Ab initio, density functional theory and structural studies of 4-amino-2-methylquinoline

The Fourier transform infrared (FTIR) and FT-Raman spectra of 4-amino-2-methylquinoline (AMQ) have been recorded in the range 4000–400 and 4000–100 cm⁻¹, respectively. The experimental vibrational frequency was compared with the wavenumbers obtained theoretically by ab initio HF and DFT–B3LYP gradient calculations employing the standard 6-31G** and high level 6-311++G** basis sets for optimised geometry of the compound. The complete vibrational assignment and analysis of the fundamental modes of the compounds were carried out using the experimental FTIR and FT-Raman data, and quantum mechanical studies. The geometry and normal modes of vibration obtained from the HF and DFT methods are in good agreement with the experimental data. The potential energy distribution of the fundamental modes was calculated with ab initio force fields utilising Wilson's FG matrix method. The NH-π interactions and the influence of amino and methyl groups on the skeletal modes are investigated.     

Theoretical study on the structures and properties of the isomers of Nn(CH)8−nH8 (n = 0–7)

With replacement of N atoms by CH groups in the most stable chain isomer of N8H8, 34 possible isomers of N_n(CH)_8−nH₈ (n = 0–7) have been designed and optimized at the B3LYP/6-311++G** level of theory. The natural bond orbital (NBO) and atoms in molecules (AIM) analysis are carried out to study the bonding nature and relative stabilities of these conformers. G3MP2 method is applied to calculate energies and heats of formation. The results indicate that the hyperconjugation effect from lone pairs of nitrogen atoms to germinal C–N bonds is the major factor which caused the change of the C–N bond length. With the more replacement of nitrogen atoms by CH groups, the heats of formation of the isomers of N_n(CH)_8−nH₈ (n = 0–7) decrease gradually, but the energies increase linearly.     

Theoretical investigation of the weakly dihydrogen bonded dimers H2 − nXnAlHHArF and H2 − nXnAlHHKrF (n = 0–2; X = F, Cl)

An ab initio computational study of the properties of the dihydrogen-bonded complexes of H_{2 − n}X_nAlH (n = 0–2; X = F, Cl) with the rare gas (Rg) compounds HArF and HKrF was carried out at the MP2(full)/6-311++G(2d,2p) level of theory. For all the studied complexes, we found a low zero-point corrected binding energies. Large red shifts of the H–Rg vibrational stretching frequency in both complexes were predicted. Electrostatic interactions between the individual monomers are also predicted.     

Molybdenum(VI) network polymers based on anion–π interaction and hydrogen bonding: Synthesis, crystal structures and oxidation catalytic application

A crystallographic investigation of anion–π interactions and hydrogen bonds on the preferred structural motifs of molybdenum(VI) complexes has been carried out. Two molybdenum(VI) network polymers MoO₂F₄·(Hinca)₂ (1) and MoO₂F₃(H₂O)·(Hinpa) (2), where inca = isonicotinamide and inpa = isonipecotamide, have been synthesized, crystallographically characterized and successfully applied to alcohol oxidation reaction. Complex 1 crystallizes in the monoclinic space C2/c: a = 16.832(3) Å, b = 8.8189(15) Å, c = 12.568(2) Å, β = 118.929(3)°, V = 1560.1(5) Å³, Z = 4. Complex 2 crystallizes in the triclinic space P-1: a = 5.459(2) Å, b = 9.189(4) Å, c = 12.204(5) Å, α = 71.341(6)°, β = 81.712(7)°, γ = 77.705(7)°, V = 564.8(4) Å³, Z = 2. Complex 1 consists of hydrogen bonding and anion–π interactions, both of which are considered as important factors for controlling the geometric features and packing characteristics of the crystal structure. The geometry of the sandwich complex of [MoO₂F₄]²⁻ with two pyridine rings indicates that the anion–π interaction is an additive and provides a base for the design and synthesis of new complexes. For complex 2, the anions and the protonated inpa ligands form a 2D supramolecular network by four different types of hydrogen contacts (N–HF, N–HO, O–HF and O–HO). The catalytic ability of complexes 1 and 2 has also been evaluated by applying them to the oxidation of benzyl alcohol with TBHP as oxidant.     

Preparation of “pore-fill” type Pd–YSZ–γ-Al2O3 composite membrane supported on α-Al2O3 tube for hydrogen separation

Mesoporous YSZ–γ-Al₂O₃ membranes were coated on α-Al₂O₃ (Ø2 mm) tube by dipping the α-Al₂O₃ support tube into mixed sol consists of nano-size YSZ and bohemite particles followed by drying and calcination at 600 °C. Addition of bohemite in YSZ sol helped a good adhesion and uniform coating of the membrane film onto α-Al₂O₃ support. The quality of the mesoporous YSZ–γ-Al₂O₃ membranes was evaluated by the gas permeability experiments. The number of defects was minimized when the γ-Al₂O₃ content became more than 40%. Addition of γ-Al₂O₃ inhibited the crystal growth of YSZ, sintering shrinkage and distortion stress. Increase of calcination temperature and time results in the increase of pore size and N₂ permeance. A hydrogen perm-selective membrane was prepared by filling palladium into the nano-pores of YSZ–γ-Al₂O₃ layer by vacuum-assisted electroless plating. Crystal growth of palladium was observed by thermal annealing of the membrane at 600 °C for 40 h. The Pd–YSZ–γ-Al₂O₃ composite membrane revealed improved thermal stability allowing long-term operation at elevated temperature (>500 °C). This has been attributed to the improved fracture toughness of YSZ–γ-Al₂O₃ layer and matching of thermal expansion coefficient between palladium and YSZ. Although fracture of the membrane did not occur, decline of H₂ flux was observed when the membrane was exposed in 600 °C. This has been attributed to the agglomeration of palladium particles by crystal growth and dense packing into the pore networks of YSZ–γ-Al₂O₃ by elevation of temperature.     

Ionic dissociations of chlorosulfonic acid in microsolvated clusters: A density functional theory and ab initio MO study

Ionic dissociation of chlorosulfonic acid (HSO₃Cl) in the molecular clusters HSO₃Cl-(H₂O) _n (n = 1–4) and HSO₃Cl-NH₃-(H₂O) _n (n = 0–3) was investigated by density functional theory and ab initio molecular orbital theory. The equilibrium structures, binding energies, and thermodynamic properties, such as relative enthalpy and relative Gibbs free energy, and were calculated using the hybrid density functional (B3LYP) method and the second order M?ller-Plesset approximation (MP2) method with the 6-311++G** basis set. Chlorosulfonic acid was found to require a minimum of three water molecules for ionization to occur and at least one water molecule to protonate ammonia. The corresponding clusters with fewer water molecules were found to be strongly hydrogen-bonded. The related properties and acid strength of chlorosulfonic acid were discussed and compared to the acid strengths of perchloric acid and sulfuric acid in the context of clusters with ammonia and water. The relative stabilities of these clusters were also investigated. Supported by the National Natural Science Foundation of China (Grant No. 20273046), the Camille and Henry Dreyfus Foundation (Award No. TH-00-028) of California State University, Fullerton, and the Younger Teacher Foundation of Suzhou University (Grant No. Q31094040)     

Peptide models XXXI. Conformational properties of hydrophobic residues shaping the core of proteins. An ab initio study of N‐formyl‐L‐valinamide and N‐formyl‐L‐phenylalaninamide

Employing introductory (3‐21G RHF) and medium‐size (6‐311++G** B3LYP) ab initio calculations, complete conformational libraries, containing as many as 27 conformers, have been determined for diamide model systems incorporating the amino acids valine (Val) and phenylalanine (Phe). Conformational and energetic properties of these libraries were analyzed. For example, significant correlation was found between relative energies from 6‐311++G** B3LYP and single‐point B3LYP/6‐311++G**//RHF/3‐21G calculations. Comparison of populations of molecular conformations of hydrophobic aromatic and nonaromatic residues, based on their ab initiorelative energies, with their natural abundance indicates that, at least for the hydrophobic core of proteins, the conformations of Val (Ile, Leu) and Phe (Tyr, Trp) are controlled by the local energetic preferences of the respective amino acids. © 2001 John Wiley & Sons, Inc. J Comput Chem 22: 732–751, 2001     

Theoretical study of electronic spectra of linear carbon clusters HC2nS (n = 1–5)

In this work we report the structures and stabilities of linear carbon clusters HC_2nS (n = 1–5) in their ground states using the B3LYP density functional. The rotational constants at the optimized geometries give excellent agreement with the experimental and previous theoretical values. The vertical excitation energies of the 2²Π ← X²Π transitions at the CASPT2 level are 3.16, 2.66, 2.05, 1.78, and 1.55 eV, respectively, in good agreement with the corresponding observed values of 3.01, 2.48, 2.10, 1.84, and 1.65 eV. Also, the exponential-decay curves for these vertical excitation energies obtained from experiments and theoretical calculations are illuminated.     

DFT study on the intermolecular interactions between Aun (n = 2–4) and thymine

Density functional B3LYP method with 6-31++G** basis set is applied to optimize the geometries of the luteolin, water and luteolin–(H₂O)_n complexes. The vibrational frequencies are also studied at the same level to analyze these complexes. We obtained four steady luteolin–H₂O, nine steady luteolin–(H₂O)₂ and ten steady luteolin–(H₂O)₃, respectively. Theories of atoms in molecules (AIM) and natural bond orbital (NBO) are used to investigate the hydrogen bonds involved in all the systems. The interaction energies of all the complexes corrected by basis set superposition error, are within −13.7 to −82.5 kJ/mol. The strong hydrogen bonding mainly contribute to the interaction energies, Natural bond orbital analysis is performed to reveal the origin of the interaction. All calculations also indicate that there are strong hydrogen bonding interactions in luteolin–(H₂O)_n complexes. The OH stretching modes of complexes are red-shifted relative to those of the monomer.     

Linear relationships in α,β-unsaturated carbonyl compounds between the half-wave reduction potentials, the frontier orbital energies and the Hammett σp values

A linear relationship between the half-wave reduction potentials of α,β-unsaturated carbonyl compounds R–CHCH–COX and the Hammett σ_p values of R and X is proposed: E_1/2=−1.341σ_p(X)σ_p(R)+1.123σ_p(X)+1.746σ_p(R)−1.694. A linear relationship is also observed for the LUMO's energy values, the absolute chemical hardness η, the chemical potential μ, the electrophilicity power ω, or the polarisation of the ethylenic double bond with the Hammett σ_p values of R and X.     

Ab initio study of the π–π interactions between CO2 and benzene,pyridine, and pyrrole

The π–π interactions between CO₂ and three aromatic molecules, namely benzene (C₆H₆), pyridine (C₅H₅N), and pyrrole (C₄H₅N), which represent common functional groups in metal‐organic/zeoliticimidazolate framework materials, were characterized using high‐level ab initio methods. The coupled‐cluster with single and double excitations and perturbative treatment of triple excitations (CCSD(T)) method with a complete basis set (CBS) was used to calibrate Hartree–Fock, density functional theory, and second‐order M?ller–Plesset (MP2) with resolution of the identity approximation calculations. Results at the MP2/def2‐QZVPP level showed the smallest deviations (only about 1 kJ/mol) compared with those at the CCSD(T)/CBS level of theory. The strength of π–π binding energies (BEs) followed the order C₄H₅N > C₆H₆ ～ C₅H₅N and was roughly correlated with the aromaticity and the charge transfer between CO₂ and aromatic molecule in clusters. Compared with hydrogen‐bond or electron donor–acceptor interactions observed during BE calculations at the MP2/def2‐QZVPP level of theory, π–π interactions significantly contribute to the total interactions between CO₂ and aromatic molecules. © 2013 Wiley Periodicals, Inc.     

Electronic spectra of the linear magnesium-containing carbon chains MgC2nH (n = 1–5): A CASPT2 study

Complete active space self-consistent-field (CASSCF) approach has been used for the geometry optimization of the X²Σ⁺ and A²Π electronic states for the linear magnesium-containing carbon chains MgC_2nH (n = 1–5). Multireference second-order perturbation theory (CASPT2) has been used to calculate the vertical excitation energies from the ground to selected seven excited states, as well as the potential energy curves of two ²Σ⁺ and two ²Π electronic states. The studies indicate that the vertical excitation energies of the A²Π ← X²Σ⁺ transition for MgC_2nH (n = 1–5) are 2.837, 2.793, 2.767, 2.714, and 2.669 eV, respectively, showing remarkable linear size dependence. Compared with the previous TD-DFT and RCCSD(T) results, our estimates for MgC_2nH (n = 1–3) are in the best agreement with the available observed data of 2.83, 2.78, and 2.74 eV, respectively. In addition, the dissociation energies in MgC_2nH (n = 1–5) are also been evaluated.     

Tetra- and hexaatomic cyclic clusters of main-group elements (XY)2 and (XY)3: an ab initio and density functional study

The electronic and molecular structure of planar (cyclic and linear) tetra- and hexaatomic clusters (XY) _n (XY = CC, BN, BeO, LiF; n = 2, 3) was studied using the ab initio CCD(full)/6-311+G** method and density functional approach (B3LYP/6-311+G**). The stability of cyclic clusters C₆, B₃N₃, and Be₃O₃ with D_3h symmetry is mainly determined by the aromaticity of their -electron systems.     

碱基与氮甲基乙酰胺相互作用的从头算和ABEEMσπ研究

选取氮甲基乙酰胺(N-Methylacetamide,NMA)和DNA碱基为研究对象,应用ABEEMσπ/MM方法研究了NMA与碱基之间形成的二聚体的几何构型、电荷分布及结合能等性质,并进行了相应的从头算(abinitio)MP2水平研究,在B3LYP/6-311 ++G(d,p)水平下对结构进行了优化.将2种方法的研...     

Tetraaryl-methane analogues in group 14—V. Distortion of tetrahedral geometryin terms of through-space π–π and π–σ interactions andNMR sagging in terms of π–σcharge transfer

44 members of thecompound series Ph_4−nMR_n (M=Si, Ge, Sn, Pb; R=o-, m-, p-Tol; n=0–4) were synthesized (15 newcompounds). The crystal structures of Ph₃Sn (o-Tol) and PhSn (o-Tol)₃ were determined and compared to 16 known structures. Subject to the distanced (M–C), an interplay between through-space π–π repulsion and π–σ attraction leads to either elongated or compressed tetrahedral geometry. ²⁹ Si-, ¹¹⁹ Sn- and ²⁰⁷ Pb-NMR chemical shifts were determined in solution and in the solid state. ⁷³ Ge chemical shifts were measured only in solution. Anupfield or downfield sagging of the chemical shifts along each series is rationalized in terms of a π–σcharge transfer which is constrained by torsion of the aromatic groups.     

Comparison of Ab Initio MP2/6-311+G(d,p) Predicted Carbon–Hydrogen Bond Distances with Experimentally Determined r 0 (C–H) Distances

Fifty different carbon–hydrogen distances have been predicted from ab initio MP2/6-311+G(d,p) calculations, which range from a short value of 1.0611 Å for HCNO to a long value of 1.1044 Å for H₂CO. The values include those predicted for a series of methyl (CH₃) moieties where the two different C–H distances vary by as much as 0.005 Å. These predicted values are compared to r ₀(C–H) distances obtained from the isolated carbon–hydrogen stretching frequencies, as well as to r ₀ or r _s parameters obtained from microwave data. Except for the very short C–H bonds, the ab initio values from the MP2/6–311+G(d,p) calculations can be used for the carbon–hydrogen distances with error limits of ± 0.003 Å. By utilizing the spectral data from CD₃CClO, it is shown that combination bands in the C–H stretching region could cause problems in the identification of the isolated C–H stretching frequency from the CD₂HCClO isotopomer. The value of the ab initio predicted C–H distances for checking unusually long or short r _s (C–H) or r ₀ values is demonstrated.     

Carbon,nitrogen, and oxygen hypercoordination in half-sandwich and sandwich structures

The structures and stabilities of a number of neutral and charged half-sandwich (pyramidal) and sandwich compounds, which obey the “electron octet” rule and contain hypercoordinate carbon, nitrogen, and oxygen atoms, were studied by ab initio MP2(full)/6-311+G** and density functional B3LYP/6-311+G** methods. Introduction of lithium counterions or bridging hydrogen atoms can provide an additional stabilization of non-classical systems with hypercoordinate centers.__________Published in Russian in Izvestiya Akademii Nauk. Seriya Khimicheskaya, No. 3, pp. 527–540, March, 2005.     

A theoretical study of the relative stability of the isomeric forms of N2O3

The electronic structure, geometrical parameters and relative stability of the isomeric forms of N₂O₃ are analysed by means of ab initio calculations. Total energies of the different isomers are given. The energy difference between the most stable conformers of the symmetric N₂O₃ is 4.31 Kcal mol^–1 as provided by 6–31G basis set. The height of the rotational barrier determined by the ab initio technique is 7.12 kcal mol^–1.Member of the Carrera del Investigador CICPBA, R. Argentina.Member of the Carrera del Investigador CONICET, R. Argentina.Predoctoral fellow of CONICET, R. Argentina.     

Structure and stability of closo-hexaboranes and their heteroanalogs

The molecular and electronic structures of closo-hexaboranes B₆H₆ ^2–, B₆H₇ ^–, and B₆H₈ and closo-heterohexaboranes XYB₄H₄ (X = Y = CH, N; X = BH, Y = CH^–, N^–, NH, O) were studed by the ab initio (MP2(full)/6-311+G**) and density functional (B3LYP/6-311+G**) methods. The bridging H atoms in closo-hexaboranes B₆H₇ ^– and B₆H₈ can undergo facile low-barrier migrations around the boron cage (the barrier heights are about 10—15 kcal mol^–1). All heteroboranes having octahedron-like structures with hypercoordinated N and O atoms are rather stable and can be the subject of synthetic research efforts.     

Valence state parameters of all transition metal atoms in metalloproteins—development of ABEEMσπ fluctuating charge force field

To promote accuracy of the atom‐bond electronegativity equalization method (ABEEMσπ) fluctuating charge polarizable force fields, and extend it to include all transition metal atoms, a new parameter, the reference charge is set up in the expression of the total energy potential function. We select over 700 model molecules most of which model metalloprotein molecules that come from Protein Data Bank. We set reference charges for different apparent valence states of transition metals and calibrate the parameters of reference charges, valence state electronegativities, and valence state hardnesses for ABEEMσπ through linear regression and least square method. These parameters can be used to calculate charge distributions of metalloproteins containing transition metal atoms (Sc‐Zn, Y‐Cd, and Lu‐Hg). Compared the results of ABEEMσπ charge distributions with those obtained by ab initio method, the quite good linear correlations of the two kinds of charge distributions are shown. The reason why the STO‐3G basis set in Mulliken population analysis for the parameter calibration is specially explained in detail. Furthermore, ABEEMσπ method can also quickly and quite accurately calculate dipole moments of molecules. Molecular dynamics optimizations of five metalloproteins as the examples show that their structures obtained by ABEEMσπ fluctuating charge polarizable force field are very close to the structures optimized by the ab initio MP2/6–311G method. This means that the ABEEMσπ/MM can now be applied to molecular dynamics simulations of systems that contain metalloproteins with good accuracy. © 2014 Wiley Periodicals, Inc.