ab initio potential energy surfaces are got and on them the long-lived complexes are found and optimized. These results verify the crossed molecule beam experimental phenomenon and the detailed geometry structures are given for the first time. The role of the complexes in the reaction path is also described in detail.     

MP2 study of the dual sigma/pi-anion-binding affinity of fluorinated phthallic acid anhydrides

Several complexes of fluorine-substituted phthallic acid anhydrides with chloride anion have been optimized at the RI-MP2(full)/6-31++G** level of theory. The presence of fluorine atoms attached to the aromatic ring increases the acidity of the aromatic hydrogen atoms. The dual sigma/pi-binding affinity of title compounds have been studied by means of ab initio and molecular interaction potential with polarization (MIPp) calculations and Bader's theory of "atoms-in-molecules".     

Ab initio multireference configuration-interaction theoretical study on the low-lying spin states in binuclear transition-metal complex: magnetic exchange of [(NH3)5Cr(mu-OH)Cr(NH3)5]5+ and [Cl3FeOFeCl3]2-

The magnetic exchange interaction behavior and energy spectrum of low-lying spin states are investigated by using ab initio multireference configuration-interaction method for the representative binuclear transition-metal complexes [(NH(3))(5)Cr(mu-OH)Cr(NH(3))(5)](5+) and [Cl(3)FeOFeCl(3)](2-). Our calculations for the nonmodeling real title complexes found that under the appropriate basis sets and active space, ab initio method at multireference configuration-interaction level of theory is able to give accurate energy spectrum of low-lying spin states within reachable computation demand nowadays and the deviation of magnetic exchange interaction to Lande interval rule can be described by the biquadratic correction in terms of Heisenberg spin Hamiltonian. As a methodology comparison, density-functional theory combined with broken-symmetry approach provides an alternative yet efficient approach to produce accurate numerical results, but there are dependences on the particular chosen exchange-correlation functionals and system dependent. The spin population analyses at complete active space self-consistent-field level of the theory provide an instructively understanding and prediction for the magnetic interaction mechanism.     

Theoretical Studies of the Reaction Mechanisms of CH3S＋NO2

The potential energy surface for the CH3S NO2 reaction has been studied using the ab initio G3(MP2) method. A variety of possible complexes and saddle points along the minimum energy reaction paths have been characterized at UMP2 (full)/6-31G(d) level. The calculations reveal dominating reaction mechanisms of the title reaction: CH3S NO2 firstly produce intermediate CH3SONO,then break up into CH3SO NO. The results are valuable to understand the atmospheric sulfur compounds oxidation mechanism.     

The tetracycline: Mg2+ complex: a molecular mechanics force field

Tetracycline (Tc) is an important antibiotic, which binds specifically to the ribosome and several proteins, in the form of a Tc-:Mg2+ complex. To model Tc:protein and Tc:RNA interactions, we have developed a molecular mechanics force field model of Tc, which is consistent with the CHARMM force field for proteins and nucleic acids. We used structures from the Cambridge Crystallographic Data Base to identify the main Tc conformations that are likely to be present in solution and in biomolecular complexes. A conformational search was also done, using the MM3 force field to perform simulated annealing of Tc. Several resulting, low-energy structures were optimized with an ab initio model and used in developing the new Tc force field. Atomic charges and Lennard-Jones parameters were derived from a supermolecule ab initio approach. We considered the ab initio energies and geometries of a probe water molecule interacting with Tc at 36 different positions. We considered both a neutral and a zwitterionic Tc form, with and without bound Mg2+. The final rms deviation between the ab initio and force field energies, averaged over all forms, was just 0.35 kcal/mol. The model also reproduces the ab initio geometry and flexibility of Tc. As further tests, we did simulations of a Tc crystal, of Tc:Mg2+ and Tc:Ca2+ complexes in aqueous solution, and of a solvated complex between Tc:Mg2+ and the Tet repressor protein (TetR). With slight, ad hoc adjustments, the model can reproduce the experimental, relative, Tc binding affinities of Mg2+ and Ca2+. It performs well for the structure and fluctuations of the Tc:Mg2+:TetR complex. The model should therefore be suitable to investigate the interactions of Tc with proteins and RNA. It provides a starting point to parameterize other compounds in the large Tc family.     

Kinetic isotope effects for the H2 + C2H ↔ C2H2 + H reaction based on the ab initio calculations and a global potential energy surface

In the present paper, kinetic isotope effects of the title reaction are studied with canonical variational transition state theory on the modified Wang Bowman (MWB) potential energy surface (PES) (Chem Phys Lett 2005, 409, 249) and the ab initio calculations at the quadratic configuration interaction (QCISD (T, full))/aug‐cc‐pVTZ//QCISD (full)/cc‐pVTZ level. The calculated rate constants for the isotopic variants of this title reaction on the MWB PES have good agreement with those of the present ab initio calculations over the temperature range of 20–5000 K for the forward reactions and 800–5000 K for the reverse reactions, respectively. In particular, the forward rate constants for the title reaction and its isotopically substituted reactions have negative temperature dependences at about 40 K. Rate expressions are presented for all the studied reactions. © 2010 Wiley Periodicals, Inc. Int J Chem Kinet 42: 289–298, 2010     

分子间相互作用的研究——-价轨道模型势从头算能量分解法

研究分子间相互作用是了解液体,固体性质和结构以及气体性质的关键,也是研究化学和生物化学催化机制及化学反应途径的重要方面.因此,近几年来这个领域的理论和实验研究引起了人们广泛的兴趣并取得了长足的进步.特别值得指出的是Morokuma等提出的基于单行列式从头算的能量分解法,较好地解决了很多体系中分子间相互作用的本质问题,受到了理论化学界的普遍重视.但是这种方法很费计算机时间,对于较大的体系,特别是含有重原子的体系,应用受到了限制.因此简化这种方法,使它能够比较容     

Photodissociation spectroscopy of Zn+(H2O) and Zn+(D2O)

We report on a study of the photodissociation spectroscopy of weakly bound Zn+(H2O) and Zn+(D2O) complexes. The work is supported by ab initio electronic structure calculations of the ground and low-lying excited energy surfaces. We assign two molecular absorption bands in the near UV correlating to Zn+ (4s-4p)-based transitions, and identify vibrational progressions associated with both intermolecular and intramolecular vibrational modes of the cluster. Partially resolved rotational structure is consistent with a C(2V) equilibrium complex geometry. Experimental spectroscopic constants are in very good agreement with ab initio theoretical predictions. Results are compared with previous work on main group and transition metal ion-H2O clusters.     

Ab initio rate constants from hyperspherical quantum scattering: application to H + CH4 --> H2 + CH3

A general and practical procedure is described for calculating rate constants for chemical reactions using a minimal number of ab initio calculations and quantum-dynamical computations. The method exploits a smooth interpolating functional developed in the hyperspherical representation. This functional is built from two Morse functions and depends on a relatively small number of parameters with respect to conventional functionals developed to date. Thus only a small number of ab initio points needs to be computed. The method is applied to the H + CH4 --> H2 + CH3 reaction. The quantum scattering calculations are performed treating explicitly the bonds being broken and formed. All the degrees of freedom except the breaking and forming bonds are optimized ab initio and harmonic vibrational frequencies and zero-point energies for them are calculated at the MP2(full) level with a cc-pVTZ basis set. Single point energies are calculated at a higher level of theory with the same basis set, namely CCSD(T, full). We report state-to-state cross sections and thermal rate constants for the title reaction and make comparisons with previous results. The calculated rate constants are in good agreement with experiments.     

Molecular dynamics and metadynamics simulations of [2 + 2] photocycloaddition

Triplet state mechanism of [2 + 2] photocycloaddition forming a cyclobutane ring from two ethylenes is investigated in the context of photocatalysis. High‐level ab initio calculations are combined with ab initio adiabatic molecular dynamics and ab initio metadynamics for rare events modeling. In a photocatalytic scheme, a reactant reaches the triplet state either via intersystem crossing (ISC) or triplet sensitization. The model system adopts a biradical structure, which represents energy intersection with the ground state. The system either completes cyclization or undergoes fragmentation into two olefinic units. The potential and free energy surfaces of the cyclobutane/ethylenes system are mapped with multireference approaches describing possible reaction pathways. To obtain a full picture of a double bond photoreactivity, ab initio adiabatic dynamical calculations were used to estimate reaction yields and to model the effects of excess energy. The potential use of density functional theory based approaches for [2 + 2] photocycloaddition was investigated for future simulations and design of realistic photocatalytic systems. Dynamical aspects of [2 + 2] photocycloaddition via a triplet state manifold are investigated by combining ab initio multireference methods and ab initio molecular dynamics and metadynamics. The reaction pathways are studied for a model system of two ethylenes forming a cyclobutane ring to provide a basis for further studies on design of photocatalytic systems.     

Would the pseudocoordination centre method be appropriate to describe the geometries of lanthanide complexes?

The correct prediction of the ground-state geometries of lanthanide complexes is an important step in the development of efficient light conversion molecular devices (LCMD). Considering this, we evaluate here the capability of semiempirical approaches and ab initio effective core potential (ECP) methodology in reproducing the coordination polyhedron geometries of lanthanide complexes. Initially, we compare the facility of two semiempirical approaches: Pseudocoordination centre method (PCC) and Sparkle model. In the first step, we considered only high-quality crystallographic structures and included 633 complexes, and in the last step, we compare the capability of two semiempirical approaches with ab initio/ECP calculations. Because this last methodology was found to be computationally very demanding, we further used a subset containing 91 high-quality crystallographic structures. A total of 91 ab initio full geometry optimizations were performed. Our results suggest that only the semiempirical Sparkle model (hundreds of times faster) present accuracy similar to what can be obtained by present-day ab initio/ECP full geometry optimization calculations on such lanthanide complexes. In addition, it further indicates that the PCC approach has a poor prediction related to the coordination polyhedron geometries of lanthanide complexes.     

The influence of the Jahn-Teller effect and of heteroligands on the reactivity of Cu2+

Experimentally hardly accessible Jahn-Teller inversions and the influence of heteroligands on the reactivity of Cu2+ are characterized by ab initio QM/MM MD simulations of Cu2+ ion and its amino complexes in water.     

Investigation of the hydrogen bonds between formaldehyde and hydrogen halides by pseudopotential Ab Initio method

The weak hydrogen bonded systems H₂CO ?HX (X = F, Cl, Br, and I) have been studied by means of ab initio MO method with pseudopotential approximation. The stabilization energies of these hydrogen bonds are 8.96, 4.12, 3.00, and 2.21 kcal/mol, respectively. The interaction eneraction energies are farther decomposed according to Morokuma's energy decomposing scheme. It is found that the title complexes are mainly electrostatic, although the contribution of charge transfer is also significant.     

H原子和(CH3)2SiH2抽提反应的理论研究

采用UMP2/6-31G(d)理论水平优化了H原子和(CH3)2SiH2抽提反应势能面上的所有驻点,并在此水平基础上进行了内禀反应坐标(IRC)的计算,得到该反应的反应途径(MEP)。应用变分过渡态理论及最小能量途径半经典绝热基态隧道效应校正(MEPSAG)、小曲率半经典绝热基态隧道效应校正(SCSAG)等方法对上述反应进行了动力学研究,期望从理论上提供一套温度范围较宽、精度较高的动力学数据,为阐明反应机理和解释实验结果提供理论依据。     

ChemInform Abstract: Pressure‐Induced Formation of Molecular B2X4(μ‐X)2 (X: Cl,Br, I) Species.

Gas‐phase formation and decomposition of the boron(III) halides of title is explored by CCSD(T) and MP2 ab initio calculations.     

HN2(2A') electronic manifold. I. A global ab initio study of first two states

A detailed ab initio multireference configuration interaction calculation with a standard aug-cc-pVTZ basis set is reported for the 1(2)A' and 2(2)A' states of the title system. The aim is to establish the dissociation scheme of all channels, while revealing the 2(2)A'/3(2)A' seam of conical intersections consistent with the crossings in the diatomic fragments. An ab initio mapping of linear NNH and T-shaped and linear NHN loci of conical intersections is also reported, jointly with a discussion of the topological features associated to a newly reported 2(2)A'/3(2)A' crossing seam.     

Representation of Zn(II) complexes in polarizable molecular mechanics. Further refinements of the electrostatic and short-range contributions. Comparisons with parallel ab initio computations

We present refinements of the SIBFA molecular mechanics procedure to represent the intermolecular interaction energies of Zn(II). The two first-order contributions, electrostatic (E(MTP)), and short-range repulsion (E(rep)), are refined following the recent developments due to Piquemal et al. (Piquemal et al. J Phys Chem A 2003, 107, 9800; and Piquemal et al., submitted). Thus, E(MTP) is augmented with a penetration component, E(pen), which accounts for the effects of reduction in electronic density of a given molecular fragment sensed by another interacting fragment upon mutual overlap. E(pen) is fit in a limited number of selected Zn(II)-mono-ligated complexes so that the sum of E(MTP) and E(pen) reproduces the Coulomb contribution E(c) from an ab initio Hartree-Fock energy decomposition procedure. Denoting by S, the overlap matrix between localized orbitals on the interacting monomers, and by R, the distance between their centroids, E(rep) is expressed by a S(2)/R term now augmented with an S(2)/R(2) one. It is calibrated in selected monoligated Zn(II) complexes to fit the corresponding exchange repulsion E(exch) from ab initio energy decomposition, and no longer as previously the difference between (E(c) + E(exch)) and E(MTP). Along with the reformulation of the first-order contributions, a limited recalibration of the second-order contributions was carried out. As in our original formulation (Gresh, J Comput Chem 1995, 16, 856), the Zn(II) parameters for each energy contribution were calibrated to reproduce the radial behavior of its ab initio HF counterpart in monoligated complexes with N, O, and S ligands. The SIBFA procedure was subsequently validated by comparisons with parallel ab initio computations on several Zn(II) polyligated complexes, including binuclear Zn(II) complexes as in models for the Gal4 and beta-lactamase metalloproteins. The largest relative error with respect to the RVS computations is 3%, and the ordering in relative energies of competing structures reproduced even though the absolute numerical values of the ab initio interaction energies can be as large as 1220 kcal/mol. A term-to-term identification of the SIBFA contributions to their ab initio counterparts remained possible even for the largest sized complexes.