Density functional theory study of pyrrole adsorption on Mo(110)

The objective of the present study is to identify possible adsorption configurations of pyrrole on Mo(110) using density functional theory (DFT) calculations. Several adsorption configurations were studied including pyrrole and pyrrolyl adsorption as parallel, perpendicular, and tilted adsorption modes relative to the Mo(110) surface plane. Based on the DFT calculations, pyrrole is suggested to adsorb in a parallel mode with respect to the Mo(110) surface through its pi-orbital as mu3,eta(5)-Pyr-0 degrees with an adsorption energy of -28.7 to -31.5 kcal mol(-1). The possibility of a coexisting mode where pyrrole adsorbs on the surface with a slightly tilted molecular plane as mu3,eta(4)(N,C2,C3,C4)-Pyr-5 degrees is also likely to occur, particularly at higher pyrrole coverages. The slightly tilted configuration is suggested to arise from the lateral interactions of adsorbed pyrrole on Mo(110), and not the result of a phase transformation on the surface since this requires a relatively high activation energy as indicated by additional linear synchronous transit (LST)/quadratic synchronous transit (QST) calculations. Both adsorption geometries bond to three surface Mo atoms, and Mo(110) did not promote hydrogen abstraction. Pyrrolyl adsorption on Mo(110) is energetically possible, but unlikely to occur because gas-phase hydrogen has not been previously experimentally observed as a pyrrole decomposition product on Mo(110).     

Density functional theory study of the oxidation of ammonia on the IrO2(110) surface

In this study, we employed density functional theory (DFT) to investigate the oxidation of ammonia (NH(3)) on the IrO(2)(110) surface. We characterized the possible reaction pathways for the dehydrogenation of NH(x) species (x = 1-3) and for the formation of the oxidation products N(2), N(2)O, NO, NO(2), and H(2)O. The presence of oxygen atoms on coordinatively unsaturated sites (O(cus)) of the oxygen-rich IrO(2)(110) surface promotes the oxidation of NH(3) on the surface. In contrast, NH(3) molecules prefer undergoing desorption over oxidation on the stoichiometric IrO(2)(110) surface. Moreover, the O(cus) atoms are also the major oxidants leading to the formation of oxidation products; none of the oxidations mediated by the bridge oxygen atoms were favorable reactions. The energy barrier for formation of H(2)O as a gaseous oxidation product on the IrO(2)(110) surface is high (from 1.83 to 2.29 eV), potentially leading to the formation of nitrogen-atom-containing products at high temperature. In addition, the selectivity toward the nitrogen-atom-containing products is dominated by the coverage of O(cus) atoms on the surface; for example, a higher coverage of O(cus) atoms results in greater production of nitrogen oxides (NO, NO(2)).     

Adsorption and scattering of H2 and D2 by NiAl(110)

We present quasiclassical dynamics calculations of H2 and D2 scattering by the NiAl(110) surface using a recently proposed six-dimensional potential-energy surface (PES) obtained from density-functional theory calculations. The results for dissociative adsorption confirm several experimental predictions using (rotationally hot) D2 beams, namely, the existence of a dissociation barrier, the small isotopic effect, the importance of vibrational enhancement, and the existence of normal energy scaling. The latter conclusion shows that normal energy scaling is not necessarily associated with weak corrugated surfaces. The results for rotationally elastic and inelastic diffractions are also in reasonable agreement with experiment, but they show that many more diffractive transitions are responsible for the observed structures than previously assumed. This points to the validity of the PES recently proposed [P. Riviere, H. F. Busnengo, and F. Martin, J. Chem. Phys. 121, 751 (2004)] to describe dissociative adsorption as well as rotationally elastic and inelastic diffractions in the H2NiAl(110) system.     

Density functional theory study of CO catalytic oxidation on Co_2B_2/TiO_2（110） surface

Titanium dioxide with CoB amorphous alloys nanoparticles deposited on the surface is known to exhibit higher catalytic activity than the CoB amorphous. A study of the structure of such system is necessary to understand this effect. A quantum chemical study of Co2B2 on the TiO2 (110) surface was studied using periodic slab model within the framework of density functional theory (DFT). The results of geometry optimization indicated that the most stable model of adsorption was Co2B2 cluster adsorbed on the hollow site of TiO2.The adsorption energy calculated for Co2B2 on the hollow site was 439.3 kJ/mol.The adsorption of CO and O2 was further studied and the results indicated that CO and O2 are preferred to adsorb on the Co2 site. Co-adsorption of CO and O2 shows that Co2B2/TiO2 is a good catalyst for the oxidation of CO to carbon dioxide in the presence of oxygen.     

7-羟基喹啉-(H2O)n(n=1,2)复合物氢键相互作用的密度泛函理论研究

许多生理过程都通过分子间相互作用来实现。氢键则是最基本的化学作用力之一。具有碱性和酸性双官能团的芳香族化合物能与水作用形成氢键网络,对于实现生物体系的物质转移（质子转移、离子转移）起着十分重要的作用。在非水溶剂中,通过氢键发生质子转移反应动力学实验特征也己进行了广泛的研究。本文用密度泛函B3LYP方法在6-311G^＊基组水平上对7-羟基喹啉-水复合物相互作用进行了研究,从成键特征及氢键复合物的稳定关系方面进行了理论计算。     

Experimental and theoretical study of rotationally inelastic diffraction of D2 from NiAl(110)

We present a detailed experimental and theoretical study of elastic and rotationally inelastic diffraction of D(2) from NiAl(110) in the energy range 85-150 meV. The experiments were performed using a high-resolution, fixed angle geometry apparatus. Quantum and classical dynamical calculations were performed by using a six-dimensional potential energy surface constructed upon interpolation of a set of DFT (density functional theory) data. We show that, although elastic diffraction peak intensities are accurately described by theory in the whole range of incidence energies and angles explored, significant discrepancies are obtained for RID peaks, especially for those involving rotational initial states with j(i) > 0. Possible reasons for this discrepancy are discussed.     

Density functional theory study of hydrogen adsorption on Fe5C2(001), Fe5C2(110), and Fe5C2(100)

Density functional theory calculations have been carried out for hydrogen adsorption on the (001), (110), and (100) surfaces of Fe5C2. At 1/3 and 2/3 monolyer (ML) on (001), the most stable hydrocarbon species is CsH, while CsH and CsH3 can coexist at 1 ML. On (110), only dissociated hydrogen is found at 2/5 ML, while CsH is the most stable hydrogen carbon species at 4/5 ML, and CsH and CH3 coexist at 6/5 ML. On (001) and (110) surfaces, CsH2 is less stable and can dissociate into CsH or convert into CsH3, respectively. These results are in agreement with the experimental observations. On the metallic Fe5C2(100) surface which lacks surface carbon atoms on the surface monolayer, dissociated hydrogen is found at 1/2 ML, while both dissociated hydrogen and activated H2 are found at 1 ML.     

Comparisons of multilayer H2O adsorption onto the (110) surfaces of alpha-TiO2 and SnO2 as calculated with density functional theory

Mono- and bilayer adsorption of H2O molecules on TiO2 and SnO 2 (110) surfaces has been investigated using static planewave density functional theory (PW DFT) simulations. Potential energies and structures were calculated for the associative, mixed, and dissociative adsorption states. The DOS of the bare and hydrated surfaces has been used for the analysis of the difference between the H2O interaction with TiO2 and SnO 2 surfaces. The important role of the bridging oxygen in the H2O dissociation process is discussed. The influence of the second layer of H2O molecules on relaxation of the surface atoms was estimated.     

A density functional theory study of the coadsorption of water and oxygen on TiO2(110)

The behavior of adsorbed water on oxides is of fundamental interest in many areas. Despite considerable attention received recently, our understanding of water chemistry is still short of needs and expectations, particularly on the topic of the coadsorption of water and other species. In this study we carry out density functional theory calculations to investigate the coadsorption of water and oxygen on the TiO(2)(110) surface. We show that oxygen exerts profound influences on the water adsorption, altering the mechanism of water dissociation. On the one hand, the possible dissociation route along [-110] is prohibited due to the weakening of the H bond between water and the lattice bridging oxygen in the presence of the coadsorbed oxygen, and on the other hand the coadsorbed oxygen induces dissociation along [001]. These results lead to a consistent interpretation of experiments. Furthermore, several possible final states and the related formation mechanisms are discussed in detail.     

Density functional theory calculation and vibrational spectroscopy study of 2-amino-4,6-dimethyl pyrimidine (ADMP)

The solid phase FTIR and FT-Raman spectra of 2-amino-4,6-dimethyl pyrimidine (ADMP) have been recorded in the regions 4000-400 cm(-1) and 3500-50 cm(-1) respectively. The structure was investigated by utilizing density functional theory (DFT) calculations with the Becke 3-Lee-Yang-Parr (B3LYP) method employing the 6-31+G and 6-311++G basis sets. The optimized geometrical parameters obtained by B3LYP method show good agreement with experimental data. Complete vibrational assignments were made on the basis of normal coordinate analysis (NCA) for the molecule. The infrared and Raman spectra were also predicted from the calculated intensities. The observed and the calculated spectra were found to be in good agreement. The thermodynamic properties like entropies and their correlations with temperatures were also obtained from the harmonic frequencies of the optimized structures.     

High-resolution elastic and rotationally inelastic diffraction of D2 from NiAl(110)

High-resolution angular distributions of D(2) scattered from NiAl(110) have been measured at incident energies between 20 and 150 meV. The measurements were performed along the [110] azimuth using a high sensitivity time-of-flight apparatus, which allows the recording of diffraction channels not previously studied, including out-of-plane rotationally inelastic diffraction peaks. The attenuation of both elastic and rotationally inelastic diffraction intensities with surface temperature was found to follow a Debye-Waller model. The time-of-flight data analysis allowed us to assign unequivocally the different transition probabilities to each final state. In this way, 0→2, 2→0, and 1→3 transition probabilities were observed, covering relative intensities over two orders of magnitude. In the energy range investigated, the 0→2 transition was found to be a factor of 2-3 larger than the 2→0 one, which lies a factor of 10 above the 1→3 transition probability.     

Density functional theory study of CO2 capture with transition metal oxides and hydroxides

We have used density functional theory (DFT) employing several different exchange-correlation functionals (PW91, PBE, PBEsol, TPSS, and revTPSS) coupled with lattice dynamics calculations to compute the thermodynamics of CO(2) absorption/desorption reactions for selected transition metal oxides, (TMO), and hydroxides, TM(OH)(2), where TM = Mn, Ni, Zn, and Cd. The van't Hoff plots, which describe the reaction equilibrium as a function of the partial pressures of CO(2) and H(2)O as well as temperature, were computed from DFT total energies, complemented by the free energy contribution of solids and gases from lattice dynamics and statistical mechanics, respectively. We find that the PBEsol functional calculations are generally in better agreement with experimental phase equilibrium data compared with the other functionals we tested. In contrast, the formation enthalpies of the compounds are better computed with the TPSS and revTPSS functionals. The PBEsol functional gives better equilibrium properties due to a partial cancellation of errors in the enthalpies of formation. We have identified all CO(2) capture reactions that lie on the Gibbs free energy convex hull as a function of temperature and the partial pressures of CO(2) and H(2)O for all TMO and TM(OH)(2) systems studied here.     

Density functional theory study of formaldehyde oligomers

Hydrogen‐bonded formaldehyde oligomers (dimer to pentamer) are studied using density functional theory (DFT), the B3LYP method, and the 6‐311+G* basis set. Many‐body interaction energies are obtained to study the contribution of many‐body terms to binding energy. The basis set superposition error (BSSE)‐corrected total energies are ?229.08170, ?343.61410, ?458.16660, and ?572.70901 hartrees for dimer, trimer, tetramer, and pentamer, respectively, with corresponding binding energies ?2.55, ?4.86, ?6.99, and ?9.49 kcal/mol. Two‐body energies have been found to contribute significantly to the total binding energy in dimer to pentamer, whereas higher‐order interaction energies are negligible. © 2004 Wiley Periodicals, Inc. Int J Quantum Chem, 2005     

Density functional theory study of BnC clusters

B_nC clusters (n = 3–10) were studied at the density functional theory (DFT) (B3LYP)/6‐311G** level of theory. The calculations predicted that the most stable configurations of the B_nC clusters are the (n + 1)‐membered cyclic structures. For boron–carbon clusters, the configurations containing greater numbers of three‐membered boron rings are more favorable, except for the B₇C and B₉C clusters. Through molecular orbital analysis of these B_nC clusters, we have concluded that π‐electron delocalization plays a crucial role in the stability of n + 1‐membered cyclic structures. In this paper, the relative stability of each cluster is discussed based on their single atomic‐binding energies. The capability of clusters to obtain or lose an electron was also discussed, based on their vertical electron detachment energies (VDEs), adiabatic electron detachment energies (ADEs), vertical electron affinities (VEAs) and adiabatic electron affinities (AEAs). Copyright © 2011 John Wiley & Sons, Ltd.     

H2S splitting on Cu(110): Insight from combined periodic density functional theory calculations and microkinetic simulation

Practical copper (Cu)‐based catalysts for the water–gas shift (WGS) reaction was long believed to expose a large proportion of Cu(110) planes. In this work, as an important first step toward addressing sulfur poisoning of these catalysts, the detailed mechanism for the splitting of hydrogen sulfide (H₂S) on the open Cu(110) facet has been investigated in the framework of periodic, self‐consistent density functional theory (DFT‐GGA). The microkinetic model based on the first‐principles calculations has also been developed to quantitatively evaluate the two considered decomposition routes for yielding surface atomic sulfur (S*): (1) H₂S → H₂S* → SH* → S* and (2) 2H₂S → 2H₂S* → 2SH* → S* + H₂S* → S* + H₂S. The first pathway proceeding through unimolecular SH* dissociation was identified to be feasible, whereas the second pathway involving bimolecular SH* disproportionation made no contribution to S* formation. The molecular adsorption of H₂S is the slowest elementary step of its full decomposition, being related with the large entropy term of the gas‐phase reactant under realistic reaction conditions. A comparison of thermodynamic and kinetic reactivity between the substrate and the close‐packed Cu(111) surface further shows that a loosely packed facet can promote the S* formation from H₂S on Cu, thus revealing that the reaction process is structure sensitive. The present DFT and microkinetic modeling results provide a reasonably complete picture for the chemistry of H₂S on the Cu(110) surface, which is a necessary basis for the design of new sulfur‐tolerant WGS catalysts. © 2013 Wiley Periodicals, Inc.     

Total oxidation of methanol on Cu(110): a density functional theory study

The partial and total oxidation of methanol on clean and oxygen-precovered Cu(110) has been studied by periodic density functional theory calculations within the generalized gradient approximation. Reaction paths including the geometry and the energetics of several reaction intermediates and the activation barriers between them have been determined, thus creating a complete scheme for methanol oxidation on copper. The calculations demonstrate that the specific structure of oxygen on copper plays an important role in both the partial and the total oxidation of methanol. For lower oxygen concentrations on the surface, the partial oxidation of methanol to formaldehyde is promoted by the presence of oxygen on the surface through the removal of hydrogen in the form of water, which prevents the recombinative desorption of methanol. At larger oxygen concentrations, the presence of isolated oxygen atoms reduces the C-H bond breaking barrier of adsorbed methoxy considerably, thus accelerating the formation of formaldehyde. Furthermore, oxygen also promotes the formation of dioxymethylene from formaldehyde, which then easily decays to formate. Formate is the most stable reaction intermediate in the total oxidation. Thus the formate decomposition represents the rate-limiting step in the total oxidation of methanol on copper.     

A high-resolution photoemission study of nanoscale aluminum oxide films on NiAl(110)

Using high-resolution soft X-ray photoemission, Al 2p, we have been able to quantify the relative populations of tetrahedrally (Al(tet)) and octahedrally (Al(oct)) coordinated Al(3+) in three distinct phases of nanoscale aluminum oxide films on NiAl(110). We have hence determined the bulk alumina phases that the nanoscale films most resemble. Adsorption of oxygen at room temperature produces a layer which predominately (90%) contains Al(tet) and is analogous to the amorphous bulk phase of alumina. Annealing this layer results in an Al enrichment of the oxide layer, through the diffusion of metal from the substrate, and an increase in the relative amount of Al(oct), producing a gamma-alumina-like layer with a relative Al(oct)/Al(tet) occupancy of 28 +/- 3%/72 +/- 3%. Oxygen adsorption at 823 K also produces a gamma-like phase, with a relative Al(oct)/Al(tet) occupancy of 27 +/- 3%/73 +/- 3%, although this layer is thicker than that formed at room temperature. Both oxidation methods produce gamma-alumina layers that display poor translational order. However, these poorly ordered layers have a relative Al(oct)/Al(tet) occupation similar to that of well-ordered oxide films produced using different oxidation conditions in previous studies. Both gamma layers undergo partial decomposition upon annealing to 1273 K, producing an alpha-alumina-like oxide, which contains only Al(oct), and is highly deficient in Al. There are significant oxide-free areas within the alpha-alumina oxide layer, which is characteristic of crystallite formation. Repeated cycles of oxidation and annealing to 1273 K do not produce a homogeneous film, but they do make the alpha-like oxide more Al rich.     

Density functional theory study of Te(CN)2, Te(CN)(NC), and Te(NC)2 and their isomerizations

The equilibrium structures of Te(CN)₂, Te(CN)(NC), and Te(NC)₂ and three isomerization reactions: Te(CN)₂ ? Te(CN)(NC), Te(CN)(NC) ? Te(NC)₂, and Te(CN)₂ ? Te(NC)₂ were studied in the gas-phase using density functional theory. Three functionals (B3LYP, BLYP, and BHLYP) were employed to characterize the low-lying electronic singlet and triplet TeC₂N₂ isomers. The basis sets for carbon and nitrogen used were of double-ζ plus polarization quality with additional s- and p-type diffuse functions, DZP++. For the tellurium atom, the LANL2DZ (ECP) basis set was used. The energetic ordering (kcal mol^?1) (B3LYP) including zero-point vibrational energy corrections for the singlet ground state isomers follows: Te(CN)₂ (0.0, global minimum) < Te(CN)(NC) (15.4) < Te(NC)₂ (29.8). Electrostatic potentials and average local ionization energies of the ground state Te(CN)₂, Te(CN)(NC), and Te(NC)₂ isomers provide some guidance as to sites for noncovalent and covalent interactions. Energetics such as the different forms of electron affinities, ionization energies, and singlet–triplet gaps were also reported. Further the theoretical rate constants for the isomerization reactions were evaluated using transition state theory. We predict that these isomers may crystallize in similar patterns, if stable, as does Se(CN)₂.     

Dimers of and tautomerism between 2-pyrimidinethiol and 2(1H)-pyrimidinethione: a density functional theory (DFT) study

Density functional theory (BLYP, B3LYP, B3P86, B3PW91) with the 6-31+G(d,p), 6-311+G(d,p), and cc-pVTZ basis sets has been used to calculate structural parameters, relative energies, and vibrational spectra of 2-pyrimidinethiol (1) and 2(1H)-pyrimidinethione (2) and their hydrogen-bonded homodimers (C(2) 3, C(2h) [4](double dagger), C(2h) 5), monohydrates, and dihydrates and a heterodimer (6). Several transition state structures proposed for the tautomerization process have also been examined. At the B3PW91/6-311+G(d,p)//B3PW91/6-31+G(d,p) level of theory 2-pyrimidinethiol (1) is predicted to be 3.41 kcal/mol more stable (E(rel)) than 2(1H)-pyrimidinethione (2) in the gas phase and 2 is predicted to be 6.47 kcal/mol more stable than 1 in aqueous medium. An unfavorable planar intramolecular strained four center transition state (TS1) for the tautomerization of 1 and 2 in the gas-phase lies 29.07 kcal/mol higher in energy than 2-pyrimidinethiol (1). The C(2) 2-pyrimidinethiol dimer (3) is 6.84 kcal/mol lower in energy than the C(2) homodimer transition state structure ([11](double dagger)) that connects dimers 3 and 4. Transition state [11](double dagger) provides a facile pathway for tautomerization between 1 and 2 in the gas phase (monomer-dimer promoted tautomerization). The hydrogen bonded 2-pyrimidinethiol- - -H(2)O and 2-pyrimidinethiol- - -2H(2)O structures are predicted to be 1.27 and 1.55 kcal/mol, respectively, higher in energy than 2(1H)-pyrimidinethione- - -H(2)O and 2(1H)-pyrimidinethione- - -2H(2)O. Water promoted tautomerization via cyclic transition states involving one water molecule (TS- - -H(2)O, [12](double dagger)) and two water molecules (TS- - -2H(2)O, [13](double dagger)) lie 11.42 and 11.44 kcal/mol, respectively, higher in energy than 2-pyrimidinethiol- - -H(2)O and 2-pyrimidinethiol- - -2H(2)O. Thus, the hydrated transition states [12](double dagger) and [13](double dagger) are involved in the tautomerism between 1 and 2 in aqueous medium.     

Density functional theory study with and without COSMO of H2SO4 reactions in an aqueous environment for metal extraction

In a recent study investigating the suitability of solvent extraction (SX) for the separation of Ta and Nb, it was shown that speciation data would be required to help explain the data obtained. As traditional speciation techniques cannot be readily applied for Ta and Nb, it was decided to determine the suitability of molecular modeling for this purpose. During the SX experiments the aqueous phase consisted of sulfuric acid (H₂SO₄), water, and metal species. In this study density functional theory (DFT) modeling was used to calculate the formation energy of five possible reactions of H₂SO₄ and H₂O. Different functional and basis set combinations were compared as well as the effect of infinite dilution by using the conductor-like screening model (COSMO), which simulates infinite dilution of solvents of varying polarity and includes the short-range interactions of the solute particles. The results obtained were used to determine whether it is possible to predict the reactions and mechanism when H₂SO₄ and H₂O interact during SX. According to the results, the deprotonation of H₂SO₄ was endothermic in a 1:1 acid–water ratio, while being both exothermic in the 1:5 and 1:10 acid–water ratio forming HSO₄⁻ and SO₄²⁻ respectively. Furthermore, it was seen that the hydration and dehydration of H₂SO₄ in a bulk H₂O solution was a continuous process. From the energy calculations it was determined that although the H₂SO₄●H₂O, HSO₄⁻●H₂O, and H₂SO₄●2H₂O species could form, they would most likely react with H₂O molecules to form HSO₄⁻, H₃O⁺, and H₂O. © 2018 Wiley Periodicals, Inc.