A combination of experiments and molecular dynamic (MD) simulations has been applied to elucidate the nature of water on organic self-assembled monolayers (SAMs) before and after oxidation. SAMs mimic organics adsorbed on environmental urban surfaces. Water on clean or SAM-coated borosilicate glass surfaces was measured at equilibrium as a function of relative humidity (RH), using transmission Fourier transform infrared (FTIR) spectroscopy at 1 atm and 22 +/- 1 degrees C. The SAMs included C18 and C8 alkanes, as well as the C8 terminal alkene. Oxidation of the terminal alkene SAM was carried out with either KMnO(4) solution or gaseous O(3). The FTIR data showed at least two distinct peaks due to water on these surfaces, one at approximately 3200 cm(-1), which dominates at low RH (20%), and one at approximately 3400 cm(-1) at high RH (80%), which is similar to that in bulk liquid water. Temperature-programmed desorption (TPD) experiments showed that oxidation leads to more strongly adsorbed water. However, the amount of water in equilibrium with water vapor on the oxidized alkene was not significantly different from that on the unoxidized SAM, although there was a change in the relative intensities of the two contributing infrared peaks at 80% RH. MD simulations with hydrogen bond analysis suggest that molecules on the surface of small water clusters that dominate on SAM surfaces at low RH have fewer hydrogen bonds, while those in the interior of the clusters have three and four hydrogen bonds similar to bulk liquid water. Taken together, the experimental infrared data and MD simulations suggest a correlation between the relative intensities of the 3200 cm(-1)/3400 cm(-1) bands and the hydrogen-bonding patterns of the water on the surface and in the interior of clusters on the SAM surfaces. These studies suggest that water clusters will be present even on hydrophobic surfaces in the atmosphere and hence are available to participate in heterogeneous chemistry. In addition, oxidation of organic coatings on atmospheric particles or surfaces in the boundary layer may not lead to enhanced water uptake as is often assumed.

The allylic H-atom abstraction reaction plays a more dominant role, especially at lower temperature, than addition reactions in the case of the CH2 [Formula: see text] CH-CH3 + •OH system. Different computational methods including ab initio as well as density functional methods have been used to examine allylic H-abstraction. Both the energetically less favorable direct H-abstraction and the more favorable indirect H-abstractions have been investigated. Using first principles computations, for the indirect abstraction, a stable π- or reactantlike as well as a late productlike complex were found on the potential energy surface. Based on higher level single point calculations (QCISD(T)/6-311+G(3df,2p)), a new activation enthalpy value, Δ(⧧)H° = 0.3 ± 2 kJ/mol, is suggested for the title reaction. The computed reaction enthalpy ΔrH° = -124.7 ± 2 kJ/mol is in good agreement with the experimental value. The stability of the initial π-complex was found to be ΔH°π-complex = -7.1 kJ/mol. The product complex between the transition state and the product was found with the stability of -127.2 kJ/mol.

The amide bond may be considered as one of the most important chemical building blocks, playing an important role not only in living organisms but in organic chemistry as well. The exact description and precise quantification of the amide bond strength is difficult, requiring a particular type of theoretical investigation. The present paper suggests a novel, yet simple, method toward quantifying amide bond strength on a linear scale, defined as the "amidity scale". This is achieved using the computed enthalpy of hydrogenation (DeltaHH2) of the compound examined. In the present conceptual work, the DeltaHH2 value for dimethylacetamide is used to define perfect amidic character (amidity=+100%), while azaadamantane-2-on represents complete absence of amidic character (amidity=0%). The component DeltaHH2 values were computed at differing levels of theory, providing a computational and quasi-"method-independent" measure of amidity. A total of 29 well-known amides were examined to demonstrate the "scoring" accuracy of this methodology. For the compounds examined, a correlation has been made between the computed amidity percentage and their common COSNAR resonance energy values, proton affinities, and reactivity in a nucleophilic addition reaction. Selected chemical reactions were also studied. It has been shown that the change of the amidity value, during acyl transfer reactions, represents a thermodynamic driving force for the reaction.

Abstract:A series of 41 Monte Carlo simulations are performed in the grand canonical ensemble at 200 K to determine the adsorption isotherm and study in detail the adsorption of methylamine at the surface of I h ice. The adsorption isotherm exhibits a plateau, corresponding to the saturated adsorption monolayer, in a broad range of chemical potentials and pressures.However, even this part of the adsorption isotherm deviates noticeably from the Langmuir shape. Shortly before condensation of methylamine occurs outer molecular layers also start building up. The remarkable stability of the adsorption monolayer is caused by the interplay of hydrogen bonding interaction between the adsorbed methylamine and surface water molecules and dipolar interaction between neighboring adsorbed methylamines. As a consequence, the adsorbed methylamine molecules exhibit a rich orientational distribution relative to the ice surface and the adsorption is accompanied by rather large energy variations.3

Molecular dynamics simulations are used to study the evolution of the organization of water molecules on the flat surface of well-ordered self-assembled monolayers (SAMs) of eight-carbon alkanethiolate chains bound to a gold substrate, as the character of the surface is finely tuned from completely hydrophobic to completely hydrophilic, and as the level of hydration is increased from submonolayer to the equivalent of about two monolayers of water. The hydrophilicity of the SAM surfaces is increased by randomly replacing methyl-terminated alkanethiolate chains with carboxylic acid-terminated chains. We report on the evolution of the structure of the surfaces of the SAMs, both in the absence and presence of water, and the organization of water molecules and the extent of wetting of the surfaces, as the fraction of hydrophilic groups is increased. The results suggest that on the flat organic surfaces with a small fraction of the hydrophilic components the hydrophilic spots serve as nucleation sites, resulting in the growth of a larger number of (smaller) water droplets compared to the completely hydrophobic surface, whereas on the surfaces with a large fraction of the hydrophilic component the uptake of water proceeds via a water film growing, at first, over the hydrophilic domains and, eventually, bridging over the hydrophobic patches, and spreading out over the entire surface. We discuss the implications of these processes on the properties of the organic aerosols in the atmosphere.

Grand canonical Monte Carlo simulations are used to determine water adsorption on prototypical organic surfaces as a function of relative humidity at 300 K. Three model surfaces formed by well-ordered self-assembled monolayers (SAMs) of alkanethiolate chains on gold are investigated: (i) a smooth hydrophobic surface of methyl-terminated C(7)-CH(3) SAM; (ii) a rough hydrophobic surface of randomly mixed two-component SAM, composed of equal fractions of C(5)-CH(3) and C(7)-CH(3) chains (C(5)/C(7)-CH(3) SAM); and (iii) a smooth hydrophilic surface of carboxyl-terminated C(7)-COOH SAM. The all atom CHARMM22 force field is used for the SAM chains together with the SPC/E model for water. No noticeable water adsorption is observed on the smooth hydrophobic surface up to saturation. The mild surface roughness introduced by the uneven chain length of the two components constituting the C(5)/C(7)-CH(3) SAM has no significant effect on the surface hydrophobicity, and the rough hydrophobic surface also remains dry up to the point when water condensation occurs. In contrast, water readily adsorbs onto the hydrophilic surface by forming hydrogen bonds with the COOH groups of the substrate. In addition, hydrogen bonding with pre-adsorbed water molecules contributes to the mechanism of water uptake. Under low humidity conditions, water is present on the hydrophilic surface as individual molecules or small water clusters and, with increasing relative humidity, the surface coverage grows continuously beyond a monolayer formation. The adsorbed water film is observed to be rather inhomogeneous with patches of bare surface exposed. The amount of water constituting a stable adsorption layer prior to condensation is estimated to consist of about 2-5 molecular layers. Detailed analysis of the simulation results is used to obtain important insights into the structure and energetics of water adsorbed on highly oxidized organic surfaces exposed to ambient air of increasing relative humidity.

The kinetic isotope effect of the reactions OH + CH3OCH3 (DME) and OH + CD3OCD3 (DME-d6) was experimentally and theoretically studied. Experiments were carried out in a slow-flow reactor at pressures between 5 and 21 bar (helium as bath gas) with production of OH by laser flash photolysis of HNO3 and time-resolved detection of OH by laser-induced fluorescence. The temperature dependences of the rate coefficients obtained can be described by the following modified Arrhenius expressions: k(OH+DME) = (4.5 ± 1.3) × 10(-16) (T/K)(1.48) exp(66.6 K/T) cm(3) s(-1) (T = 292-650 K, P = 5.9-20.9 bar) and k(OH+DME-d6) = (7.3 ± 2.2) × 10(-23) (T/K)(3.57) exp(759.8 K/T) cm(3) s(-1) (T = 387-554 K, P = 13.0-20.4 bar). A pressure dependence of the rate coefficients was not observed. The agreement of our experimental results for k(OH+DME) with values from other authors is very good, and from a fit to all available literature data, we derived the following modified Arrhenius expression, which reproduces the values obtained in the temperature range T = 230-1500 K at pressures between 30 mbar and 21 bar to better than within ±20%: k(OH+DME) = 8.45 × 10(-18) (T/K)(2.07) exp(262.2 K/T) cm(3) s(-1). For k(OH+DME-d6), to the best of our knowledge, this is the first experimental study. For the analysis of the reaction pathway and the kinetic isotope effect, potential energy diagrams were calculated by using three different quantum chemical methods: (I) CCSD(T)/cc-pV(T,Q)Z//MP2/6-311G(d,p), (II) CCSD(T)/cc-pV(T,Q)Z//CCSD/cc-pVDZ, and (III) CBS-QB3. In all three cases, the reaction is predicted to proceed via a prereaction OH-ether complex with subsequent intramolecular hydrogen abstraction and dissociation to give the methoxymethyl radical and water. Overall rate coefficients were calculated by assuming a thermal equilibrium between the reactants and the prereaction complex and by calculating the rate coefficients of the hydrogen abstraction step from canonical transition state theory. The results based on the molecular data from methods (I) and (II) showed a satisfactory agreement with the experimental values, which indicates that the pre-equilibrium assumption is reasonable under our conditions. In the case of method (III), the isotope effect was significantly underpredicted. The reason for this discrepancy was identified in a fundamentally differing reaction coordinate. Obviously, the B3LYP functional applied in method (III) for geometry and frequency calculations is inadequate to describe such systems, which is in line with earlier findings of other authors.

The adsorption of HCN molecules at the surface of hexagonal (I h )