Calculation of the vibration–rotational transition intensities of water molecules trapped in an argon matrix: stretching O–H vibrations spectral region

The frequencies and intensities of vibration–rotational transitions of water molecules in an argon matrix were calculated for temperatures of 6 and 30 K. The rigid asymmetric top approximation was used with available literature values of the effective rotational constants in the ground and excited vibrational states. The calculations were carried out by taking into account the existence of a non-equilibrium population distribution between the rotational levels of ortho- and para-water isomers. It was assumed that the temperature relaxation of the population of rotational levels is independent of the ortho- and para-isomers. Comparison of the results of the theoretical calculations with experimental literature data shows good agreement for the majority of the rotational structure lines for symmetric and antisymmetric stretching vibrations both in the frequency values and in the values of the relative intensities.     

How Has the Bridge Fragment Chosen to Design Charge Transfer Molecular Device?

Applying the time-dependent density functional theory (TD-DFT) method the design of molecular logical functions from the dithieno[3,2-b:2,3-d]thiophene (thiophene) and azo-dye Disperse Orange 3 (DO3) molecules joined with various electron-insulator bridges is performed. Based on the results of the investigations, the main design rules for the selection of the bridge fragment between a photo-acceptor and photo-donor of a charge transfer molecular device are proposed.     

Cross-polarization with magic-angle spinning kinetics and impedance spectroscopy study of proton mobility,local disorder,and thermal equilibration in hydrogen-bonded poly(methacrylic acid)

The ¹H–¹³C cross-polarization with magic-angle spinning (CP MAS) kinetics was studied in poly(methacrylic acid) (PMAA) having the purpose to track the links between the local order in the main chain and the proton dynamics in peripheral hydrogen bond networks. The experimental CP MAS kinetic curves were analyzed applying the models of isotropic and anisotropic spin-diffusion with thermal equilibration. The fractal dimension D_p ≈ 3 was deduced that indicates that PMAA behaves as an isotropic 3D-system. No proton conductivity in the neat PMAA was deduced from the impedance spectroscopy data analyzing the frequency dependences of the complex dielectric permittivity. The value of local order parameter S = 0.70 for CH₂ in PMAA occupies an intermediate position between 0.63 and 0.85 deduced for CH₂ sites in the main chains of poly(vinyl phosphonic acid) and poly(2-hydroxyethyl methacrylate), that is, the true proton conductor and the polymer that contains the H-bond network, however, no proton conductivity, respectively.     

Hydrogen Bonding in Pyridine N-Oxide/Acid Systems: Proton Transfer and Fine Details Revealed by FTIR, NMR, and X-ray Diffraction

The H-bonded complexes of pyridine N-oxide (PyO) with H(2)O, acetic, cyanoacetic, propiolic, tribromoacetic, trichloroacetic, trifluoroacetic, hydrochloric, and methanesulfonic acids have been studied by FTIR and NMR spectroscopy, X-ray diffraction, and quantum chemical DFT calculations. Correlations between vibrational frequencies of the NO stretching and PyO ring modes and geometric parameters of the H-bond have been established. FTIR experiments show and DFT calculations confirm that definite discontinuity is present in the vicinity of the midpoint in the proton transfer pathway. The established correlations significantly aid in the understanding of fine effects such as the isotope (deuteration) effect, crystal-to-solution transition, or criticality of aqueous solutions induced by ionic pairs. Geometric isotope effect in the ionic H-bond aggregate of PyO·H(D)Cl was found to be extraordinary large. Measured FTIR, CP/MAS, and high-resolution (13)C NMR spectra indicate that H-bond in the PyO·HCl complex in polar solvent can potentially be more ionic than in the crystal. Vibrational modes of ionic pairs originating via proton transfer in H-bond complexes can provide new information concerning the interionic interaction and its role in the phase separation and mezo-structuring processes. The results are compared to the relevant data for PyO·HCl complex in argon matrix.     

1H NMR and DFT study of proton exchange in heterogeneous structures of pyridine-N-oxide/HCl/DCl/H2O

Moderately narrow 1H NMR signals were observed in the solid-phase obtained from pyridine-N-oxide (PyO)...HCl solutions in acetonitrile/H2O after heterogeneous phase separation. High-resolution 1H NMR spectra are compared with those of crystalline PyO...HCl and PyO...DCl. It is concluded that partially resolved peaks in 1H NMR spectra of solids are related with heterogeneity of the spin system and the presence of different mobile H-bond clusters containing PyO, HCl, DCl and water molecules. Some part of non-bonded water or HCl molecules is captured in the cavities of crystalline samples. The attribution of the 1H NMR signals was based on the density functional theory calculation of proton magnetic screening tensor of the most expected H-bond structures in the 6-311G** basis taking into account the solvent effect by the polarized continuum model.     

NMR probing of structural peculiarities in ionic solutions close to critical point

(1)H, (23)Na, (35)Cl, (79)Br, and (81)Br NMR chemical shifts (delta) and signal half widths (Delta(12)) have been measured in aqueous electrolyte mixtures [tetrahydrofuran/H(2)ONaCl and 3-methylpyridine (3MP)H(2)ONaBr] at different mass fractions of salt (X) in the one-phase region, close to their lower critical solution points (T(CL)). Discontinuous changes in slope of delta=f(X) and Delta(12)=f(X) have been found in (23)Na and (81)Br NMR spectra of 3MP/water/NaBr solution at X approximately 0.1 and T=301 K. The dependency of (1)H NMR signals of 3MP is continuous over the whole investigated range of X=0.002-0.2, whereas changes in the slope of H(2)O chemical shifts are hardly noticeable. In the two-phase region, i.e., at T>T(CL), a doubling of all NMR signals has been observed. The sensitivity of NMR parameters depends more on composition of solution for anions (Cl(-) and Br(-)) than for cations (Na(+)). A very strong relaxation effect for (81)Br nuclei with relaxation rates reaching 14 000 s(-1) was observed. The results are interpreted in terms of ion-molecular clustering and changes in coherency of dipole configurations of water molecules during supramolecular restructuring of solutions.     

Proton transfer in hydrogen-bonded pyridine/acid systems: the role of higher aggregation

In this work the role of higher molecular aggregation in the proton transfer processes within hydrogen bond (H-bond) is investigated. The H-bonded complex consisting of 4-cyanopyridine (CyPy) with trichloroacetic acid (TCA) has been studied in the solutions of acetonitrile, carbon tetrachloride, chloroform and dichloroethane as solvent by FTIR spectroscopy and quantum chemical DFT calculations. In order to illustrate the effect of increasing H-bond strength FTIR investigations have also been performed on solutions of CyPy with H(2)O, acetic-, trifluoroacetic- and methanesulfonic acids. Proton states in the H-bond have been monitored using vibrational CyPy ring modes in FTIR spectra. The stabilization of the CyPy/TCA complex in its protonated form upon increasing polarity of the solvent has been evidenced. It was shown that formation of the CyPy/(TCA)(2) aggregates in the solutions favors the proton transfer process. An X-ray diffraction study has been performed on a single 1 : 2 co-crystal of pyridine/3,5-dinitrobenzoic acid. The H-bond motif found in this system exhibits the same connectivity by strong hydrogen bonds N-H(+)[dot dot dot]O(-) and O-H[dot dot dot]O as that in the CyPy/(TCA)(2) complex predicted by DFT calculation. Certain discrepancies are observed in C-H[dot dot dot]O connectivity only. The networks of H-bonds in both assemblies differ from those usually pictured for 1 : 2 base/carboxylic acid complexes in the literature.     

Potential drugs and nondrugs: prediction and identification of important structural features

Using decision trees, a model to discriminate between potential drugs and nondrugs has been developed. Compounds from the Available Chemical Directory and the World Drug Index databases were used as training set; the molecular structures were represented using extended atom types. The error rate on an independent validation data set is 17.4%. The number of false negatives can be reduced by penalizing the misclassification of drugs so that 92 out of 100 potential drugs are correctly recognized. At the same time, 34 out of 100 nondrugs are classified as potential drugs. The predictions of the model can be used to guide the purchase or selection of compounds for biological screening or the design of combinatorial libraries. The visualization of the generated models in the form of colored trees allowed us to identify a few, surprisingly simple features that explain the most significant differences between drugs and nondrugs in the training set: Just by testing the presence of hydroxyl, tertiary or secondary amino, carboxyl, phenol, or enol groups, already three quarters of all drugs could be correctly recognized. The nondrugs, on the other hand, are characterized by their aromatic nature with a low content of functional groups besides halogens. The general applicability of the model is shown by the predictions made for several Organon databases.     

Quantum Mechanical Studies of Intensity in Electronic Spectra of Fluorescein Dianion and Monoanion Forms

Quantum chemical ab initio investigations with full geometrical optimizations of dianion and monoanion fluorescein molecules in the ground state were performed by applying the density functional theory (DFT) B3PW91/6-311G** model to clarify the difference in the geometrical and electronic structure of the dianion molecule and that of monoanion in influencing fluorescence. The mechanism of fluorescence of dianion and monoanion is explained and the reason for intensive fluorescence of dianion compared with that of monoanion is studied