Theoretical and experimental study of a novel psolaren derivate: (E)-9-(3,4-dimethylpent-2-enyloxy)-7H-furo[3,2-g]chromen-7-one.

A new psolaren derivate, (E)-9-(3,4-dimethylpent-2-enyloxy)-7H-furo[3,2-g]chromen-7-one, has been isolated and characterized by experimental and theoretical methodologies. The solid state molecular structure has been determined by X-ray diffraction methods. The substance crystallizes in the monoclinic P21/c space group with a=4.2389(5), b=26.090(3), c=12.482(1)Å, ß=96.990(9)°, and Z=4 molecules per unit cell. The crystal structure shows the molecule fused phenyl and hetero-cycle rings to be coplanar with each other. Ab initio(MP2) and DFT methods have been used to predict the molecular structure in the isolated molecule approximation and the results compared with the experimental data. The MP2/6-311G(d,p) calculations are in good agreement with the X-ray results. The calculated HOMO-LUMO energy gap shows that the intra-molecular charge transfer could easily occur, a prediction closely related to the observed bioactivity of this new compound. In addition, the infrared absorption and Raman dispersion spectra were recorded and an assignment of the observed spectral features to molecular vibrations was made. The vibrational study was assisted by quantum chemistry calculations at the MP2 and DFT level, which provided theoretical mode frequencies. The study was completed by natural bond orbital (NBO) analysis.

Vibrational and structural behavior of (L)-cysteine ethyl ester hydrochloride in the solid state and in aqueous solution.

The aim of this work is to evaluate the vibrational and structural properties of l-cysteine ethyl ester hydrochloride (CE), and its electronic behavior mainly in relation to the action of the thiol and amine groups at different degrees of solvation. The crystal structure of CE was determined at room temperature by X-ray diffraction methods. Infrared and Raman spectra were collected to compare the behavior of different functional groups in the molecule, both in the solid phase and in aqueous solution. Its UV and circular dichroism spectra were also measured in aqueous solution. The influence of an aqueous environment on the CE spectra was simulated by means of implicit (polarizable continuum model) and explicit (molecular dynamics, solute-solvent clusters) methods. Calculations in explicit and continuous solvent are of interest to explain the behavior of bioavailable sites in this medium. The study was completed by natural bond orbital analysis to determine the presence of hyperconjugative interactions.

Bis (trifluoromethyl) sulfone, CF3SO2CF3: synthesis, vibrational and conformational properties.

Bis (trifluoromethyl) sulfone, CF(3)SO(2)CF(3), was obtained as a byproduct in the synthesis of CF(3)SO(2)SCF(3). The compound was characterized by infrared and Raman spectroscopy as well quantum chemical calculations. Quantum mechanical calculations indicate the possible existence of two conformers symmetrically equivalent with C(2) symmetry. The preference for the staggered form was studied using the total energy scheme and the natural bond orbital (NBO) partition scheme. Additionally, the total potential energy was deconvoluted using a sixfold decomposition in terms of a Fourier-type expansion, showing that the hyperconjugative effect was dominant in stabilizing the staggered conformer. Infrared and Raman spectra of CF(3)SO(2)CF(3) were obtained. Harmonic vibrational wavenumbers and a scaled force field were calculated, leading to a final root mean-square deviation of 7.8 cm(-1) when comparing experimental and calculated wavenumbers.

Structural and vibrational analysis of thymoquinone.

The molecular structure of 2-isopropyl-5-methyl-1,4-benzoquinone, C(6)O(2)H(2) (CH(3))(3)CH, has been optimized using methods based on density functional theory (DFT) and Moller-Plesset second-order perturbation theory (MP2). As regards C(6)O(2)H(2) (CH(3))(3)CH, two populated conformations with C(1) (trans) and C(s) (cis) symmetries are obtained, the former being more stable than the latter. The theoretical data indicate that although both anti and cis conformers are possible by rotation about the C-C bond, the preferred conformation is trans. The effects governing the torsion barriers and preferred conformations were analyzed at B3LYP/6-311++G** level. The atoms in molecules (AIM) theory and natural bond orbital (NBO) analysis was applied to the cis and trans conformers in order to detect intramolecular contacts. Furthermore, the infrared spectra for the gas and solid phases and the Raman spectrum for the solid one, were recorded and the observed bands assigned to the vibrational modes.

Infrared and Raman spectra and quantum chemistry calculations for 2,2,2-trifluoroethyl trichloromethanesulfonate, CCl3SO2OCH2CF3.

The infrared spectra of CCl3SO2OCH2CF3 were obtained in the gaseous, liquid and solid states and complemented with the Raman spectrum of the liquid. Quantum chemistry calculations using the density functional theory (DFT) were used to predict the most stable geometry and conformation of the studied molecule. The harmonic vibrational frequencies and force field were also calculated. Comparison with related molecules and with the predicted frequencies was used as the basis for the assignment of the observed spectral features. Subsequently, a scaling of the original force field by means of a least square procedure was made in order to reproduce as well as possible the experimental frequencies, leading to a final root mean square deviation of 10.6 cm(-1).

Theoretical structure and vibrational analysis of ethyl methanesulfonate, CH3SO2OCH2CH3.

Ethyl methanesulfonate, CH3SO2OCH2CH3, is well-known as an alkylating agent in mutagenic and carcinogenic processes. Its electronic structure and that of the methanesulfonate anion (CH3SO3-) were determined using optimization methods based on density functional theory and Moller-Plesset second-order perturbation theory. For CH3SO2OCH2CH3, two conformations with symmetries C(s) and C1 are obtained, the former being more stable than the latter. Natural bond orbital (NBO) calculations show the C(s) conformation provides a more favorable geometry of the lone pairs of the oxygen atom linking the ethyl group. The NBO technique also reveals the characteristics of the methanesulfonate anion as a leaving group due to the rearrangement of the excess electronic charge after alkylation. Furthermore, the infrared spectra of CH3SO2OCH2CH3 are reported for the liquid and solid states as well as the Raman spectrum of the liquid. Comparison to experiment of the conformationally averaged IR spectrum of C(s) and C1 provides evidence of the predicted conformations in the solid IR spectrum. These experimental data along with the calculated theoretical force constants are used to define a scaled quantum mechanical force field for the target molecule, which allowed the measured frequencies to be reproduced with a final root-mean-square deviation of 9 cm(-1) and, thus, a reliable assignment of the vibrational spectrum.

Experimental and theoretical vibrational study of 2,2,2-trifluoroethyl trifluoromethanesulfonate, CF3SO2OCH2CF3.

The infrared spectra of 2,2,2-trifluoroethyl trifluoromethanesulfonate (CF3SO2OCH2CF3) were obtained in the gaseous, liquid and solid states as well as the Raman spectrum of the liquid. Quantum chemistry calculations using the density functional theory were used to predict the most stable geometry and conformation of the studied molecule. Subsequently, the harmonic vibrational frequencies and force field were calculated. An assignment of the observed spectral features made after comparison with the related molecules and with the predicted frequencies was used as the basis of a scaling of the original force field in order to reproduce as well as possible the experimental frequencies. With this purpose a set of scale factors was calculated by a least square procedure, leading to a final root mean square deviation (RMSD) of 9.7 cm(-1).