Structural and electronic properties of heptachlor

In this work, the molecular geometry of heptachlor is investigated using ab initio HF, DFT, LDA, and GGA methods. The natural bond orbital (NBO) analysis is performed at the B3LYP/6-311++G(d,p) level of theory. The first order hyperpolarizability β_total, the mean polarizability Δα, the anisotropy of the polarizability Δα, and the dipole moment μ, are calculated by B3LYP/6-311++G(d,p) and HF/6- 311++G(d,p) methods. The first order hyperpolarizability (β_total) is calculated based on the finite field approach. UV spectral parameters along with HOMO, LUMO energies for heptachlor are determined in vacuum and the solvent phase using HF, DFT, and TD-DFT/B3LYP methods implemented with the 6-311++G(d,p) basis set. Atomic charges and electron density of heptachlor in vacuum and ethanol are calculated using DFT/B3LYP and TD-DFT/B3LYP methods and the 6-311++G(d,p) basis set. In addition, after the frontier molecular orbitals (FMOs), the molecular electrostatic potential (MEP), the electrostatic potential (ESP), the electron density (ED), and the solvent accessible surface of heptachlor are visualized as a results of the B3LYP/6-311++G(d,p) calculation. Densities of states (DOS), the external electric field (EF) effect on the HOMO-LUMO gap, and the dipole moment are investigated by LDA and GGA methods.     

Vibrational spectroscopic (FTIR and FT Raman) studies, first order hyperpolarizabilities and HOMO, LUMO analysis of p-toluenesulfonyl isocyanate using ab initio HF and DFT methods

The Fourier transform infrared (FTIR) and FT Raman spectra of p-toluenesulfonyl isocyanate (p-tosyl isocyanate) have been measured. The molecular geometry, vibrational frequencies, infrared intensities, Raman activities and atomic charges have been calculated by using ab initio HF and density functional theory calculation (B3LYP) with 6-311+G(d,p) basis set. Complete vibrational assignment and analysis of the fundamental modes of the compound were carried out using the observed FTIR and FT Raman data. The thermodynamic functions of the title compound were also performed with the aid of HF/6-311+G(d,p) and B3LYP/6-311+G(d,p) levels of theory. Simulated FTIR and FT Raman spectra for p-tosyl isocyanate showed good agreement with the observed spectra. The calculated HOMO and LUMO energies show that charge transfer occurs within the molecule. The dipole moment (μ), polarizability (α) and the hyperpolarizability (β) values of the investigated molecule have been computed using HF and B3LYP methods.     

Density functional studies of the dipole polarizabilities of the linear polyacenes benzene through nonacene

We report Ab Initio studies of the electric dipole polarizability of the linear polyacene series benzene through nonacene. A number of Ab Initio studies were done at different levels of theory for benzene, with all remaining Ab Initio calculations being at the B3LYP/6-311G(2d, 1p)//B3LYP/6-311+G(2d, 1p) level of theory. We find that the NN tensor component shows a constant increment of 20 atomic units per ring. AM1 and QSAR-quality empirical calculations show poor absolute agreement with the Ab Initio results but given excellent statistical correlation coefficients with the Ab Initio values. This implies that the results of such cheaper calculations can be suitably scaled for predictive purposes.     

Conformational simulations of aqueous solvated alpha-conotoxin GI and its single disulfide analogues using a polarizable force field model

The solution conformation of alpha-conotoxin GI and its two single disulfide analogues are simulated using a polarizable force field in combination with the molecular fragmentation quantum chemical calculation. The polarizability is explicitly described by allowing the partial charges and fragment dipole moments to be variables, with values coming from the linear-scaling energy-based molecular fragmentation calculations at the B3LYP/6-31G(d) level. In comparison with the full quantum chemical calculations, the fragmentation approaches can yield precise ground-state energies, dipole moments, and static polarizabilities for peptides. The B3LYP/6-31G(d) charges and fragment-centered dipole moments are introduced in calculations of electrostatic terms in both AmberFF03 and OPLS force fields. Our test calculations on the gas-phase glucagon (PDB code: 1gcn) and solvated alpha-conotoxin GI (PDB code: 1not) demonstrate that the present polarization model is capable of describing the structural properties (such as the relative conformational energies, intramolecular hydrogen bonds, and disulfide bonds) with accuracy comparable to some other polarizable force fields (ABEEM/MM and OPLS-PFF) and the quantum mechanics/molecular mechanics (QM/MM) hybrid model. The employment of fragment-centered dipole moments in calculations of dipole-dipole interactions can save computational time in comparison with those polarization models using atom-centered dipole moments without much loss of accuracy. The molecular dynamics simulations using the polarizable force field demonstrate that two single disulfide GI analogues are more flexible and less structured than the native alpha-conotoxin GI, in agreement with NMR experiments. The polarization effect is important in simulations of the folding/unfolding process of solvated proteins.     

Molecular Structure,Vibrational Analysis,Hyperpolarizability and NBO Analysis of 3-Methyl-Picolinic Acid Using SQM Calculations

In this study, FT-IR and FT-Raman spectra of 3-methyl picolinic acid (MPA) are recorded in the ranges 4000–450 cm^–1 and 4000–50 cm^–1, respectively. The optimized geometry is obtained by scaled quantum mechanical calculations using density functional theory employing the B3LYP functional with the 6–311++G(d,p) basis set. Vibrational assignments are suggested for all the fundamental vibrations unambiguously, using the potential energy distribution obtained in the computations. The rms error between the observed and calculated frequencies is found to be 8.48 cm^–1. The dipole moment, polarizability, and hyperpolarizability values are computed to study the NLO behavior of the molecule. The NBO analysis is made to study the stability of the molecule arising from hyperconjugative interactions and charge delocalization.     

Theoretical study on the electronic, structural, properties and reactivity of a series of mono-, di-, tri- and tetrafluorothiophenes as monomers for new conducting polymers

Electrical and structural properties of mono-, di-, tri- and tetrafluorothiophenes and their radical cations have been studied using density functional theory and B3LYP method with 6-311++G** basis set. The effects of the number and position of the substituent of fluorine atoms on the properties of the thiophene ring have been studied using optimized structures obtained for these molecules and their radical cations. Vibrational frequencies, spin-density distribution, size and direction of dipole moment vector, ionization potential, electric polarizability, HOMO-LUMO gaps and NICS values of these compounds have been calculated as well. The analysis of these data showed that double bonds in 3-fluorothiophene are more delocalized and it is the best possible candidate monomer among all fluorothiophenes for the synthesis of corresponding conducting polymers with modified characteristics.     

An efficient method for calculating atomic charges of peptides and proteins from electronic populations

An efficient method is presented to calculate atomic charges of peptides and proteins derived from Mulliken electronic populations for terminally blocked amino acids (Ac-X-NHMe, X = any neutral or charged residue) calculated at the B3LYP/6-31G(d,p)//HF/6-31G(d,p) level of theory. This electronic population-derived atomic charges (EPAC) method is based on the geometry-dependent atomic charge (GDAC) method proposed by Cho et al. (J. Phys. Chem. B 2001, 105, 3624), in which atomic charges are calculated by using the partial equalization of atomic electronegativities with electronegativity parameters and damping factors given by interatomic distances between covalently bonded atoms in a molecule. The overall mean absolute difference (mad) and root-mean-square deviation (rmsd) between dipole moments micro(EPAC) and micro(B3LYP), obtained from EPAC charges and from B3LYP/6-31G(d,p) level calculations, respectively, for Ac-X-NHMe are estimated to be 0.38 and 0.59 D, respectively, for 26 representative conformations in the training set, and 0.54 and 0.79 D, respectively, for 172 representative conformations not used for parametrization. For Ac-(Ala)(n)-NHMe (n = 2-6), the EPAC method reasonably predicts the increase of the dipole moment with increase of the chain length, although the deviations from the micro(B3LYP) values are somewhat larger. For Ac-Ala-NHMe and Ac-(Ala)(3)-NHMe, the EPAC charge for a specific type of atom does not depend on its position in the sequence or on the length of the sequence. In addition, charge neutrality holds for any Ala residue of these two peptides. Thus, these results suggest that the EPAC charges derived from B3LYP/6-31G(d,p) Mulliken populations can be used reliably for conformational analysis of peptides and proteins.     

Investigation of the structures and absorption spectra for some hemicyanine dyes with pyridine nucleus by TD-DFT/PCM approach

Density-functional theory calculations of the Rayleigh optical activities of small isolated polyglycine molecules are reported. Fully extended β-sheet-like conformations of polypeptides of glycine, (Gly)_n (with n=1–5) are considered. After geometry optimizations, dipole moments and dipole polarizabilities (both the mean and the anisotropic components) are calculated using the B3LYP and B3P86 functionals in three basis sets. The polarizabilities are used to analyze the Rayleigh scattering activities and depolarization ratios. The convergence of the average dipole polarizability per monomer is analyzed. The differences in activity and depolarization for Rayleigh scattered radiation between the extended β-sheet-like and the folded -helix-like forms of tetraglycine are analyzed and found to be relevant, suggesting its possible use in experimental characterization.     

A sum-over-state scheme of analysis of hyperpolarizabilities and its application to spiroconjugated molecular system

The static first and second hyperpolarizabilities of a number of spiromolecules with varying degree of polarity have been calculated at the HF and MP2 level using the 6-31+G* basis set and the B3LYP/6-31+G* optimized geometry. The variation of mean second hyperpolarizability in these molecular systems has been explained in terms of the ground state dipole moment, mean linear polarizability and second-order polarizability. A number of relationships among these quantities have been derived in the framework of the sum-over-state scheme and the generalized Thomas–Kuhn sum rule. The spiroconjugation results in the significant increase of the mean polarizability. The appreciable enhancement of first hyperpolarizability due to the spiroconjugation between two dipolar monomer units has been accounted for the rather significant increase of the mean polarizability tensor and the ground state dipole moment. The relatively larger value of the average second hyperpolarizability of the spiroconjugated molecules compared to that of the corresponding monomers arises from the rather significant increase of the nonaxial component γ _xxyy . The replacement of spirocarbon by spirosilicon results in the enhancement of the cubic polarizability manifold. The donor–acceptor substituted spirocompounds are predicted to be the superior third-order nonlinear optical (NLO) phores. The nature of π-conjugation in the monomer units around the spirocenter shows a strong modulation of the NLO properties of spirocompounds. The influence of electron correlation on the NLO properties at the MP2 level has been found to be rather significant.     

Polarizability of small carbon cluster anions from first principles

We examine the applicability of density functional theory (DFT) to the polarizability of Cn- (n = 3-9) cluster anions. This was achieved by comparing DFT calculations using two different exchange-correlation functionals (the non-empirical local density approximation, LDA, and the semiempirical hybrid functional B97-1) to quantum chemical calculations using the coupled cluster method in the CCSD(T) "gold standard" approximation. We find that, unless the extra electron is not bound at all by DFT, both LDA and B97-1 agree with the CCSD(T) calculation to within 5-10%, allowing for a meaningful qualitative and semiquantitative analysis. Furthermore, the polarizability is found to increase monotonically with chain size, consistent with the trend inferred from electron detachment experiments.     

Complete basis set extrapolated potential energy, dipole, and polarizability surfaces of alkali halide ion-neutral weakly avoided crossings with and without applied electric fields

Complete basis set extrapolations of alkali halide (LiF, LiCl, NaF, NaCl) energy, dipole, and polarizability surfaces are performed with and without applied fields along the internuclear axis using state-averaged multireference configuration interaction. Comparison between properties (equilibrium separation, dissociation energy, crossing distance, diabatic coupling constant, dipole, and polarizability) derived from the extrapolated potential energy (or dipole) surfaces are made with those obtained from direct extrapolation from the basis set trends. The two extrapolation procedures are generally found to agree well for these systems. Crossing distances from this work are compared to those of previous work and values obtained from the Rittner potential. Complete basis set extrapolated crossing distances agree well with those derived from the Rittner potential for LiF, but were significantly larger for LiCl, NaF, and NaCl. The results presented here serve as an important set of benchmark data for the development of new-generation many-body force fields that are able to model charge transfer.     

Vibrational spectra and non linear optical proprieties of L-histidine oxalate: DFT studies

This paper presents the results of our calculations on the geometric parameters, vibrational spectra and hyperpolarizability of a nonlinear optical material L-histidine oxalate. Due to the lack of sufficiently precise information on geometric structure in literature, theoretical calculations were preceded by re-determination of the crystal X-ray structure. Single crystal of L-histidine oxalate has been growing by slow evaporation of an aqueous solution at room temperature. The compound crystallizes in the non-Centro symmetric space group P2(1)2(1)2(1) of orthorhombic system. The FT-IR and Raman spectra of L-histidine oxalate were recorded and analyzed. The vibrational wave numbers were examined theoretical with the aid of Gaussian98 package of programs using the DFT//B3LYP/6-31G(d) level of theory. The data obtained from vibrational wave number calculations are used to assign vibrational bands obtained in IR and Raman spectroscopy of the studied compound. The geometrical parameters of the title compound are in agreement with the values of similar structures. To investigate microscopic second order non-linear optical NLO behaviour of the examined complex, the electric dipole μ(tot), the polarizability α(tot) and the hyperpolarizability β(tot) were computed using DFT//B3LYP/6-31G(d) method. According to our calculation, the title compound exhibits non-zero β(tot) value revealing microscopic second order NLO behaviour.     

含有噻唑生色团的Y-型有机分子的二阶非线性光学性质

采用密度泛函理论(DFT)B3LYP/6-31G*方法优化了一系列含有噻唑生色团的Y-型有机杂环分子的几何构型, 在此基础上结合有限场(FF)方法和含时密度泛函理论(TD-DFT)对分子的非线性光学(NLO)活性和电子光谱进行计算分析. 结果表明, 这些分子具有A-π-D-π-A(A: 受体, D: 给体)结构, 分子基态偶极矩、极化率和二阶NLO系数(β)随支链共轭桥的增长及生色团共轭效应的增大而增大. 同时, 该系列有机杂环分子的二阶极化率总的有效值(βtot)与其前线分子轨道能级相关, 分子的前线分子轨道能级差越小, βtot值越大.     

Thermodynamical study of the thermoelectric effect for magnesium silicide

The thermoelectric effect of magnesium silicide is studied by using a thermodynamical method in the presence of an electric field. The thermoelectric potential is evaluated from the partial derivative of free energy with respect to charge in which the free energy is calculated at the B3LYP/6-31G(d,p) level of density functional theory. This free energy is also utilized to determine the average dipole moment from which the polarizability, alpha; molar polarization, Psi; and dielectric constant can be computed. The present calculation for the dielectric constant (approximately 24-20) is in very good agreement with the experimental value (20). This accurate dielectric constant can be used to derive the relation of the thermoelectric potential with respect to temperature, from which the thermoelectric power or the Seebeck coefficients are calculated. The present result shows good agreement with experiment measurement for the Seebeck coefficients. In comparison, that calculation from the energy band structure theory is far off from the experimental values.     

Geometry, dipole moment, polarizability and first hyperpolarizability of polymethineimine: an assessment of electron correlation contributions

We have investigated the geometries as well as the longitudinal dipole moment (micro), polarizability (alpha), and first hyperpolarizability (beta) of polymethineimine oligomers using different approaches [Hartree-Fock (HF), second-order M?ller-Plesset (MP2), and hybrid density functional theory (DFT) methods (B3LYP and PBE0)] for evaluating the geometries and the nonlinear optical properties. It turns out that (i) HF and the selected DFT methods provide the incorrect sign for beta of short and medium size oligomers. (ii) The B3LYP and PBE0 electron correlation correction are too small for micro, too large for alpha, and for some oligomer lengths, they are in the wrong direction for beta. (iii) On the contrary to polyacetylene, the hybrid-DFT geometries are in poor agreement with MP2 geometries; the former showing much smaller bond length alternations.     

Molecular structure,vibrational spectra and nonlinear optical properties of orthoarsenic acid–tris-(hydroxymethyl)-aminomethane DFT study

In this work, we report a theoretical study on molecular structure, vibrational spectra and nonlinear optical properties of orthoarsenic acid–tris-(hydroxymethyl)-aminomethane (OATA). The theoretical geometrical parameters in the ground state have been investigated by density functional method (B3LYP and BLYP) with 6-311G(d,p) basis set. The influence of intermolecular interactions effects on molecular properties has been considered by calculation performed on (OATA) dimer. The optimized geometric bond lengths and bond angles are in well agreement with the experimental data. As compared to theoretical frequencies of the monomer, the calculated values obtained for (OATA) dimer are in much better agreement with the experiment. All experimental vibrational bands have been discussed and assigned to normal modes on the basis of our theoretical calculations. B3LYP method has shown better fit to experimental ones than BLYP in calculation vibrational frequencies. To investigate nonlinear optical behaviour, the electric dipole moment μ, the polarizability α and the hyperpolarizability β were computed using DFT//B3LYP/6-311G(d,p) method.     

Structure and Properties of Semiconductor Microclusters GanPn（n=1-4）： A First Principle Study

The possible geometrical structures and relative stabilities of semiconductor microclusters Ga.P.(n=1-4) were studied by virtue of density functional calculations with generalized gradient approximation(B3LYP). For the most stable isomers of Ga,,P.(n=1-4) clusters, the electronic structure, vibrational properties. dipole moment, polarizability and ionization potential were analyzed by means of HF. MP2. CISD and B3L YP methods with different basis sets.     

A DFT conformational analysis and VCD study on methyl tetrahydrofuran-2-carboxylate

DFT calculations were performed on (S)-methyl tetrahydrofuran-2-carboxylate to facilitate the interpretation of IR and VCD spectra. The potential energy surface could not be described unambiguously using the 6-31G* basis set in combination with different density functionals including B1LYP, B3LYP, B3P86, B3PW91, B98, BHandH, BHandHLYP, MPW1PW91 and PBE1PBE. In contrast, a uniform conformational picture could be found using the cc-pVTZ basis set. Using this large basis set and the collection of nine functionals from above, the dipole and rotational strengths were calculated, and compared to experimental values which were extracted from the experimental IR and VCD spectra for (+)-(S)-methyl tetrahydrofuran-2-carboxylate. A detailed analysis on the agreement between experiment and simulated spectra was performed by assigning the experimental bands based on the harmonic fundamentals obtained for all functionals except BHandH, which performs badly over the whole line. Assessing the dipole strengths, all tested functionals perform equally well. For the rotational strengths, differences can be observed: B3LYP, B1LYP and B98 give the highest correlation with experiment, while PBE1PBE gives the lowest correlation. Comparable conclusions are obtained using a neighborhood similarity measure.