Structural, Spectral, Thermodynamic and HOMO, LUMO Analysis of 2, 6 dithenobenzene-3-enyl 3, 5 dimethyl piperdine-4-one: A quantum chemical analysis

In the current work, the vibrational frequencies, infrared intensities, molecular geometry and Raman scattering were determined and investigated using ab initio Hartree–Fock (HF) and density functional methods with a basis set of 6-311++ G (d, p) of the organic molecule under interpretation. The FT-IR and FT-Raman spectra of titled molecule have been recorded in the region 4000-400 cm-1 and 5000-70 cm-1, respectively. The optimized geometry structures (bond lengths and bond angles) achieved using HF shows the best result with the experimental values of the titled molecule. The frontier molecular orbitals help to distinguish chemical responsiveness and molecular kinetic steadiness, thus HOMO-LUMO analysis can be done using the quantum chemistry to improve thermodynamics. The electron density mapping to electrostatic potential surfaces were involved in finding the reactivity sites of the titled compound. With the help of Gauss view 5.0 and Chemcraft packages, the obtained outputs are analyzed. Hyperpolarizability and non-linear optical effect of isolated molecules of NLO materials are observed to be an extensive tool for molecular spectroscopy research. Therefore, for industrial application, Hyperpolarizability of the molecule is also studied.

Potential of Hydroxybenzoic Acids From Graptopetalum paraguayense for Inhibiting of Herpes Simplex Virus DNA Polymerase – Metabolome Profiling, Molecular Docking and Quantum-chemical Analysis

According to our previous investigation the total methanol extract from Graptopetalum paraguayense E. Walther demonstrates a significant inhibitory effect on HSV-1. To clarify what causes this inhibitory activity on HSV-1, a metabolic profile of the plant was performed. Three main fractions: non-polar substances, polar metabolites and phenolic compounds were obtained and GC-MS analysis was carried out. Since it is well known that phenolic compounds show a significant anti-herpes effect and that viral DNA polymerase (DNApol) appears to play a key role in HSV virus replication, we present a docking and quantum-chemical analysis of the binding of these compounds to viral DNApol amino acids. Fourteen different phenolic acids found by GS/MS analyses, were used in molecular docking simulations. According to the interaction energies of all fourteen ligands in the DNApol pockets based on docking results, DFT calculations were performed on the five optimally interacting with the receptor acids. It was found that hydroxybenzoic acids from phenolic fraction of Graptopetalum paraguayense E. Walther show a good binding affinity to the amino acids from the active site of the HSV DNApol, but significantly lower than that of acyclovir. The mode of action on virus replication of acyclovir (by DNApol) is different from that of the plant phenolic acids one, probably.

Electronically Excited States of Potential Interstellar, Anionic Building Blocks for Astrobiological Nucleic Acids

Functionalizing deprotonated polycyclic aromatic hydrocarbon (PAH) anion derivatives gives rise to electronically excited states in the resulting anions. While functionalization with −OH and −C2H, done presently, does not result in the richness of electronically excited states as it does with −CN done previously, the presence of dipole-bound excited states and even some valence excited states are predicted in this quantum chemical analysis. Most notably, the more electron withdrawing −C2H group leads to valence excited states once the number of rings in the molecule reaches three. Dipole-bound excited states arise when the dipole moment of the corresponding neutral radical is large enough (likely around 2.0 D), and this is most pronounced when the hydrogen atom is removed from the functional group itself regardless of whether functionalized by a hydroxyl or enthynyl group. Deprotonatation of the hydroxyl group in the PAH creates a ketone with a delocalized highest occupied molecular orbital (HOMO) unlike deprotonation of a hydrogen on the ring where a localized lone pair on one of the carbon atoms serves as the HOMO. As a result, hydroxyl functionlization and subsequent deprotonation of PAHs creates molecules that begin to exhibit structures akin to nucleic acids. However, the electron withdrawing −C2H has more excited states than the electron donating −OH functionalized PAH. This implies that the −C2H electron withdrawing group can absorb a larger energy range of photons, which signifies an increasing likelihood of being stabilized in the harsh conditions of the interstellar medium.

Potential of Hydroxybenzoic Acids from Graptopetalum paraguayense for Inhibiting of Herpes Simplex Virus DNA Polymerase – Metabolome Profiling, Molecular Docking and Quantum-chemical Analysis

According to our previous investigation the total methanol extract from Graptopetalum paraguayense E. Walther demonstrates a significant inhibitory effect on HSV-1. To clarify what causes this inhibitory activity on HSV-1, a metabolic profile of the plant was performed. Three main fractions: non-polar substances, polar metabolites and phenolic compounds were obtained and GC-MS analysis was carried out. Since it is well known that phenolic compounds show a significant anti-herpes effect and that viral DNA polymerase (DNApol) appears to play a key role in HSV virus replication, we present a docking and quantum-chemical analysis of the binding of these compounds to viral DNApol amino acids. Fourteen different phenolic acids found by GS/MS analyses, were used in molecular docking simulations. According to the interaction energies of all fourteen ligands in the DNApol pockets based on docking results, DFT calculations were performed on the five optimally interacting with the receptor acids. It was found that hydroxybenzoic acids from phenolic fraction of Graptopetalum paraguayense E. Walther show a good binding affinity to the amino acids from the active site of the HSV DNApol, but significantly lower than that of acyclovir. The mode of action on virus replication of acyclovir (by DNApol) is different from that of the plant phenolic acids one, probably.

Origin of Salt Effects in SN2 Fluorination Using KF Promoted by Ionic Liquids: Quantum Chemical Analysis

Quantum chemical analysis is presented, motivated by Grée and co-workers’ observation of salt effects [Adv. Synth. Catal. 2006, 348, 1149–1153] for SN2 fluorination of KF in ionic liquids (ILs). We examine the relative promoting capacity of KF in [bmim]PF6 vs. [bmim]Cl by comparing the activation barriers of the reaction in the two ILs. We also elucidate the origin of the experimentally observed additional rate acceleration in IL [bmim]PF6 achieved by adding KPF6. We find that the anion PF6- in the added salt acts as an extra Lewis base binding to the counter-cation K+ to alleviate the strong Coulomb attractive force on the nucleophile F-, decreasing the Gibbs free energy of activation as compared with that in its absence, which is in good agreement with experimental observations of rate enhancement. We also predict that using 2 eq. KF together with an eq. KPF6 would further activate SN2 fluorination.

Diacetate Cellulose-Silicon Bionanocomposite Adsorbent for Recovery of Heavy Metal Ions and Benzene Vapours: An Experimental and Theoretical Investigation

The diacetate cellulose-silicon bionanocomposite adsorbent (DACSBNC) was first introduced to recover heavy metal ions and benzene vapors. The adsorption thermodynamics of heavy metal ions and benzene vapors on the DACSBNC was first investigated by the adsorption-calorimetric, X-ray, and theoretical methods. The observed results confirmed that (i) the adsorption capacitance of DACSBNC for cadmium (II), mercury (II), and lead (II) ions were accounted for 12.23, 13.87, and 31.40 mg/g, respectively; (ii) the sorption capacitance of DACSBNC for benzene vapors was 0.5618 mmol/g. The quantum chemical calculation was also carried out on the density functional theory (DFT) using the 6-31G (d, p)/B3LYP basis sets in Gaussian 09. The results of the quantum chemical analysis support the experimental results.