Theoretical investigations of the elastic,electronic, optical and thermodynamics properties of SrSi

The crystal structural, electronic, optical and thermodynamic properties of SrSi are investigated by using the first-principles plane-wave pseudopotential density function theory within the generalized gradient approximation (GGA). We have calculated the ground states properties and they are in good agreement with the available experimental data and other theoretical results. We have obtained the electronic structure and density of states, and the results showed that both of Immm and Cmcm phases are metal material. The elastic properties such as elastic constants, shear modulus, Young's modulus and Poisson's ratio are obtained for the first time. Furthermore, the optical properties are reported for radiation up to 30 eV. Finally, the thermodynamic properties of Cmcm phase such as free energy, entropy, enthalpy, heat capacity and Debye temperature are given for reference.     

The generalized van der waals partition function. I. basic theory

Sandler, S.I., 1985. The generalized van der Waals partition function. I. Basic theory. Fluid Phase Equilibria, 19:233-257 In this paper we provide a new derivation of the generalized van der Waals partition function for pure fluids and mixtures, and show how this partition function can be used as a basis for understanding equations of state, their mixing rules, and excess free energy (activity coefficient) models. The results presented here clarify some of the confusion which presently exists in the literature concerning the ramifications of local composition thermodynamic models, and provide the theory for papers to follow which combine the generalized van der Waals partition function and our computer simulation results to obtain new, statistical mechanical-based thermodynamic models.     

Non-hard sphere thermodynamic perturbation theory

A non-hard sphere (HS) perturbation scheme, recently advanced by the present author, is elaborated for several technical matters, which are key mathematical details for implementation of the non-HS perturbation scheme in a coupling parameter expansion (CPE) thermodynamic perturbation framework. NVT-Monte Carlo simulation is carried out for a generalized Lennard-Jones (LJ) 2n-n potential to obtain routine thermodynamic quantities such as excess internal energy, pressure, excess chemical potential, excess Helmholtz free energy, and excess constant volume heat capacity. Then, these new simulation data, and available simulation data in literatures about a hard core attractive Yukawa fluid and a Sutherland fluid, are used to test the non-HS CPE 3rd-order thermodynamic perturbation theory (TPT) and give a comparison between the non-HS CPE 3rd-order TPT and other theoretical approaches. It is indicated that the non-HS CPE 3rd-order TPT is superior to other traditional TPT such as van der Waals/HS (vdW/HS), perturbation theory 2 (PT2)/HS, and vdW/Yukawa (vdW/Y) theory or analytical equation of state such as mean spherical approximation (MSA)-equation of state and is at least comparable to several currently the most accurate Ornstein-Zernike integral equation theories. It is discovered that three technical issues, i.e., opening up new bridge function approximation for the reference potential, choosing proper reference potential, and/or using proper thermodynamic route for calculation of f(ex-ref), chiefly decide the quality of the non-HS CPE TPT. Considering that the non-HS perturbation scheme applies for a wide variety of model fluids, and its implementation in the CPE thermodynamic perturbation framework is amenable to high-order truncation, the non-HS CPE 3rd-order or higher order TPT will be more promising once the above-mentioned three technological advances are established.     

New Proof of the Fukui Conjecture by the Functional Asymptotic Linearity Theorem

The present article provides a new proof of the Fukui conjecture concerning the additivity problem of the zero-point vibrational energies of hydrocarbons. This conjecture played a prominent role in the initial development of the repeat space theory (RST), and continues to be of vital significance in the recent development of the theory of the generalized repeat space X _r (q,d). The new proof of the Fukui conjecture has been given here by establishing the functional version of the Asymptotic Linearity Theorem (ALT), the Functional ALT. This enhanced version of the ALT directly implies the validity of the Fukui conjecture; it easily unifies, in a broad perspective, a variety of additivity phenomena in physico-chemical network systems having many identical moieties, and efficiently solves some interpretational problems of the empirical additivity formulae from experimental chemistry. The proof of the functional version of the ALT is based on a new method transferable to the extended theoretical framework of the generalized repeat space X _r (q,d).     

On the closure conjectures for the Gibbsian approximation model of a binary droplet

Within the framework of Gibbsian thermodynamics, a binary droplet is regarded to consist of a uniform interior and dividing surface. The properties of the droplet interior are those of the bulk liquid solution, but the dividing surface is a fictitious phase whose chemical potentials cannot be rigorously determined. The state of the nucleus interior and free energy of nucleus formation can be found without knowing the surface chemical potentials, but the latter are still needed to determine the state of the whole nucleus (including the dividing surface) and develop the kinetics of nucleation. Thus it is necessary to recur to additional conjectures in order to build a complete, thermodynamic, and kinetic theory of nucleation within the framework of the Gibbsian approximation. Here we consider and analyze the problem of closing the Gibbsian approximation droplet model. We identify micro- and Gamma-closure conjectures concerning the surface chemical potentials and excess surface coverages, respectively, for the droplet surface of tension. With these two closure conjectures, the Gibbsian approximation model of a binary droplet becomes complete so that one can determine both the surface and internal characteristics of the whole nucleus and develop the kinetic theory, based on this model. Theoretical results are illustrated by numerical evaluations for binary nucleation in a water-methanol vapor mixture at T=298.15 K. Numerical results show a striking increase in the droplet surface tension with decreasing droplet size at constant overall droplet composition. A comparison of the Gibbsian approximation with density functional calculations for a model surfactant system indicate that the excess surface coverages from the Gibbsian approximation are accurate enough for large droplets and droplets that are not too concentrated with respect to the solute.     

Relative Boltzmann entropy, evolution equations for fluctuations of thermodynamic intensive variables, and a statistical mechanical representation of the zeroth law of thermodynamics

Generalized thermodynamics or extended irreversible thermodynamics presumes the existence of thermodynamic intensive variables (e.g., temperature, pressure, chemical potentials, generalized potentials) even if the system is removed from equilibrium. It is necessary to properly understand the nature of such intensive variables and, in particular, of their fluctuations, that is, their deviations from those defined in the extended irreversible thermodynamic sense. The meaning of temperature is examined by means of a kinetic theory of macroscopic irreversible processes to assess the validity of the generalized (or extended) thermodynamic method applied to nonequilibrium phenomena. The Boltzmann equation is used for the purpose. Since the relative Boltzmann entropy has been known to be intimately related to the evolution of the aforementioned fluctuations in the intensive thermodynamic variables, we derive the evolution equations for such fluctuations of intensive variables to lay the foundation for investigating the physical implications and evolution of the relative Boltzmann entropy, so that the range of validity of the thermodynamic theory of irreversible processes can be elucidated. Within the framework of this work, we examine a special case of the evolution equations for the aforementioned fluctuations of intensive variables, which also facilitate investigation of the molecular theory meaning of the zeroth law of thermodynamics. We derive an evolution equation describing the relaxation of temperature fluctuations from its local value and present a formula for the temperature relaxation time.     

Open-system nonequilibrium steady state: statistical thermodynamics, fluctuations, and chemical oscillations

Gibbsian equilibrium statistical thermodynamics is the theoretical foundation for isothermal, closed chemical, and biochemical reaction systems. This theory, however, is not applicable to most biochemical reactions in living cells, which exhibit a range of interesting phenomena such as free energy transduction, temporal and spatial complexity, and kinetic proofreading. In this article, a nonequilibrium statistical thermodynamic theory based on stochastic kinetics is introduced, mainly through a series of examples: single-molecule enzyme kinetics, nonlinear chemical oscillation, molecular motor, biochemical switch, and specificity amplification. The case studies illustrate an emerging theory for the isothermal nonequilibrium steady state of open systems.     

Examination of an “improved” cell theory

The simple cell theory of dense simple liquids, based on irregularly arrange cells, is extended by allowing the atoms in all the cells to behave in the same fashion as the “reference” atom. It is shown that such a modification leads to two widely different sets of thermodynamic predictions, one of which is a modest improvement over the results of the original theory. The thermodynamic inconsistency is a result of the cell field potential being a function of temperature. A necessary condition which any cell theory of this general type must obey in order to have thermodynamic consistency is given.     

Hydrophobic Effect: Solubility of Non-polar Substances in Water,Protein Denaturation and Micelle Formation

The 'hydrophobic effect' of the dissolution process of non-polar substances in water has been analysed under the light of a statistical thermodynamic molecular model. The model, based on the distinction between non-reacting and reacting systems explains the changes of the thermodynamic functions with temperature in aqueous systems. In the dissolution of non-polar substances in water, it follows from the model that the enthalpy change can be expressed as a linear function of the temperature (ΔH _app =ΔH ^ø +n _w C _p,w T ). Experimental solubility and calorimetric data of a large number of non-polar substances nicely agree with the expected function. The specific contribution of n _w solvent molecules depends on the size of solute and is related to destructuring (n _w >0) of water molecules around the solute. Then the study of 'hydrophobic effect' has been extended to the protein denaturation and micelle formation. Denaturation enthalpy either obtained by van't Hoff equation or by calorimetric determinations again depends linearly upon denaturation temperature, with denaturation enthalpy, ΔH _den , increasing with T . A portion of reaction enthalpy is absorbed by a number n _w of water molecules (n _w >0) relaxed in space around the denatured moieties. In micellization, an opposite process takes place with negative number of restructured water molecules (n _w <0) because the hydrophobic moieties of the molecules joined by hydrophobic affinity occupy a smaller cavity.     

Communication: extended multi-state complete active space second-order perturbation theory: energy and nuclear gradients

The extended multireference quasi-degenerate perturbation theory, proposed by Granovsky [J. Chem. Phys. 134, 214113 (2011)], is combined with internally contracted multi-state complete active space second-order perturbation theory (XMS-CASPT2). The first-order wavefunction is expanded in terms of the union of internally contracted basis functions generated from all the reference functions, which guarantees invariance of the theory with respect to unitary rotations of the reference functions. The method yields improved potentials in the vicinity of avoided crossings and conical intersections. The theory for computing nuclear energy gradients for MS-CASPT2 and XMS-CASPT2 is also presented and the first implementation of these gradient methods is reported. A number of illustrative applications of the new methods are presented.     

Multidimensional Magic Mountains and Matrix Art for the generalized repeat space theory

The Asymptotic Linearity Theorem (ALT), which proves the Fukui conjecture in a broader context, plays a significant role in the repeat space theory (RST), which is the central unifying theory in the First and the Second Generation Fukui Project. Proving the Asymptotic Linearity Theorem Extension Conjecture (ALTEC) is a fundamental problem in the repeat space theory. The present paper constructs a class of functions MagicMtθ, which serves as a powerful tool for proving the Asymptotic Linearity Theorem Extension Conjecture and related propositions. The d-dimensional generalization?μ _d,n,θ of MagicMt _θ , which is given in the present paper and is called a ‘d-dimensional Magic Mountain’, provides inwardly repeating fractals in multidimensional spaces useful for interdisciplinary research that uses the generalized repeat space theory.     

Combined QCM-D/GE as a tool to characterize stimuli-responsive swelling of and protein adsorption on polymer brushes grafted onto 3D-nanostructures

A combined setup of quartz crystal microbalance and generalized ellipsometry can be used to comprehensively investigate complex functional coatings comprising stimuli-responsive polymer brushes and 3D nanostructures in a dynamic, noninvasive in situ measurement. While the quartz crystal microbalance detects the overall change in areal mass, for instance, during a swelling or adsorption process, the generalized ellipsometry data can be evaluated in terms of a layered model to distinguish between processes occurring within the intercolumnar space or on top of the anisotropic nanocolumns. Silicon films with anisotropic nanocolumnar morphology were prepared by the glancing angle deposition technique and further functionalized by grafting of poly-(acrylic acid) or poly-(N- isopropylacrylamide) chains. Investigations of the thermoresponsive swelling of the poly-(N-isopropylacrylamide) brush on the Si nanocolumns proved the successful preparation of a stimuli-responsive coating. Furthermore, the potential of these novel coatings in the field of biotechnology was explored by investigation of the adsorption of the model protein bovine serum albumin. Adsorption, retention, and desorption triggered by a change in the pH value is observed using poly-(acrylic acid) functionalized nanostructures, although generalized ellipsometry data revealed that this process occurs only on top of the nanostructures. Poly-(N-isopropylacrylamide) is found to render the nanostructures non-fouling properties.     

Multistep elution chromatography model of a multicomponent mixture

An interpretation of the conditions under which there is a likeness between chromatography and the Craig method during the processing of a multicomponent mixture is given. Equations for calculating the height equivalent to a theoretical separation step are discussed. Using the results from theoretical studies, the chromatographic system is described as a multistep cascade, and the generalized thermodynamic separation theory for binary and multicomponent mixtures is extended to elution chromatography.     

Mixing rules for van-der-Waals type equation of state based on thermodynamic perturbation theory

A concept based on the thermodynamic perturbation theory for a `simple fluid' has been applied to the attractive term of a van-der-Waals type equation of state (EOS) to derive a simple mixing rule for the a parameter. The new mixing rule is a small correction to the original one-fluid approximation to account for the influence of particles of j-type on the correlation function of ii-type in a mixture consisting of particles of i and j types. The importance of the correction has been shown by comparison of the calculated results for binary mixtures of Lennard–Jones fluids with the data obtained by numerical method (Monte-Carlo simulation). The new mixing rules can be considered as a flexible generalization of the conventional mixing rules and can be reduced to the original v-d-W mixing rules by defaulting the extra binary parameters to zero. In this way the binary parameters already available in the literature for many systems can be used without any additional regression work. Extension of the new mixing rules to a multicomponent system do not suffer from `Michelsen–Kistenmacher syndrome' and provide the correct limit for the composition dependence of second virial coefficients. Their applicability has been illustrated by various examples of vapor–liquid and liquid–liquid equilibria using a modified Patel–Teja EOS. The new mixing rules can be applied to any EOS of van-der-Waals type, i.e., EOS containing two terms which reflect the contributions of repulsive and attractive intermolecular forces.     

First-principle computational study on the full conformational space of L-threonine diamide, the energetic stability of cis and trans isomers

First-principle computations were carried out on the conformational space of trans and cis peptide bond isomers of HCO-Thr-NH2. Using the concept of multidimensional conformational analysis (MDCA), geometry optimizations were performed at the B3LYP/6-31G(d) level of theory, and single-point energies as well as thermodynamic functions were calculated at the G3MP2B3 level of theory for the corresponding optimized structures. Two backbone Ramachandran-type potential energy surfaces (PESs) were computed, one each for the cis and trans isomers, keeping the side chain at the fully extended orientation (chi1=chi2=anti). Similarly, two side chain PESs for the cis and trans isomers were generated for the (phi=psi=anti) orientation corresponding to approximately the betaL backbone conformation. Besides correlating the relative Gibbs free energy of the various stable conformations with the number of stabilizing hydrogen bonds, the process of trans-->cis isomerization is discussed in terms of intrinsic stabilities as measured by the computed thermodynamic functions.     

Modeling phase equilibria of alkanols with the simplified PC-SAFT equation of state and generalized pure compound parameters

The simplified PC-SAFT equation of state has been applied to liquid–liquid, vapor–liquid and solid–liquid equilibria for mixtures containing 1- or 2-alkanols with alkanes, aromatic hydrocarbons, CO₂ and water. For the alkanols we use generalized pure compound parameters. This means that two of the physical pure compound parameters, m (segment number) and σ (segment diameter), are obtained from linear extrapolations, since m and mσ³, increase linearly with respect to the molar mass, and moreover, the two association parameters (association energy and association volume) were assumed to be constant for all alkanols. Only the dispersion energy is fitted to experimental data. Thus it is possible to estimate parameters for several 1- and 2-alkanols. The final aim is to develop a group contribution approach for PC-SAFT which is suitable for complex compounds, considering that the motivation of this project is to obtain a thermodynamic model which can be used in the development of sophisticated products such as pharmaceuticals, polymers, detergents or food ingredients. One of the severe limitations in applying SAFT-type equations of state to these compounds is that the procedure for obtaining the pure compound parameters is usually based on fitting to saturated vapor pressure and liquid density data over an extended temperature range. However, such data are rarely available for complex compounds. To verify the new pure compound parameters, comparisons to ordinary optimized alkanol parameters, where all five pure compound parameters were fitted to experimental liquid density and vapor pressure data, were made. The results show that the new generalized alkanol parameters from this work perform at least as well as other alkanol parameter sets.     

Water and aqueous solutions: simple non-speculative model approach

Different ways of molecular modeling of water are analyzed and their similarities and differences identified. An up-to-date summary of achievements of a general approach to common rigid site-site interaction models of molecular fluids applied to water and aqueous solutions is then presented and discussed. The method is based on considering only a short-range part of a total realistic potential (such as SPC/E or TIPxP) which determines the structure of water (and fluids in general). A simplification of the interactions at short intermolecular separations leads then to simple models, called primitive models. Quite accurate results in an analytic form for the thermodynamic properties of the models are obtained using the thermodynamic perturbation theory. It is shown that the properly constructed primitive models reproduce, qualitatively, anomalies of pure water and basic characteristics of hydrophobic hydration. The concept of an extended excluded volume, based on pseudo-hard bodies, is introduced and exemplified by considering the partial molar volume of apolar solutes. Potential future development towards a theory of water based on the primitive models as a reference with the long-range contributions added as a perturbation is discussed.