The calculation of molar polarizabilities by the CNDO/2 method: Correlation with the hydrophobic parameter,log P

Results of molecular orbital (MO) calculations by the complete neglect of differential overlap (CNDO /2) method on 50 small molecules are reported. The summation of calculated atomic polarizabilities are equated with molecular polarizabilities, and these are compared with experimentally determined values. It is found that there is very good agreement between calculated and experimental molecular polarizability. This provides a reliable method for the determination of molecular polarizabilities for compounds for which experimental values are not known. The relationship between log P and polarizability is discussed and analyzed in terms of contributions from electronic components to the partitioning energy.     

Prediction of ternary vapor–liquid equilibria for 33 systems by molecular simulation

A set of molecular models for 78 pure substances from prior work is taken as a basis for systematically studying vapor–liquid equilibria (VLE) of ternary systems. All 33 ternary mixtures of these 78 components for which experimental VLE data are available are studied by molecular simulation. The mixture models are based on the modified Lorentz–Berthelot combining rule that contains one binary interaction parameter which was adjusted to a single experimental binary vapor pressure of each binary subsystem in prior work. No adjustment to ternary data is carried out. The predictions from the molecular models of the 33 ternary mixtures are compared to the available experimental data. In almost all cases, the molecular models give excellent predictions of the ternary mixture properties.     

Henry’s law constants of methane,nitrogen, oxygen and carbon dioxide in ethanol from 273 to 498 K: Prediction from molecular simulation

Henry’s law constants of the solutes methane, nitrogen, oxygen and carbon dioxide in the solvent ethanol are predicted by molecular simulation. The molecular models for the solutes are taken from previous work. For the solvent ethanol, a new rigid anisotropic united atom molecular model based on Lennard–Jones and coulombic interactions is developed. It is adjusted to experimental pure component saturated liquid density and vapor pressure data. Henry’s law constants are calculated by evaluating the infinite dilution residual chemical potentials of the solutes from 273 to 498 K with Widom’s test particle insertion. The prediction of Henry’s law constants without the use of binary experimental data on the basis of the Lorentz–Berthelot combining rule agree well with experimental data, deviations are 20%, except for carbon dioxide for which deviations of 70% are reached. Quantitative agreement is achieved by using the modified Lorentz–Berthelot combining rule which is adjusted to one experimental mixture data point.     

New hybrid method for reactive systems from integrating molecular orbital or molecular mechanics methods with analytical potential energy surfaces

A computational approach to calculating potential energy surfaces for reactive systems is presented and tested. This hybrid approach is based on integrated methods where calculations for a small model system are performed by using analytical potential energy surfaces, and for the real system by using molecular orbital or molecular mechanics methods. The method is tested on a hydrogen abstraction reaction by using the variational transition-state theory with multidimensional tunneling corrections. The agreement between the calculated and experimental information depends on the quality of the method chosen for the real system. When the real system is treated by accurate quantum mechanics methods, the rate constants are in excellent agreement with the experimental measurements over a wide temperature range. When the real system is treated by molecular mechanics methods, the results are still good, which is very encouraging since molecular mechanics itself is not at all capable of describing this reactive system. Since no experimental information or additional fits are required to apply this method, it can be used to improve the accuracy of molecular orbital methods or to extend the molecular mechanics method to treat any reactive system with the single constraint of the availability of an analytical potential energy surface that describes the model system.     

Molecular dynamics method in studies of molecular film growth processes

This review is an attempt to analyze some of the experimental problems arising in the course of growth of orientated molecular films using metal monophthalocyanine (MPc) films as an example and to demonstrate the possibilities of molecular dynamics simulation of these processes for solving experimental problems. Examples of theoretical simulation of adsorption processes are given; formation of a molecular monolayer is considered for copper phthalocyanine films as an example.     

Dipole moment enhancement in molecular crystals from X-ray diffraction data.

Although reliable determination of the molecular dipole moment from experimental charge density analyses on molecular crystals is a challenging undertaking, these values are becoming increasingly common experimental results. We collate all known experimental determinations and use this database to identify broad trends in the dipole moment enhancements implied by these measurements as well as outliers for which enhancements are pronounced. Compelling evidence emerges that molecular dipole moments from X-ray diffraction data can provide a wealth of information on the change in the molecular charge distribution that results from crystal formation. Most importantly, these experiments are unrivalled in their potential to provide this information in such detail and deserve to be exploited to a much greater extent. The considerable number of experimental determinations now available has enabled us to pinpoint those studies that merit further attention, either because they point unequivocally to a considerable enhancement in the crystal (of 50 % or more), or because the experimental determinations suggest enhancements of 100 % or more--much larger than independent theoretical estimates. In both cases further detailed experimental and theoretical studies are indicated.     

Analytic first and second derivatives of the energy in the fragment molecular orbital method combined with molecular mechanics

Analytic first and second derivatives of the energy are developed for the fragment molecular orbital method interfaced with molecular mechanics in the electrostatic embedding scheme at the level of Hartree-Fock and density functional theory. The importance of the orbital response terms is demonstrated. The role of electrostatic embedding upon molecular vibrations is analyzed, comparing force field and quantum mechanical treatments for an ionic liquid and a solvated protein. The method is applied for 100 protein conformations sampled in molecular dynamics (MD) to take into account the complexity of a flexible protein structure in solution, and a good agreement with experimental data is obtained: Frequencies from an experimental infrared (IR) spectrum are reproduced within 17 cm⁻¹ .     

热处理对照相明胶溶液粘度和分子量分布的影响

本文以四种照相明胶为研究对象,探讨热处理对照相明胶溶液粘度和分子量分布的影响。实验结果表明,随着加热温度上升,照相明胶溶液粘度下降,数均分子量下降。照相明胶溶液粘度和数均分子量密切相关,照相明胶溶液粘度下降发生的内在原因是数均分子量下降。在本实验条件下,惰胶、活性胶的加热温度不超过75℃,PA胶的加热温度不超过60℃。     

Gel permeation chromatography: calibration procedures for chains containing p-phenylene units

Experimental gel permeation chromatography calibrations have been obtained for polystyrene standards, polysulphone fractions, and polycarbonate fractions in chloroform at 30°. Chloroform is a good solvent for all three polymers which have similar polymer solvent interactions. The fractions have narrow molecular weight distributions, so that viscosity average molecular weight can be taken as the peak molecular weight of a chromatogram. The experimental polysulphone and polycarbonate calibrations are compared with curves calculated from the polystyrene calibration using equations which assume that the unperturbed mean-square end-to-end distance and hydrodynamic volume are universal calibration parameters. For molecular weights between 20,000 and 100,000 both universal calibration procedures were found to be acceptable. For polycarbonate extended chain length was also found to be satisfactory for universal calibration. For polycarbonate molecular weights below 20,000, the predicted molecular weight calibration deviated from the experimental data. Possible reasons for this difference are discussed.     

Computer Simulation of Molecular Dynamics: Methodology,Applications, and Perspectives in Chemistry

During recent decades it has become feasible to simulate the dynamics of molecular systems on a computer. The method of molecular dynamics (MD) solves Newton's equations of motion for a molecular system, which results in trajectories for all atoms in the system. From these atomic trajectories a variety of properties can be calculated. The aim of computer simulations of molecular systems is to compute macroscopic behavior from microscopic interactions. The main contributions a microscopic consideration can offer are (1) the understanding and (2) interpretation of experimental results, (3) semiquantitative estimates of experimental results, and (4) the capability to interpolate or extrapolate experimental data into regions that are only difficultly accessible in the laboratory. One of the two basic problems in the field of molecular modeling and simulation is how to efficiently search the vast configuration space which is spanned by all possible molecular conformations for the global low (free) energy regions which will be populated by a molecular system in thermal equilibrium. The other basic problem is the derivation of a sufficiently accurate interaction energy function or force field for the molecular system of interest. An important part of the art of computer simulation is to choose the unavoidable assumptions, approximations and simplifications of the molecular model and computational procedure such that their contributions to the overall inaccuracy are of comparable size, without affecting significantly the property of interest. Methodology and some practical applications of computer simulation in the field of (bio)chemistry will be reviewed.     

Contact angle interpretation in terms of solid surface tension

Recent experimental (low-rate) dynamic contact angles for 14 solid surfaces are interpreted in terms of their solid surface tensions. Universality of these experimental contact angle patterns is illustrated; other reasons that can cause data to deviate from the patterns are discussed. It is found that surface tension component approaches do not reflect physical reality. Assuming solid surface tension is constant for one and the same solid surface, experimental contact angle patterns are employed to deduce a functional relationship to be used in conjunction with the Young equation to determine solid surface tensions. The explicit form of such a relation is obtained by modifying Berthelot’s rule together with experimental data; essentially constant solid surface tension values are obtained, independent of liquid surface tension and molecular structure. A new combining rule is also derived based on an expression similar to one used in molecular theory; such a combining rule should allow a better understanding of the molecular interactions between unlike solid–liquid pairs.     

Gel-permeation chromatography: Examination of universal calibration procedures for polydimethylsiloxane in a poor solvent

Various procedures for universal calibration in gel-permeation chromatography with polystyrene gels are examined for polystyrene and polydimethylsiloxane fractions. For o-dichlorobenzene at 138°C, experimental intrinsic viscosity–molecular weight data show that the Mark-Houwink exponents are 0.70 and 0.57 for polystyrene and polydimethylsiloxane, respectively. In principle, this difference permits a distinction between the various polymer size parameters proposed for universal calibration. An interpretation of the experimental polydimethylsiloxane calibration for o-dichlorobenzene at 138°C requires a consideration of errors in average molecular weights and errors arising from the use of average molecular weight instead of peak molecular weight. When calibration procedures utilizing hydrodynamic volume and unperturbed dimensions are examined, the difference between them is comparable with experimental error. If the Flory-Fox viscosity expression is employed, the perturbed end-to-end distance (or radius of gyration) and the hydrodynamic volume give equivalent universal calibrations. The experimental data are sufficiently accurate to show that the perturbed dimension determined with the Ptitsyn-Eizner relation does not give an adequate universal calibration.     

Molecular dynamics calculation of molecular volumes and volumes of activation

Experimentally, the effects of pressure on reaction rates are described by their pressure derivatives, known as volumes of activation. Transition state theory directly links activation volumes to partial molar volumes of reactants and transition states. We discuss a molecular dynamics method for the accurate calculation of molecular volumes, within which the volumes of molecular species are obtained as a difference between the volumes of pure solvent and solvent with a single molecule inserted. The volumes thus obtained depend on the molecular geometry, the strength and type of the solute-solvent interactions, as well as temperature and pressure. The partial molar volumes calculated using this approach agree well with experimental data. Since this method can also be applied to transition state species, it allows for quantitative analysis of experimental volumes of activation in terms of structural parameters of the corresponding transition states. The efficiency of the approach is illustrated by calculation of volumes of activation for three nonpolar reactions in nonpolar solvents. The results agree well with the experimental data.     

On the Stability of Cyclophane Derivates Using a Molecular Fragmentation Method

A molecular fragmentation method is used to study the stability of cyclophane derivates by decomposing the molecular energy into the molecular strain and intramolecular interaction energies. The molecular strain energies obtained by utilising the fragmentation method are in good agreement with existing experimental data. The intramolecular interaction energies calculated as the difference between the supermolecular energy and the bonded fragment energies are repulsive in the cyclophanes studied. The nature of this interaction is studied for groups of systematically extended doubled layered paracyclophane systems using the random‐phase approximation (RPA), two recently developed extensions to the RPA and standard density functional theory (DFT) methods including dispersion corrections. Upon a systematic increase in conjugation the strongly repulsive intramolecular interaction energy reduces and thus leads to an increase in the stability. Finally, existing experimental and theoretical estimates of the molecular strain are compared with the results of this work.     

Absolute Rate Constants in Free-Radical Polymerization. III. Determination of Propagation and Termination Rate Constants for Styrene and Methyl Methacrylate

A spatially intermittent polymerization (SIP) reactor has been used for determination of absolute rate constants in photo-initiated, free-radical polymerization of styrene (STY) and methyl methacrylate (MMA). Experimental data are reported in the temperature range 15-30°C and in the high molecular weight region for MMA and STY. Additional experimental data are reported at 30° C and various lower molecular weights for STY which indicate that the propagation rate constant K is independent of polymer molecular weight, and K is dependent on molecular weight, especially at low molecular weight, approaching an approximately constant value at high molecular weight.     

分子力场进展

分子力学（简称ＭＭ）是近年来化学家常用的一种计算方法。与量子力学从头计算和半经验方法相比，用分子力学处理大分子可以大大节省计算时间，而且，在大多数情况下，用分子力学方法计算得到的分子几何构型参数与实验值之间的差值可在实验误差范围之内。所以，分子力学是研究生物化学体系的有效和可行的手段。分子力学的核心是分子力场。本文介绍了分子力场的量子力学背景、分子力场和光谱力场之间的关系。分子力场的一般形式、分力     

The chiral molecule CHClFI: first determination of its molecular parameters by Fourier transform microwave and millimeter-wave spectroscopies supplemented by ab initio calculations

The rotational spectrum of chlorofluoroiodomethane (CHClFI) has been investigated. Because its rotational spectrum is extremely crowded, extensive ab initio calculations were first performed in order to predict the molecular parameters. The low J transitions were measured using a pulsed-molecular-beam Fourier transform spectrometer, and the millimeter-wave spectrum was measured to determine accurate centrifugal distortion constants. Because of the high resolution of the experimental techniques, the analysis yielded accurate rotational constants, centrifugal distortion corrections, and the complete quadrupole coupling tensors for the iodine and chlorine nuclei, as well as the contribution of iodine to the spin-rotation interaction. These molecular parameters were determined for the two isotopologs CH35ClFI and CH37ClFI. They reproduce the observed transitions within the experimental accuracy. Moreover, the ab initio calculations have provided a precise equilibrium molecular structure. Furthermore, the ab initio molecular parameters are found in good agreement with the corresponding experimental values.     

IR Spectra of Paracetamol and Phenacetin. 1. Theoretical and Experimental Studies

IR spectra of paracetamol and phenacetin have been measured for powder crystals of these compounds and for their solutions in chloroform and dimethylsulfoxide. Ab initio calculations of their equilibrium geometry and vibrational spectra were carried out for spectrum interpretation. Differences between the experimental IR spectra of solutions and crystalline samples have been analyzed. Variations of molecular structure from the isolated state to molecular crystal were estimated based on the difference between the optimized molecular parameters of free molecules and the experimental bond lengths and angles evaluated for the crystal forms of the title compounds. The role of hydrogen bonds in the structure of molecular crystals of paracetamol and phenacetin is investigated, and spectral ranges with maximal intermolecular interactions are determined.     

Ab initio calculations on the effect of polarization functions on disiloxane

The effect of polarization functions for ab initio molecular orbital calculations at the 3-21G* level has been studied for disiloxane. Calculated molecular geometry, dipole moment, and the linearization barrier variation were analyzed for different uncontracted polarization functions. It was concluded that variation of the polarization function on oxygen has only a minor influence on the molecular properties of disiloxane, but its presence is required to obtain a bent geometry for the disiloxane bond. The calculated molecular properties of disiloxane are greatly influenced when the polarization function on silicon is varied. Two different values (0.3 and 0.9) for the exponent of the silicon polarization function provide results comparable to the experimental values for disiloxane. The only significant differences between the results obtained from ab initio calculations using the two polarization functions are in net atomic charges. The uncontracted polarization function of silicon with a value of 0.3 for its exponent is transferable to other organosilicon compounds. Calculated molecular geometries of flexible or rigid structures are in very good agreement with the experimental values.