Ab Initio and Density Functional Study of Complexes between the Methylamines and Water

Ultra-high resolution near-infrared spectrum by wavelet packet transform revealing the hydrogen bond interactions

Resolution is always an obstacle to analyzing the fine structure of a spectrum. The problem is particularly serious in the analysis of the near-infrared (NIR) spectra of aqueous solutions, because the spectrum is generally composed of overlapping broad peaks making the understanding of the structures and the interactions notoriously difficult. In this work, wavelet packet transform (WPT) was adopted to enhance the resolution of the NIR spectra of aqueous mixtures. Due to the microscopic ability of WPT in both position and frequency, the fine details of a spectrum can be observed in the spectral components of different frequencies obtained by WPT decomposition. Ultra-high resolution spectrum can be obtained from the high-frequency component representing the spectral features. Spectral features of different hydrogen-bonded OH, as well as the OH in HOH and HOD, were identified from the high-resolution NIR spectra of water and heavy water mixtures and validated by the variation of the spectral intensity with the mole ratio of H₂O and D₂O. The high-resolution spectrum was further applied in analyzing the interaction of amine and water. The spectral features of the hydrogen bonding between CH/NH in tert-butylamine (TBA) and OH in water were observed. The structures of CH bonded to one water molecule, and the structures of NH connecting with one and two water molecules were identified.

Exploring the non-covalent interactions behind the formation of amine–water complexes: the case of N-allylmethylamine monohydrate

Rotational spectroscopy and quantum chemical studies reveal the effects of hydrogen bonding with water on the conformer equilibrium of N-allylmethylamine.

Simplified mechanism for new particle formation from methanesulfonic acid, amines, and water via experiments and ab initio calculations

Airborne particles affect human health and significantly influence visibility and climate. A major fraction of these particles result from the reactions of gaseous precursors to generate low-volatility products such as sulfuric acid and high-molecular weight organics that nucleate to form new particles. Ammonia and, more recently, amines, both of which are ubiquitous in the environment, have also been recognized as important contributors. However, accurately predicting new particle formation in both laboratory systems and in air has been problematic. During the oxidation of organosulfur compounds, gas-phase methanesulfonic acid is formed simultaneously with sulfuric acid, and both are found in particles in coastal regions as well as inland. We show here that: (i) Amines form particles on reaction with methanesulfonic acid, (ii) water vapor is required, and (iii) particle formation can be quantitatively reproduced by a semiempirical kinetics model supported by insights from quantum chemical calculations of likely intermediate clusters. Such an approach may be more broadly applicable in models of outdoor, indoor, and industrial settings where particles are formed, and where accurate modeling is essential for predicting their impact on health, visibility, and climate.

Influence of relative humidity and gaseous ammonia on the nicotine sorption to indoor materials

Sorption of nitrogen-containing organic constituents of environmental tobacco smoke may be influenced by ammonia, a common indoor gas, and relative humidity (RH). We quantified sorption kinetics and equilibria of nicotine with stainless steel, cotton-polyester curtain, and polypropylene carpet at 0%, 50%, and 90% RH and in the presence of ammonia using a 10-l stainless steel chamber. Nicotine was introduced into the chamber by flash evaporating 50 μl of pure liquid. Kinetic sorption parameters were determined by fitting a mass balance model to experimental results using a nonlinear regression. Results show that an equilibrium partition coefficient, k(e) , of nicotine tended to increase as the RH increased for the curtain and carpet. Adsorbed water may contribute to an increase in available sites for nicotine sorption on the surface. In the presence of 20- and 40-ppm NH(3) , the values of k(e) for carpet were decreased by 14-40% at 50% and 90% RH, but the effect of NH(3) was not observed at 0% RH. The values of k(e) ranged from 54 to 152 m. Our findings indicate the relative importance of nicotine sorption to surfaces is dependent on the relative humidity and the presence of ammonia.

PRACTICAL IMPLICATIONS

This research demonstrates that relative humidity and gaseous ammonia can influence nicotine sorption to common indoor surfaces, i.e., curtains and carpets. Increasing the relative humidity from dry to modest appears to enhance the sorptive capacity. Presence of the typical range of gaseous ammonia concentrations can reduce the nicotine sorption in a humid environment but does not affect the sorptive capacity in the absence of added water. Thus, studies on the dynamic sorption of other alkaloids or amine constituents of environmental tobacco smoke to indoor surfaces should consider the impact of water vapor concentration because of the interaction of water with the surface and sorbates. Furthermore, the mixture of gaseous amines may participate in adsorption site competition.

Fourier transform infrared spectroscopy and theoretical study of dimethylamine dimer in the gas phase

Dimethylamine (DMA) has been studied by gas-phase Fourier transform infrared (FTIR) spectroscopy. We have identified a spectral transition that is assigned to the DMA dimer. The IR spectra of the dimer in the gas phase are obtained by spectral subtraction of spectra recorded at different pressures. The enthalpy of hydrogen bond formation was obtained for the DMA dimer by temperature-dependence measurements. We complement the experimental results with ab initio and anharmonic local mode model calculations of monomer and dimer. Compared to the monomer, our calculations show that in the dimer the N-H bond is elongated, and the NH-stretching fundamental shifts to a lower wavenumber. More importantly, the weak NH-stretching fundamental transition has a pronounced intensity increase upon complexation. However, the first NH-stretching overtone transition is not favored by the same intensity enhancement, and we do not observe the first NH-stretching overtone of the dimer. On the basis of the measured and calculated intensity of the NH-stretching transition of the dimer, the equilibrium constant for dimerization at room temperature was determined.

Long-Distance Structural Consequences of H-Bonding. How H-Bonding Affects Aromaticity of the Ring in Variously Substituted Aniline/Anilinium/Anilide Complexes with Bases and Acids

The aromaticity of the ring in variously substituted aniline/anilinium/anilide derivatives in their H-bonded complexes with various Broensted acids and bases was a subject of an analysis based on 332 experimental geometries retrieved from the Cambridge Structural Database and geometries optimized at the B3LYP/6-311+G** and MP2/aug-cc-pVDZ levels of theory. Ab initio modeling was applied to the para-substituted aniline, anilinium cation, and anilide anion derivatives (X = NO, NO2, CN, CHO, H, CH3, OCH3, and OH) and their H-bonded complexes (only for X = NO, NO2, CHO, H, and OH) with B (B = F- and CN-) or HB (HB = HF and HCN). In both cases, the harmonic oscillator model of aromaticity index (HOMA) was used, whereas for computational geometries, additionally, the magnetism-based indices NICS, NICS(1), and NICS(1)zz were also applied (NICS = nucleus-independent chemical shift). There is an equivalent prediction of aromaticity by NICSs and HOMA and approximate monotonic dependences of HOMA and NICS on the C-N bond length. The strongest changes in aromaticity estimated by HOMA and NICSs were found for aniline derivatives with NH2...B and anilide derivatives without and with NH-...HB interactions. The changes observed for two other kinds of interactions, NH2...HB and NH3+...base (for anilinium cations), are much smaller. For all four kinds of interactions, the relationships between ipso-bond angle, mean ipso-ortho bond length, and C-N bond length follow the Bent-Walsh rule.

Experimental and theoretical study of the atmospherically important O2-H2O complex

The theoretically predicted water-oxygen van der Waals adduct has been experimentally confirmed by vibrational characterization using matrix isolation spectroscopic studies at 10 K. Vibrational bands for asymmetric and symmetric OH-stretching for this adduct have been found at 3728 cm(-1) and 3639 cm(-1), respectively. Theoretical calculations performed with Gaussian 98 software at the MP2/6-311++G(2d,2p) level of theory support the alternative structure of the hydrated complex proposed by this study.

Are AM1 ligand-protein binding enthalpies good enough for use in the rational design of new drugs?

We have examined the performance of semiempirical quantum mechanical methods in solving the problem of accurately predicting protein-ligand binding energies and geometries. Firstly, AM1 and PM3 geometries and binding enthalpies between small molecules that simulate typical ligand-protein interactions were compared with high level quantum mechanical techniques that include electronic correlation (e.g., MP2 or B3LYP). Species studied include alkanes, aromatic systems, molecules including groups with hypervalent sulfur or with donor or acceptor hydrogen bonding capability, as well as ammonium or carboxylate ions. B3LYP/6-311+G(2d,p) binding energies correlated very well with the BSSE corrected MP2/6-31G(d) values. AM1 binding enthalpies also showed good correlation with MP2 values, and their systematic deviation is acceptable when enthalpies are used for the comparison of interaction energies between ligands and a target. PM3 otherwise gave erratic energy differences in comparison to the B3LYP or MP2 approaches. As one would expect, the geometries of the binding complexes showed the known limitations of the semiempirical and DFT methods. AM1 calculations were subsequently applied to a test set consisting of "real" protein active site-ligand complexes. Preliminary results indicate that AM1 could be a valuable tool for the design of new drugs using proteins as templates. This approach also has a reasonable computational cost. The ligand-protein X-ray structures were reasonably reproduced by AM1 calculations and the corresponding AM1 binding enthalpies are in agreement with the results from the "small molecules" test set.