A method for calculating the enthalpy of hydrophobic effect

A new method for calculating the enthalpy of hydrophobic effect for compounds incapable of specific interactions with water was suggested. The method is based on separating the enthalpy of hydration into the contributions from nonspecific hydration and hydrophobic effect. The contribution from nonspecific hydration was determined by a method described previously. The enthalpies of hydrophobic effect for inert gases, alkanes, aromatic hydrocarbons, and their derivatives were determined. It was found that the enthalpy of hydrophobic effect for inert gases and alkanes is negative and independent of the size of the molecule dissolved in water. For aromatic compounds, the enthalpy is positive; it increases with the molecular size.     

A significant new repulsive force in the hydrophobic interaction

We postulate the existence of a repulsive, induced dipole-induced dipole force that should be relevant to the hydrophobic interaction. By a Monte Carlo simulation we have confirmed that such a force exists, and that it should be a significant destabilizing factor in the hydrophobic interaction.     

A method for calculating the Gibbs energy of nonspecific solvation

A method for calculating the Gibbs energy of nonspecific solvation of nonelectrolytes was suggested. The new equation for the Gibbs energy of nonspecific solvation contains one solvent parameter that characterize nonspecific solvent-solute interactions and two experimental Gibbs energies of solvation in two standard solvents. The method is applicable to a wide range of solutes and solvents. It was successfully used to describe some 800 Gibbs energies of solvation for systems without specific solvent-solute interactions.     

A new method for partition of interaction energy. Relation between stabilization energy and orbital mixing

A new method for partition of interaction energy is proposed. The scheme given here easily connects the calculated stabilization energy with the orbital mixing in analyzing orbital interactions of molecules. The method can reveal the relation between the change of electron distribution and stabilization energy. As an example, orbital interaction energies are estimated for diazocompounds, diazomethane and diazirine.     

A new method for calculating activity coefficients of mixed electrolytes

In present work, a new method is developed from which activity coefficients for both electrolytes in admixture can be obtained simultaneously from the fitting of experimental activity coefficients of one of the electrolyte. The calculated results for the system HCl+KCl at 25°C are reported and discussed.     

A method for calculating the Gibbs energies of hydrophobic effects and specific interactions of nonelectrolytes in aqueous solutions

The thermodynamic characteristics of hydrophobic hydration, the Gibbs energies of hydrophobic effect, were calculated. The method for calculations was based on the division of the Gibbs energy of hydration into contributions of nonspecific interactions, specific interactions between solutes and solvents (if they exist), and hydrophobic effect. In the absence of specific interactions between solutes and water, the Gibbs energy of hydrophobic effect depended linearly on the characteristic molecular volume of the solute for substances with different structures and properties. The universality of this dependence allows the suggestion to be made that it remains valid also in the presence of specific interactions. This allows the Gibbs energy of specific interactions in water to be determined for a wide range of compounds, in particular, for aliphatic alcohols.     

计算烷烃沸点的新方法-基团键贡献法

根据分子中基团的特性和连接性,将基团贡献法和化学键贡献法结合在一起,发展了一种直接根据分子结构信息计算烷烃沸点的新方法-基团键贡献法,此方法同时具有基团贡献法和化学键贡献法的特点。对753种烷烃(C2～C100)的计算结果表明,沸点计算值与实验值的一致性令人满意,平均误差0.46%。     

A highly efficient hybrid method for calculating the hydration free energy of a protein

We develop a new method for calculating the hydration free energy (HFE) of a protein with any net charge. The polar part of the energetic component in the HFE is expressed as a linear combination of four geometric measures (GMs) of the protein structure and the generalized Born (GB) energy plus a constant. The other constituents in the HFE are expressed as linear combinations of the four GMs. The coefficients (including the constant) in the linear combinations are determined using the three‐dimensional reference interaction site model (3D‐RISM) theory applied to sufficiently many protein structures. Once the coefficients are determined, the HFE and its constituents of any other protein structure are obtained simply by calculating the four GMs and GB energy. Our method and the 3D‐RISM theory give perfectly correlated results. Nevertheless, the computation time required in our method is over four orders of magnitude shorter.     

A theory of protein-resin interaction in hydrophobic interaction chromatography

Docking simulations were performed in order to investigate surface area of interaction between several ribonucleases and a reduced model for the hydrophobic moiety used in Phenyl Sepharose using the program AutoDock 3.0. For each ribonucelase, 80 independent simulations with populations consisting of 100 random structures were performed and from these the most probable docked protein-ligand conformations were obtained. A new methodology was used to select the most probable conformations, based on qualitative and quantitative considerations. The interacting amino acids in each protein were identified. The average surface hydrophobicity of the interfacial zone (local hydrophobicity, LH) was determined. The LH showed a high correlation level (r2 = 0.99) with the "hydrophobic contact area" (HCA) experimentally determined for the different ribonucleases as well as with the dimensionless retention time (r2 = 0.90). This study allowed us to identify the zones on the protein surface most probably involved in protein retention in HIC, without tedious experimental work. Given the good correlation level obtained, this new methodology may constitute a novel approach that could be used to predict protein behavior in HIC.     

HINT: A new method of empirical hydrophobic field calculation for CoMFA

Summary An empirical hydrophobic field-like 3D function has been calculated with the program HINT (hydrophobic interactions) and imported into the SYBYL implementation of CoMFA (Comparative Molecular Field Analysis). The addition of hydrophobicity appears to offer increased chemical interpretability of CoMFA models. An example is given using the steroid model reported by Cramer et al. (J. Am. Chem. Soc., 110 (1988) 5959). While addition of the HINT field did not improve statistical parameters in this model, the CoMFA coefficient contours from the hydrophobic field unambiguously define the most active steroid molecules in the chemical terms of hydrophobic and polar substituents.     

计算受体和配体结合自由能的新方法

利用ABEEMσπ浮动电荷力场与连续介质模型相结合的方法,计算了受体和配体的结合自由能.将结合自由能分解为真空中的力场作用项、溶剂化能量以及熵效应.由于ABEEMσπ/MM方法充分考虑了外界环境发生变化引起的体系中各个位点之间的电荷极化,因而极大地提高了结合自由能的计算精度.利用该方法计算的2个复合物的结合自由能与实验值的偏差均小于0.5kJ/mol.     

New equation for calculating total interaction energy in one noncyclic ABC triad and new insights into cooperativity of noncovalent bonds

In this work, a new equation consist of A???B, B???C, A???BC, and AB???C interactions is proposed for calculating the total interaction energy of noncyclic ABC triads. New equations are also proposed for calculating the changes in values of A???B and B???C interactions on the formation of triad from the corresponding dyads. The advantages of equations proposed here in comparison with many‐body interaction energy approach are discussed. All proposed equations were tested in F₃MLi???NCH???HLH and F₃MLi???HLH???HCN (M = C, Si; L = Be, Mg) as well as H₃N???XY???HF (X, Y = F, Cl, Br) noncyclic A???B???C triads. The data show that the total cooperativity of triad correlates well with the sum of the changes in values of A???B and B???C interactions calculated through new equations proposed here. © 2016 Wiley Periodicals, Inc.     

Superoperator method for calculating configuration interaction,including doubly excited configurations

A superoperator algorithm that had been proposed previously [Teor. Éksp. Khim.,11, No. 1, 3 (1975)] for taking all doubly excited configurations into account has been worked out in detail for singlet states and has been realized numerically in theab initio version of STO-4G. The method does not require the construction of the configuration interaction matrix. This matrix is replaced by superoperators, which are rules for the transformation of the variational parameters, stacked, in a transition-type matrix. Calculations have been performed for small molecules of the second period, and also for linear chains of hydrogen atoms (for h₁₄, 1275 configurations were taken into account), for which additivity of the correlation energy is observed in the approximation that was used.Presented at Conference on Quantum Chemistry, Dnepropetrovsk, September, 1983.Translated from Teoreticheskaya i Éksperimental'naya Khimiya, Vol. 21, No. 4, pp. 385–391, July–August, 1985.     

A universal method for calculating isobaric-isothermal sections of ternary system phase diagrams

A method for calculating and constructing isobaric-isothermal sections of ternary system phase diagrams with the use of convex hulls was developed. The method is based on the projection of the singularities of the lower part of the Gibbs energy convex hull onto the plane of component mole fractions followed by a geometric analysis of the properties of this projection. The method is applicable to a wide range of ternary systems, it can be used to find tie-line coordinates and determine the phase compositions of all the diagram regions. The quality of the suggested algorithm was estimated, and examples of the construction of several phase diagrams are given.