DFT-study of pressure-induced phase transition in L-threonine

Review of Applications of Density Functional Theory (DFT) Quantum Mechanical Calculations to Study the High-Pressure Polymorphs of Organic Crystalline Materials

Since its inception, chemistry has been predominated by the use of temperature to generate or change materials, but applications of pressure of more than a few tens of atmospheres for such purposes have been rarely observed. However, pressure is a very effective thermodynamic variable that is increasingly used to generate new materials or alter the properties of existing ones. As computational approaches designed to simulate the solid state are normally tuned using structural data at ambient pressure, applying them to high-pressure issues is a highly challenging test of their validity from a computational standpoint. However, the use of quantum chemical calculations, typically at the level of density functional theory (DFT), has repeatedly been shown to be a great tool that can be used to both predict properties that can be later confirmed by experimenters and to explain, at the molecular level, the observations of high-pressure experiments. This article's main goal is to compile, analyze, and synthesize the findings of works addressing the use of DFT in the context of molecular crystals subjected to high-pressure conditions in order to give a general overview of the possibilities offered by these state-of-the-art calculations.

Unique features of the structural phase transition in acetylene showing simultaneous characteristics of reconstructive, displacive and order-disorder

We have studied the two phases of the molecular crystal acetylene, C₂H₂, using calculations of the lattice dynamics by Density Functional Theory methods. together with the use of classical molecular dynamics (MD) simulation methods. The two phases share the same simple face-centred cubic lattice arrangement of the molecular centres of mass, but with different molecular orientations. We show that the higher-temperature phase has lower phonon frequencies and hence higher entropy, giving thermodynamic stability at higher temperature. The calculated lattice dynamics of this phase show instabilities associated with phonons involving pure rotations of the molecules. The MD results show large amplitudes of librational motion in this phase. The MD simulations also showed a potential phase transition to a structure of tetragonal symmetry. The picture that emerges is that the phase transition in acetylene is a very rare example of one that encompasses elements of three types of transition: displacive, order-disorder and reconstructive.

High-pressures study by Raman spectroscopy and DFT calculations of L-tyrosine hydrobromide crystal

The high-pressure Raman spectra of L-tyrosine hydrobromide crystal (LTHBr) were obtained from 1.0 atm to 8.1 GPa in the 100-3200 cm^-1 spectral region. The structural conformation and dimensions of the monoclinic unit cell were estimated using the powder X-ray diffraction (PXRD) method and Rietveld refinement using the GSAS program. At atmospheric pressure, the Raman spectrum was obtained in the spectral range of 100-3200 cm^-1 and the assignment of the normal modes based on density functional theory calculations was provided. Large wavenumber shifts of modes at 106, 123, and 157 were observed, which were interpreted as the large displacement of the atoms, making the molecule a flexible structure. The change in the slope (dɷ / dP) of these bands between the pressures of 3.0 and 4.0 GPa and the appearance of a mode of low wavenumber indicate the occurrence of a structural phase transition. A band initially observed at 181 cm^-1 in the spectrum recorded at 0.7 GPa change the relative intensity with a band at 280 cm^-1 (recorded at 5.8 GPa), indicating a conformational transition. In the region of the internal modes, the spectra show changes that reinforce the conformational phase transition since the bands initially at 1247 and 1264 cm^-1 observed at 1.0 GPa have their intensities reversed, and at 3.0 GPa it is observed the fusion of the bands at 1264 and 1290 cm^-1 (values recorded at ambient pressure). Thus, we can assume that the LTHBr crystal has undergone a structural phase transition and a conformational phase transition in the pressure range investigated.

Investigate the interaction of testosterone/progesterone with ionic liquids on varying the anion to combat COVID-19: Density functional theory calculations and molecular docking approach

Hormones like testosterone and progesterone in the humans play significant role in the regulation of various biological processes like the body growth, reproduction, and others. In last two decades, researchers are using ionic liquids (ILs) extensively in different areas of sciences, and they are a novel class of compounds as well as their polarity can be tuned. ILs are multidisciplinary in nature and can be used in chemistry, materials science, chemical engineering, and environmental science. Further, ILs are being explored to increase the solubility of drugs or biological potential molecules. Testosterone and progesterone are found to be not very polar in nature; therefore, the authors attempt to increase the solubility of testosterone and progesterone via interaction with ILs. It was studied with density functional theory calculations using Gaussian, and an increase in the value of dipole moment is observed for the complex of testosterone/progesterone with the ILs in comparison of individual one. The optimization energy and other thermodynamic energies of the ILs (IL1-IL3), testosterone (T), testosterone-IL (T-IL1 to T-IL3), progesterone (P), and progesterone-ILs (P-IL1 to P-IL3) are found to be negative. Further, the change in free energy for the formation of complexes at room temperature is calculated. Further, the authors have investigated the synergistic effect of testosterone and progesterone against the main protease of new coronavirus using molecular docking. It is observed that the testosterone-IL1 {IL1-3-(2-hydroxyethyl)-1-methyl-1H-imidazol-3-ium 2,4,6-trinitrophenolate} is found to be prominent against the main protease of SARS-CoV-2.