Systems of oblate molecules. Monte Carlo study

Monte Carlo (MC) simulations were performed for systems of hard oblate spherocylinders with breadth-to-height ratios φ = 0.5–3.5 and packing fractions y = 0.25–0.45 and for Kihara oblate molecule systems of φ = 1 at reduced temperatures T* = 0.75 and 1.0 and y = 0.05–0.45. The compression factors and the dependence of the average correlation functions on the shortest surface-to-surface distance were determined for the case of hard oblate spherocylinders and the compression factors, residual internal energies and average correlation functions for the case of the generalized Kihara molecule systems. In addition, values of the third virial coefficient of the hard oblate spherocylinders were evaluated in the range of φ = 1–3. Results of the MC simulations for the hard oblate spherocylinders compare well with the available data in the literature and theoretical values; thermodynamic functions of the Kihara molecule systems were determined from the second-order perturbation theory. They agree well with our MC values at lower densities and higher reduced temperatures.     

Antibacterial Activity and Synergistic Effect of Biosynthesized AgNPs with Antibiotics Against Multidrug-Resistant Biofilm-Forming Coagulase-Negative Staphylococci Isolated from Clinical Samples

Silver nanoparticles form promising template for designing antimicrobial agents against drug resistant pathogenic microorganisms. Thus, the development of a reliable green approach for the synthesis of nanoparticles is an important aspect of current nanotechnology research. In the present investigation, silver nanoparticles synthesized by a soil Bacillus sp. were characterized using UV–vis spectroscopy, FTIR, SEM, and EDS. The antibacterial potential of biosynthesized silver nanoparticles, standard antibiotics, and their conjugates were evaluated against multidrug-resistant biofilm-forming coagulase-negative S. epidermidis strains, S. aureus, Salmonella Typhi, Salmonella Paratyphi, and V. cholerae. Interestingly, silver nanoparticles (AgNPs) showed remarkable antibacterial activity against all the test strains with the highest activity against S. epidermidis strains 145 and 152. In addition, the highest synergistic effect of AgNPs was observed with chloramphenicol against Salmonella typhi. The results of the study clearly indicate the promising biomedical applications of biosynthesized AgNPs.     

Surface States in a Simple Crystal Model

A very simple crystal model of a semi-infinite heteroatomic planar lattice like boronitride is investigated for the energy, wave functions and existence conditions of surface states, using the one-electron Green function method. σ and π electrons are treated separately. For π electrons, we find two surface state bands, both for the electropositive and the electronegative surface. The consequence is the existence of Shockley “subsurface” states. For σ electrons, similar results were found as for the sphalerite-type lattice. The investigated model can also be used to draw qualitative conclusions about the effect of electronic correlation on surface states of planar graphite. The possibility of finding a certain type of “antiferromagnetism” with π electrons localized on the planar graphite boundary is suggested. On étudie un modèle très simple d'un cristal avec un réseau sémi-infini, héteroatomique, comme le boronitride. L'énergie, les fonctions d'onde et des conditions d'existence d'états de surface ont été obtenus par la méthode de la fonction de Green à un électron. Les électrons σ et π ont été traités séparément. Pour les électrons π on trouve deux bandes d'états de surface pour la surface électropositive ainsi que pour la surface électronégative, ce qui implique l'existence d'états de “sous-surface” de Shockley. Pour les électrons σ on trouve des résultats semblables aux ceux qu'on a obtenu pour le réseau de type sphalérite. Le modèle étudié ici peut aussi être employé pour tirer des conclusions qualitatives sur l'effet de la corrélation électronique sur les états de surface du graphite plan. On propose qu'il serait possible de trouver un certain type de “antiferromagnétisme” avec les électrons π localisés sur le bord du graphite plan. Es wurde ein einfaches Modell für ein halb-unendliches, heteroatomares Kristallgitter, wie Boronitrid untersucht. Die Energie, die Wellenfunktionen und Existenzbedingungen für Oberflächenzustände wurden mit der Einelektron-Green-Funktionsmethode erhalten. Die σ- und π-Electronen wurden getrennt behandelt. Für die π-Elektronen finden wir zwei Bände für Oberflächenzustände, sowohl für die elektropositive als für die elektronegative Oberfläche. Als Folgerung erhalten wir die Shockleysche unteroberflächenzustände. Für die σ-Elektronen wurden ähnliche Resultate als für das Sphaleritgitter gefunden. Das untersuchte Modell kann auch dafür angewendet werden, urn den Effekt der elektronischen Korrelation auf die Oberflächenzustände planares Graphits in qualitativer Weise zu diskutieren. Es wurde vorgeschlagen, dass es möglich wäre, eine gewisse Art von “Antiferromagnetismus” der π-Elektronen die auf der Grenze planares Graphits lokalisiert sind, zu finden.     

Comparing Nonsmooth Nonconvex Bundle Methods in Solving Hemivariational Inequalities

Hemivariational inequalities can be considered as a generalization of variational inequalities. Their origin is in nonsmooth mechanics of solid, especially in nonmonotone contact problems. The solution of a hemivariational inequality proves to be a substationary point of some functional, and thus can be found by the nonsmooth and nonconvex optimization methods. We consider two type of bundle methods in order to solve hemivariational inequalities numerically: proximal bundle and bundle-Newton methods. Proximal bundle method is based on first order polyhedral approximation of the locally Lipschitz continuous objective function. To obtain better convergence rate bundle-Newton method contains also some second order information of the objective function in the form of approximate Hessian. Since the optimization problem arising in the hemivariational inequalities has a dominated quadratic part the second order method should be a good choice. The main question in the functioning of the methods is how remarkable is the advantage of the possible better convergence rate of bundle-Newton method when compared to the increased calculation demand.     

RELATIONSHIP BETWEEN SURVIVAL AND THYMINE-DIMER EXCISION IN ULTRAVIOLET-IRRADIATED ESCHERICHIA COLI

Abstract— The influence of amino acid prestarvation on both the resistance to u.v. light and excision of thymine dimers of bacterial strains E. coli B/r hcr ⁺ thy- trp ^-, E. coli B/r hcr ^-thy^- trp ^-, and E, coli 15 T^- 555–7 thy ^- meth ^- trp ^- arg ^- has been studied.
The prestarvation increased the resistance of all the strains but reasonably inhibited excision of thymine dimers. Thus the enhancement of u.v. resistance after amino acid prestarvation was not due to more complete excision of thymine dimers.     

Molecular vibrations and lattice dynamics of ortho-terphenyl

Infrared and Raman spectra of crystalline, melted and solvated ortho-terphenyl and its perdeuterated isotopomer, D₁₄-ortho-tephenyl, have been recorded. Optimized geometries and vibrational frequencies were calculated by the semiempirical RHF/AM1 method and by DFT using the B3LYP functional and 6–31G(d) basis set. In both cases the lowest energy conformation is of C₂ symmetry. With the scaled AM1 and B3LYP/6-31G(d) force fields the average error in reproducing the experimental molecular vibrational frequencies is 13cm^?1 and 5cm^?1, respectively. The AM1 potential energy surface for phenyl torsions was mapped on a 15° grid. The barrier to concerted internal rotation is estimated to lie between 3 kJ mol^?1 and 6kJ mol^?1. The calculations of the lattice dynamics at k = 0 in the low temperature fully ordered crystal phase of parent and deuterated ortho-terphenyl were performed with inclusion of six low lying intramolecular vibrations. The conformational change of the ortho-terphenyl molecule induced by crystal packing forces was taken into account by re-defining the unperturbed molecular vibrational state. Although an accurate assignment of lattice vibrations was not possible, the calculated spectra give quite a reasonable picture of the low frequency dynamics in crystalline ortho-terphenyl. The relevance of the results obtained to the glass forming property of ortho-terphenyl is discussed.     

Synthesis and molecular docking study of novel COVID-19 inhibitors

In 2020, the world tried to combat the corona virus (COVID-19) pandemic. A proven treatment method specific to Severe Acute Respiratory Syndrome Coronavirus-2 (SARS-CoV-2) is still not found. In this study, seven new antiviral compounds were designed for COVID-19 treatment. The ability of these compounds to inhibit COVID-19’s RNA processing was calculated by the molecular docking study. It has been observed that the compounds can have high binding affinities especially against NSP12 (between -9.06 and -8.00 kcal/mol). The molecular dynamics simulation of NSP12-ZG 7 complex proved the stability of interaction. The synthesis of two most active molecules was performed by one-pot reaction and characterized by FT-IR, ¹H-NMR, ¹³C-NMR, and mass spectroscopy. The compounds presented with their synthesis are inhibitory core structures against SARS-CoV-2 infection.     

Parity conservation and the Euclidean field formulation of relativistic quantum field theories

A method to construct Euclidean covariant fields corresponding to a relativistic quantum field theory with arbitrary spins is presented. The constructed fields act on a state space with an indefinite inner product, they commute (or anticommute) totally and (except for hermitian Fermion fields) adjoint relativistic fields correspond to adjoint Euclidean fields. The cases where this method can be applied include all Gårding-Wightman theories invariant under space inversion.     

Critical properties of non-spherical molecule fluids from the virial expansion

Critical constants of pure fluids (as important reference data in constructing vapour-liquid phase diagrams and basic input of various estimation methods) were determined for systems of non-spherical Kihara molecules; values of the critical temperature, density, compression factor and pressure of fluids composed of prolate and oblate molecules were evaluated from the fourth-order virial expansion. The second and third virial coefficients of the Kihara molecules were determined by applying the recently proposed method in which the effect of molecular core geometry and functional dependence of a pair interaction on the surface-surface distance are factorized and the former contribution determined from a formula for the corresponding hard convex body virial coefficient. The virial expansion for non-spherical Kihara molecules is applied to determine the critical constants of n-alkanes (methane to octane) and cyclic hydrocarbons (cyclopentane, cyclohexane, benzene and naphthalene); a fair agreement with experimental data was found.