Dynamics and spectroscopy of CH2OO excited electronic states.

The excited states of the Criegee intermediate CH2OO are studied in molecular dynamics simulations using directly potentials from multi-reference perturbation theory (MR-PT2). The photoexcitation of the species is simulated, and trajectories are propagated in time on the excited state. Some of the photoexcitation events lead to direct fragmentation of the molecule, but other trajectories describe at least several vibrations in the excited state, that may terminate by relaxation to the ground electronic state. Limits on the role of non-adiabatic contributions to the process are estimated by two different simulations, one that forces surface-hopping at potential crossings, and another that ignores surface hopping altogether. The effect of non-adiabatic transitions is found to be small. Spectroscopic implications and consequences for the interpretation of experimental results are discussed.

Infrared Spectrum of Toluene: Comparison of Anharmonic Isolated-Molecule Calculations and Experiments in Liquid Phase and in a Ne Matrix.

First-principles anharmonic calculations are carried out for the CH stretching vibrations of isolated toluene and compared with the experimental infrared spectra of isotopologues of toluene in a Ne matrix at 3 K and of liquid toluene at room temperature. The calculations use the vibrational self-consistent field method and the B3LYP potential surface. In general, good agreement is found between the calculations and experiments. However, the spectrum of toluene in a Ne matrix is more complicated than that predicted theoretically. This distinction is discussed in terms of matrix-site and resonance effects. Interestingly, the strongest peak in the CH stretching spectrum has similar widths in the liquid phase and in a Ne matrix, despite the very different temperatures. Implications of this observation to the broadening mechanism are discussed. Finally, our results show that the B3LYP potential offers a good description of the anharmonic CH stretching band in toluene, but a proper description of matrix-site and resonance effects remains a challenge.

Interaction of aromatic compounds with xenon: spectroscopic and computational characterization for the cases of p-cresol and toluene.

We have investigated noncovalent interactions of two aromatic compounds (toluene and p-cresol) with Xe atoms by using infrared spectroscopy in a Ne matrix and quantum chemical calculations. The present results show that the methyl group of these molecules is a sensitive probe of the interaction with Xe. We have used the molecules with the deuterated methyl group, possessing a relatively simple spectrum, which allows us to detect characteristic vibrational shifts in the complexes, in which a Xe atom interacts with the aromatic π electron system (π structure). For the p-cresol···Xe complex, we also observed evidence of the 1:1 H-bonded structure. The amount of the H-bonded structure of the cresol···Xe complex is relatively small, which agrees with the calculated interaction energies (stronger interaction for the π structure). The bands of the 1:1 complexes of p-cresol and toluene with Xe appear at low Xe concentration and their intensities relative to the monomer bands are nearly proportional to the Xe/Ne concentration ratio. For the p-cresol-Xe system, additional OH stretching bands appear at higher Xe concentrations, which are suitable for the complexes with several Xe atoms. The π structures studied in this work can probably be formed in the case of aromatic amino acids, for which these simple aromatic compounds are useful models.

Toward molecular mechanism of xenon anesthesia: a link to studies of xenon complexes with small aromatic molecules.

The present study illustrates the steps toward understanding molecular mechanism of xenon anesthesia by focusing on a link to the structures and spectra of intermolecular complexes of xenon with small aromatic molecules. A primary cause of xenon anesthesia is attributed to inhibition of N-methyl-D-aspartate (NMDA) receptors by an unknown mechanism. Following the results of quantum mechanics/molecular mechanics (QM/MM) and molecular dynamics (MD) calculations we report plausible xenon action sites in the ligand binding domain of the NMDA receptor, which are due to interaction of xenon atoms with aromatic amino-acid residues. We rely in these calculations on computational protocols adjusted in combined experimental and theoretical studies of intermolecular complexes of xenon with phenol. Successful reproduction of vibrational shifts in molecular species upon complexation with xenon measured in low-temperature matrices allowed us to select a proper functional form in density functional theory (DFT) approach for use in QM subsystems, as well as to calibrate force field parameters for MD simulations. The results of molecular modeling show that xenon atoms can compete with agonists for a place in the corresponding protein cavity, thus indicating their active role in anesthetic action.

Stability of Criegee intermediates formed by ozonolysis of different double bonds.

The formation of Criegee intermediates by ozonolysis of different species containing C═N and C═P bonds is studied computationally. Electronic structure calculations are carried out for the energetics of ozonolysis, and the lifetime of the Criegee intermediate formed is computed by transition state theory. All calculations are carried out for formation of CH2OO, the simplest Criegee intermediate. Extremely large differences are found for the lifetime of CH2OO depending on the specific C═N, C═P, and C═C precursor, due to the great variations in the exoergicity of the ozonolysis. The largest lifetimes of CH2OO are found to be up to a millisecond range for a Schiff base precursor, being orders of magnitude greater than for C═C and C═P precursors at the same conditions. The results provide insights into the role of the precursor in determining the stability of the Criegee species formed and suggest an approach for preparing Criegee intermediates of relatively long lifetimes.

Matrix-isolation and ab initio study of HKrCCCl and HXeCCCl.

We report on two new noble-gas molecules, HKrCCCl and HXeCCCl, prepared in low-temperature Kr and Xe matrices. These molecules are made by UV photolysis of HCCCl in the matrices and subsequent thermal annealing. The HCCCl precursor is produced by microwave discharge of a mixture of a matrix gas with trichloroethylene (HClC=CCl2). The assignments of the new noble-gas molecules are supported by deuteration experiments and quantum chemical calculations at the MP2(full) and CCSD(T) levels of theory with the def2-TZVPPD basis set. No evidence of ClXeCCH, which is computationally reliably stable, is found in the experiments. ClKrCCH as well as the Ar compounds HArCCCl and ClArCCH are not observed either, which is in agreement with the calculations.

Fluorinated noble-gas cyanides FKrCN, FXeCN, and FXeNC.

We report on three new noble-gas molecules, FKrCN, FXeCN, and FXeNC, prepared in low-temperature Kr and Xe matrices. These molecules are made by UV photolysis of FCN in the matrices and subsequent thermal annealing. The FCN precursor is produced by deposition of the matrix gas containing (FCN)3 through a microwave discharge. The new noble-gas molecules are assigned with the help of quantum chemical calculations at the MP2(full) and CCSD(T) levels of theory. Similar Ar compounds (FArCN and FArNC) as well as FKrNC are not found in these experiments, which is in agreement with the calculated energetics.

Experimental and theoretical study of the HXeI⋯HCl and HXeI⋯HCCH complexes.

The HXeI⋯HCl and HXeI⋯HCCH complexes are studied computationally and experimentally in a Xe matrix. In the experiments, three bands of the HXeI⋯HCl complex and one band of the HXeI⋯HCCH complex in the H-Xe stretching region are observed. The monomer-to-complex shifts are +94, +111, and +155 cm(-1) for the HXeI⋯HCl complex and +49 cm(-1) for the HXeI⋯HCCH complex. The bands of the complexed HCl molecules are also observed with large red shifts from the HCl monomer (-187, -252, and -337 cm(-1)). The ab initio calculations at the CCSD(T)/def2-TZVPPD level of theory predict two stable structures for the HXeI⋯HCl complex with interaction energies of -3.72 and -0.28 kcal mol(-1) and one structure for the HXeI⋯HCCH complex with an interaction energy of -2.67 kcal mol(-1) and the calculated monomer-to-complex shifts are in a good agreement with experiment (in the case of HXeI⋯HCl, for the stronger structure). The HXeI molecules are decomposed by broad-band infrared light; however, the decomposition is much more efficient for the HXeI monomer than for the complexes studied here as well as for the previously studied HXeI⋯HI and HXeI⋯HBr complexes. In fact, the decomposition efficiency decreases as the monomer-to-complex shift of the H-Xe stretching mode increases.

Acetic acid dimers in a nitrogen matrix: Observation of structures containing the higher-energy conformer.

Acetic acid (AA) dimers are studied experimentally by infrared spectroscopy in a N2 matrix and theoretically at the MP2/6-311++G(2d,2p) level of approximation. This work is focused on the first preparation and characterization of structures containing the higher-energy (cis) conformer of AA. Nine trans-trans, fourteen trans-cis, and six cis-cis dimers are theoretically predicted. Five trans-trans and a number of trans-cis dimers are identified in the experiments, but no indication of cis-cis dimers is found. Two trans-trans dimers and the trans-cis dimers are reported for the first time. One trans-cis dimer is prepared by selective vibrational excitation of the structurally related trans-trans dimer, which converts one of the trans subunits to the cis form. Several trans-cis dimers are obtained by annealing of a matrix containing both trans and cis monomers of AA. Tunneling-induced conversion of the trans-cis dimers into trans-trans forms (including two new trans-trans forms) is observed at low temperatures.

Chemically-bound xenon in fibrous silica.

High-level quantum chemical calculations reported here predict the existence and remarkable stability, of chemically-bound xenon atoms in fibrous silica. The results may support the suggestion of Sanloup and coworkers that chemically-bound xenon and silica account for the problem of "missing xenon" (by a factor of 20!) from the atmospheres of Earth and Mars. So far, the host silica was assumed to be quartz, which is in contradiction with theory. The xenon-fibrous silica molecule is computed to be stable well beyond room temperature. The calculated Raman spectra of the species agree well with the main features of the experiments by Sanloup et al. The results predict computationally the existence of a new family of noble-gas containing materials. The fibrous silica species are finite molecules, their laboratory preparation should be feasible, and potential applications are possible.

Reaction of atomic hydrogen with formic acid.

We study the reaction of atomic hydrogen with formic acid and characterize the radical products using IR spectroscopy in a Kr matrix and quantum chemical calculations. The reaction first leads to the formation of an intermediate radical trans-H2COOH, which converts to the more stable radical trans-cis-HC(OH)2via hydrogen atom tunneling on a timescale of hours at 4.3 K. These open-shell species are observed for the first time as well as a reaction between atomic hydrogen and formic acid. The structural assignment is aided by extensive deuteration experiments and ab initio calculations at the UMP2 and UCCSD(T) levels of theory. The simplest geminal diol radical trans-cis-HC(OH)2 identified in the present work as the final product of the reaction should be very reactive, and further reaction channels are of particular interest. These reactions and species may constitute new channels for the initiation and propagation of more complex organic species in the interstellar clouds.

Matrix effect on vibrational frequencies: experiments and simulations for HCl and HNgCl (Ng = Kr and Xe).

We study the environmental effect on molecules embedded in noble-gas (Ng) matrices. The experimental data on HXeCl and HKrCl in Ng matrices is enriched. As a result, the H-Xe stretching bands of HXeCl are now known in four Ng matrices (Ne, Ar, Kr, and Xe), and HKrCl is now known in Ar and Kr matrices. The order of the H-Xe stretching frequencies of HXeCl in different matrices is ν(Ne) < ν(Xe) < ν(Kr) < ν(Ar), which is a non-monotonous function of the dielectric constant, in contrast to the "classical" order observed for HCl: ν(Xe) < ν(Kr) < ν(Ar) < ν(Ne). The order of the H-Kr stretching frequencies of HKrCl is consistently ν(Kr) < ν(Ar). These matrix effects are analyzed theoretically by using a number of quantum chemical methods. The calculations on these molecules (HCl, HXeCl, and HKrCl) embedded in single Ng(') layer cages lead to very satisfactory results with respect to the relative matrix shifts in the case of the MP4(SDQ) method whereas the B3LYP-D and MP2 methods fail to fully reproduce these experimental results. The obtained order of frequencies is discussed in terms of the size available for the Ng hydrides in the cages, probably leading to different stresses on the embedded molecule. Taking into account vibrational anharmonicity produces a good agreement of the MP4(SDQ) frequencies of HCl and HXeCl with the experimental values in different matrices. This work also highlights a number of open questions in the field.

Matrix-isolation and computational study of the HXeY⋯H2O complexes (Y = Cl, Br, and I).

The HXeY⋯H2O complexes (Y = Cl, Br, and I) are studied theoretically and experimentally. The calculations at the CCSD(T)/def2-TZVPPD level of theory predict two stable structures for Y = Cl and Br and one structure for Y = I, with interaction energies up to about -7 kcal mol(-1). In the experiments, we have identified several infrared absorption bands originating from the H-Xe stretching mode of these complexes in a xenon matrix. The monomer-to-complex frequency shifts of this mode are up to +82 cm(-1) (Y = Cl), +101 cm(-1) (Y = Br), and +138 cm(-1) (Y = I), i.e., the shift is smaller for more strongly bound molecules. Based on the agreement of the experimental and theoretical results, the observed bands are assigned to the most stable planar structure with an O-H⋯Y-Xe hydrogen bond.

Isomerization and decomposition of a Criegee intermediate in the ozonolysis of alkenes: dynamics using a multireference potential.

The isomerization and decomposition dynamics of the simplest Criegee intermediate CH2 OO have been studied by classical trajectory simulations using the multireference ab initio MR-PT2 potential on the fly. A new, accelerated algorithm for dynamics with MR-PT2 was used. For an initial temperature of 300 K, starting from the transition state from CH2 OO→CH2 O2 , the system reaches the dioxirane structure in around 50 fs, then isomerizes to formic acid (in ca. 2800 fs), and decomposes into CO+H2 O at around 2900 fs. The contributions of different configurations to the multiconfigurational total electronic wave function vary dramatically along the trajectory, with diradical contributions being important for transition states corresponding to H-atom transfers, while being only moderately significant for CH2 OO. The implications for reactions of Criegee intermediates are discussed.

Programming nanostructured soft biological surfaces by atomic layer deposition.

Here, we present the first successful attempt to programme the surface properties of nanostructured soft biological tissues by atomic layer deposition (ALD). The nanopatterned surface of lotus leaf was tuned by 3-125 nm TiO2 thin films. The lotus/TiO2 composites were studied by SEM-EDX, XPS, Raman, TG-DTA, XRR, water contact angle and photocatalysis measurements. While we could preserve the superhydrophobic feature of lotus, we managed to add a new property, i.e. photocatalytic activity. We also explored how surface passivation treatments and various ALD precursors affect the stability of the sensitive soft biological tissues. As we were able to gradually change the number of nanopatterns of lotus, we gained new insight into how the hollow organic nanotubes on the surface of lotus influence its superhydrophobic feature.

Destabilization of noble-gas hydrides by a water environment: calculations for HXeOH@(H2O)n, HXeOXeH@(H2O)n, HXeBr@(H2O)n, HXeCCH@(H2O)n.

HNgY molecules are chemically-bound compounds of a noble-gas atom (Ng) with a hydrogen and with an electronegative group Y. There is considerable current interest in the stability of these species in different types of media. The kinetic stability of several compounds, HXeOH, HXeOXeH, HXeBr and HXeCCH, in water clusters is explored by ab initio calculations. It is found that the kinetic stability of the compounds is reduced by the water environment, generally falling off with the number of H2O molecules. For a relatively modest number of water molecules, the compounds decompose spontaneously. Implications of the results for storage of HNgY in molecular media are discussed.

Spectroscopic and computational characterization of the HCO···H2O complex.

The complexes of HCO with water are prepared in a Kr matrix and characterized by IR spectroscopy with the aid of ab initio calculations. The calculations at the UCCSD(T)/aug-cc-pVTZ level of theory predict three structures of the HCO···H2O complex. In the "linear" structure I, a hydrogen atom of water interacts with the oxygen atom of HCO. In structure II, the hydrogen atom of HCO interacts with the oxygen atom of water. The "cyclic" structure III has the C-H···O and O-H···O hydrogen bonds simultaneously. In the experiment, the HCO···H2O complex is produced by photolysis of HCOOH/HY/Kr (Y = Br and Cl) matrices followed by thermal annealing at about 30 K, which promotes the H + CO···H2O → HCO···H2O reaction. The analysis of the spectroscopic data shows that the main product has structure III whereas the formation of structure II is less efficient. The experiments show no evidence of the weakest structure I. The experiments with deuterated formic acid (DCOOH) provide additional support of the proposed assignment.

Environmental effects on noble-gas hydrides: HXeBr, HXeCCH, and HXeH in noble-gas and molecular matrices.

Noble-gas hydrides HNgY (Ng is a noble-gas atom and Y is an electronegative group) are sensitive probes of local environment due to their relatively weak bonding and large dipole moments. We experimentally studied HXeBr in Ar, Kr, and N2 matrices, HXeCCH in Ne and N2 matrices, and HXeH in an N2 matrix. These are the first observations of noble-gas hydrides in an N2 matrix. An N2 matrix strongly increases the H-Xe stretching frequency of HXeBr and HXeCCH with respect to a Ne matrix, which is presumably due to a strong interaction between the HNgY dipole moment and quadrupole moments of the surrounding lattice N2 molecules. The spectral shift of HXeBr in an N2 matrix is similar to that in a CO2 matrix, which is a rather unexpected result because the quadrupole moment of CO2 is about three times as large as that of N2. The H-Xe stretching frequencies of HXeBr and HXeCCH in noble-gas matrices show a trend of ν(Ne) < ν(Xe) < ν(Kr) < ν(Ar), which is a non-monotonous function of the dielectric constants of the noble-gas solids. The MP2(full) calculations of HXeBr and HXeCCH with the polarizable continuum model as well as the CCSD(T) calculations of the HXeBr···Ng and HXeCCH···Ng (Ng = Ne, Ar, Kr, and Xe) complexes cannot fully explain the experimental observations. It is concluded that more sophisticated computational models should be used to describe these experimental findings.

Experimental and computational study of the HXeI···HY complexes (Y = Br and I).

The complexes of HXeI with hydrogen halides HY (Y = Br and I) are studied computationally and experimentally in a xenon matrix. The calculations at the CCSD(T)∕def2-TZVPPD level of theory predict several energy minima for the HXeI···HY complexes with interaction energies from -4.69 to -0.23 kcal mol(-1). We have identified three bands of the HXeI···HI complexes in the H-Xe stretching region with the monomer-to-complex blue shifts from +37 to +96 cm(-1), and three bands of the HXeI···HBr complexes with blue shifts from +88 to +157 cm(-1). The structural assignments are done on the basis of the strong H-Xe and HY stretching bands and the decomposition rates upon broadband IR irradiation. The experimental bands with larger shifts are assigned to the most stable structures of the HXeI···HY complexes with the Y-H···I hydrogen bond.

Halogenated xenon cyanides ClXeCN, ClXeNC, and BrXeCN.

We report on the preparation and characterization of three new noble-gas molecules ClXeCN, ClXeNC, and BrXeCN. These molecules are synthesized by 193 nm photolysis and thermal annealing of ClCN and BrCN in a xenon matrix. The absorption spectra are measured in the mid- and far-infrared regions, and the assignment is supported by isotope substitution and quantum chemical calculations at the B3LYP and MP2 levels of theory. The present results demonstrate a way to prepare other noble-gas molecules of this type.