The quantum-chemical estimation of the effect of phosphorus atoms on the electron acceptor properties of aluminum- and boron-containing zeolite clusters

The effect of a phosphorus atom introduced in a zeolite cluster involving ten silicon and aluminum atoms on the state of active catalytic structure sites is estimated. Zeolite clusters modified with boron are also considered. The effect of the electron density redistribution upon zeolite modification with boron and phosphorus, as well as the effect upon the coordination of probe water and ammonia molecules to the clusters, is analyzed. The bond energies of water or ammonia molecules coordinated to acceptor sites of phosphorus-containing zeolites are estimated. Experimentally discovered changes in the acidic properties of zeolites resulting from their modification with boron and phosphorus are interpreted.     

Quantum-mechanical study of the reaction of metal and halide ions with water molecules

Journal of Structural Chemistry -     

Spectral characteristics of water clusters upon interaction with oxygen molecules and chlorine ions

The interactions of a 6O₂ + (H₂O)₅₀ system with two, four, or six Cl⁻ ions are studied by the molecular dynamics method. The integral intensity of IR and Raman spectra decreases with an increase in the number of Cl⁻ ions surrounding the system. The values of real and imaginary parts of dielectric permittivity increase with the rise in the frequency reaching maxima in the 850 ≤ ω ≤ 950 cm⁻¹. As a result of interactions between ions and the formed (O₂)₆ (H₂O)₅₀ cluster, the pattern of the reflection spectrum of IR radiation becomes smoother. The interaction between 6O₂ + (H₂O)₅₀ system and Cl⁻ ions leads to the substantial increase in the power of emitted radiation. With time, Cl⁻ ions gradually leave the interaction zone with the system. Maximum residence time of the last ion near the system boundary does not exceed 3 ps. Cl⁻ ions located closer to O₂ molecules do not penetrate into the depth of an (O₂)₆ (H₂O)₅₀ cluster.     

IR spectra of water clusters with captured ethane molecules: Computer simulation

Uptake of ethane molecules by a monodisperse aqueous system was simulated by molecular dynamics. The cluster (H₂O)₂₀ characterizing the system remains stable until the number of the captured C₂H₆ molecules becomes larger than four. Addition of ethane molecules to the disperse aqueous system decreases both the real and imaginary parts of the dielectric permittivity in the frequency range 0 ≤ ω ≤ 1000 cm^?1. The integral IR absorption coefficient of the disperse system containing C₂H₆ molecules increases, and the frequency-average reflection coefficient decreases. The continuous reflection spectra transform into band spectra. The heat-radiating power of the clusters decreases upon absorption of ethane molecules. The cluster that took up two ethane molecules exhibits the highest radiating power. This cluster has the largest number of active electrons interacting with the arriving wave.     

Computer simulation of the structure of water clusters containing absorbed ethane molecules

The structure of water clusters that have absorbed ethane molecules is studied by the molecular dynamics method. Structural analysis is performed by the construction of Voronoi polyheda for oxygen atoms and hybrid polyheda whose centers coincide with the centers of oxygen atoms and the faces are formed according to the positions of hydrogen atoms. The (H₂O)₂₀ cluster can retain no more than four ethane molecules remaining at the same time stable. When a water cluster adds more than four ethane molecules, the volumes of Voronoi polyheda acquire values close to the volume per molecule in the bulk liquid water. As the number of ethane molecules in a water cluster increases, the number of hydrogen atoms adjacent to oxygen, as well as the average number of units in cyclic formations composed of hydrogen atoms, also increases. In this case, the number of H-O-H angles formed by the nearest geometric neighbors close to 89° becomes dominant. The coefficient of nonsphericity reflecting the local arrangement of hydrogen atoms around the oxygen atoms decreases as the C₂H₆ molecules are added to water cluster and approaches to the value of this coefficient for the rhombic dodecahedron in the case of adsorption of six ethane molecules.     

Calculation of spectral characteristics of water clusters upon interaction with oxygen molecules and bromine ions

Interactions of (Br⁻) _i (H₂O)_50−i clusters (0 ≤ i ≤ 6) with molecular oxygen is studied by the molecular dynamics method using flexible molecule model. Values of real and imaginary parts of permittivity decrease in the 0 ≤ ω ≤ 3500 cm⁻¹ frequency range with increasing number of bromine ions in a cluster. The ability of cluster to absorb IR radiation decreases, whereas the reflectance and Raman light scattering remains nearly unchanged. An increase in the content of Br⁻ ions in the cluster lowers the power of emitted IR radiation and decreases the amount of active electrons participating in the interaction with IR radiation. However, when the concentration of Brions becomes substantially higher (at i = 5 and 6), the values of emitted power and the number of active electrons are restored to the values that are typical for water cluster in the absence of Br⁻ ions. At i ≥ 3, repelling Br⁻ ions acquire kinetic energy, which is sufficient to remove molecular oxygen from the system.     

Revisiting small clusters of water molecules

The geometries and relative energies of small clusters of water molecules, (H₂O)_n with 4 ⩽ n ⩽ 8, are reported. For each value of n we have considered the conformations corresponding to the lowest-energy minimum and those in nearby relative minima. Thus we report on six tetramers, four pentamers, six hexanlers, four heptamers, and eigth octamers. The geometrical conformations have been obtained using the Metropolis Monte Carlo method as a minimization technique, where the interaction energy is computed with the MCY potential plus three- and four-body corrections previously discussed. All the reported structures for a given cluster size are found to be close in energy. For the lowest conformation the geometry was optimized with ab initio SCF computations using energy gradients. Our results are compared with previous theoretical studies. We discuss the convergence of the interaction potential for liquid water when expressed in terms of a many-body series expansion.     

Infrared intensity in small ammonia and water clusters

Helium droplet technique has been used in order to measure the strength of the infrared absorption in small ammonia and water clusters as a function of size. Hydrogen bonding in ammonia and water dimers causes an enhancement of the intensity of the hydrogen stretching bands by a factor of four and three, respectively. Two types of the hydrogen bonded clusters show different size dependence of the infrared intensity per hydrogen bond. In ammonia (NH3)2 and (NH3)3 it is close to the crystal value. In water clusters, it increases monotonically with cluster size being in tetramers, a factor of two smaller than in the ice. The measured infrared intensity in water clusters is found to be a factor of two to three smaller as compared to the results of numerical calculations.     

Quantum-mechanical study of the interaction of glyoxal with arginine

Ab initio SCF computations indicate that the formation of an adduct of glyoxal to the guanidinium ion occurs in two steps. The first addition should occur on an NH₂ group, rather than on NHCH₃, and the formation of an unsymmetrical adduct IV is competitive and may be even favored over that of the symmetrical adduct III suggested by Takahashi. The barrier for that reaction is higher than for a similar reaction with guanine. The formation of a Schiff base between glyoxal and the guanidinium ion is disfavored because of the large endothermicity calculated for the process, much larger than that predicted for Schiff base formation with simple neutral or protonated amines.     

On the hydrogen bonding between water and ammonia molecules

The hydrogen bond N·HO between the water and ammonia molecules has been investigated ab initio using the SCF LCAO MO method. The minimal and extended basis sets of Slater type orbitals were used. It was found that the energy of the hydrogen bond is equal to 6.44 kcal/mole and the equilibrium separation of the oxygen and nitrogen atoms in the dimer is 5.72 au. At this intermolecular distance there is only one minimum in the potential energy curve for the motion of proton.     

Modelling interaction between ammonia and nitric oxide molecules and aquaporins

Aquaporin is a family of small membrane-proteins that are capable of transporting nano-sized materials. In the present paper, we investigate the structure of these channels and provide information about the mechanism of individual molecules being encapsulated into aquaglyceroporin (GlpF) and aquaporin-1 (AQP1) channels by calculating the potential energy. In particular, we presents a mathematical model to determine the total potential energy for the interaction of the ammonia and nitric oxide molecules and different aquaporin channels which we assume to have a symmetrical cylindrical structure. We propose to describe these interactions in two steps. Firstly, we model the nitrogen atom as a discrete point and secondly, we model the three hydrogen atoms on the surface of a sphere of a certain radius. Then, we find the total potential energy by summing these interactions. Next, by considering the nitric oxide molecule as two discrete atoms uniformly distributed interacting with GlpF and AQP1 channels then gathering all pairs of interaction to determine the potential energy. Our results show that the ammonia and nitric oxide molecules can be encapsulated into both GlpF and AQP1 channels.     

The solvation of Cu2+ with gas-phase clusters of water and ammonia

A detailed study has been undertaken of the gas-phase chemistry of [Cu(H2O)N]2+ and [Cu(NH3)N]2+ complexes. Ion intensity distributions and fragmentation pathways (unimolecular and collision-induced) have been recorded for both complexes out as far as N=20. Unimolecular fragmentation is dominated by Coulomb explosion (separation into two single charged units) on the part of the smaller ions, but switches to neutral molecule loss for N>7. In contrast, collisional activation promotes extensive electron capture from the collision gas, with the appearance of particular singly charged fragment ions being sensitive to the size and composition of the precursor. The results show clear evidence of the unit [Cu(X)8]2+ being of special significance, and it is proposed that the hydrogen-bonded structure associated with this ion is responsible for stabilizing the dipositive charge on Cu2+ in aqueous solution.     

EPR study of the mechanism of interaction of NO and NO2 molecules with zeolite surfaces

The adsorption of the paramagnetic molecules of NO and NO₂ by zeolites in the alkali and alkaline earth cationic forms has been studied by EPR and reflectance spectroscopic methods. The change in the EPR spectra of adsorbed nitric oxide with increase in the degree of covering of the surface of the alkali cationic form of the zeolites, and also the nature of the change in the spectra when oxygen is adsorbed on zeolites on which NO has previously been adsorbed, indicate the existence of two types of adsorption center. At low degrees of covering of the surface, on the order of 10¹⁸ g^–1, as can be judged from the EPR spectra, the adsorbed NO molecule is strongly polarized and the unpaired electron is almost completely localized on the oxygen atom. At high degrees of covering, for an appreciable proportion of the NO molecules, the bond with the surface is weaker. In this case, the EPR spectra show a hyperfine structure (HFS) with a constant which changes with change in the cation in the order Li⁺ Na⁺ K⁺. The replacement of the singly charged Na⁺ by the doubly charged Ca²⁺ produces a marked change in the adsorption properties of the zeolite. The adsorption of NO on CaA leads not only to polarization of the adsorbed molecule but also to transfer of the electron from the nitrogen atom to the atoms of the adsorbent; this is recorded in the EPR spectrum in the form of an F-center. On further adsorption, the NO molecules are adsorbed both on the nitrogen atom and on the oxygen atom of the first molecule; thus, NO₂ and N₂O are formed.     

Adsorption of ammonia by water clusters. Computer experiment

The method of molecular dynamics is used to study the adsorption of from one to six ammonia molecules by water clusters composed of 50 molecules. The adsorption of NH₃ molecules markedly increases the IR absorption spectrum intensity, substantially decreases emission power in the frequency range of 0 ≤ ω ≤ 3500 cm^?1, and transforms a continuous reflectance spectrum into a banded one. A rough surface formed by adsorbed ammonia molecules reduces the absorption coefficient and refractive index of the system of water-ammonia clusters in the entire frequency range. Adsorption of ammonia molecules by water clusters greatly diminishes the number of electrons that are active with respect to electromagnetic radiation.     

Calculation of the rotational magnetic moments of the ammonia and water molecules

We calculate the rotational magnetic moments and the corresponding g-factors for water and ammonia. Our results are g_xx = 0.397, g_yy = 0.769 and _zz = 0.345 for water and g_xx = g_yy = 0.69 and g_zz = 0.51 for ammonia. The experimental values are g_xx = 0.585, g_yy = 0.742 and g_zz = 0.666 for water and g_xx = g_yy = 0.56 and g_zz = 0.484 for ammonia.     

Amino-acid and water molecules adsorbed on water clusters in a beam

Water clusters (H2On and (D2On (n相似文献   

On the structure of water—alcohol and ammonia—alcohol protonated clusters

Collision-induced dissociation (CID) of protonated ammonia-alcohol and water-alcohol heteroclusters was studied using a triple quadrupole mass spectrometer with a corona discharge atmospheric pressure ionization source. CID results suggested that the ammonia-alcohol clusters had NH: at the core of the cluster and that hydrogen-bonded alcohol molecules solvated this central ion. In contrast, CID results in water-alcohol clusters showed that water loss was strongly favored over alcohol loss and that there was a preference for the charge to reside on an alcohol molecule. The results also indicated that a loose chain of hydrogen-bonded molecules was formed in the water-alcohol clusters and that there appeared to be no rigid protonation site or a fixed central ion. (J Am Soc Mass     

A molecular beam electric deflection study of clusters: acid and salt molecules in microscopic aqueous and ammonia clusters

Results of a molecular beam electric deflection study of the polarity of gas phase clusters comprised of HNO₃H₂O, HNO₃H₂ONH₃, and NH₄HSNH₃ are reported. No refocusing was observed for any species containing more than two molecular subunits. These results are contrasted with previous studies made in our laboratory which showed focusing for higher polymers of acetic acid; possible reasons are given for observed defocusing in the present systems where ion-pair formation is expected to occur.     

Computational study of the interaction of indole-like molecules with water and hydrogen sulfide

The characteristics of the interaction between water and hydrogen sulfide with indole and a series of analogs obtained by substituting the NH group of indole by different heteroatoms have been studied by means of ab initio calculations. In all cases, minima were found corresponding to structures where water and hydrogen sulfide interact by means of X-H···π contacts. The interaction energies for all these π complexes are quite similar, spanning from -13.5 to -18.8 kJ/mol, and exhibiting the stability sequence NH > CH(2) ≈ PH > Se ≈ S > O, for both water and hydrogen sulfide. Though interaction energies are similar, hydrogen sulfide complexes are slightly favored over their water counterparts when interacting with the π cloud. σ-Type complexes were also considered for the systems studied, but only in the case of water complexes this kind of complexes is relevant. Only for complexes formed by water and indole, a significantly more stable σ-type complex was found with an interaction energy amounting to -23.6 kJ/mol. Oxygen and phosphorous derivatives also form σ-type complexes of similar stability as that observed for π ones. Despite the similar interaction energies exhibited by complexes with water and hydrogen sulfide, the nature of the interaction is very different. For π complexes with water the main contributions to the interaction energy are electrostatic and dispersive contributing with similar amounts, though slightly more from electrostatics. On the contrary, in hydrogen sulfide complexes dispersion is by far the main stabilizing contribution. For the σ-type complexes, the interaction is clearly dominated by the electrostatic contribution, especially in the indole-water complex.