D-alaninol adsorption on Cu(100): photoelectron spectroscopy and first-principles calculations

The adsorption of a single molecule of the D-enantiomer of alaninol (2-amino-1-propanol) on the surface of Cu(100) is investigated through density functional theory calculations. Different possible adsorption sites for D-alaninol are tested, and it is found that the most stable configuration presents both amino and hydroxyl group covalently interacting with "on top" copper atoms. The electronic structure is analyzed in detail and compared with experimental photoelectron spectra. Another adsorption structure in which a dehydrogenation process is assumed to occur on the amino group is analyzed and provides a possible explanation of the valence band electronic structure and of the experimentally observed N 1s core-level shift at full coverage, where a self-assembled ordered chiral monolayer is formed on the copper surface.     

Heme carbonyls: environmental effects on nu(C-O) and Fe-C/C-O bond length correlations

The synthesis and characterization of four low-spin (carbonyl)iron(II) tetraphenylporphyrinates, [Fe(TPP)(CO)(L)], where L = 1-methylimidazole, 2-methylimidazole, 1,2-dimethylimidazole (unsolvated), and 1,2-dimethylimidazole (toluene solvate) are reported. The complexes show nearly the same value of nu(C-O) in toluene solution (1969-72 cm(-1)) but a large range of CO stretching frequencies in the solid-state (1926-1968 cm(-1)). The large solid-state variation results from CO interactions in the solid state, as shown by an examination of the crystal structures of the four complexes. The high precision of the four structures obtained allows us to make a number of structural and spectroscopic correlations that describe the Fe-C-O and N(Im)-Fe-CO units. The values of nu(C-O) and the Fe-C and C-O bond distances are strongly correlated and provide a structural, as well as a spectroscopic, correlation of the pi back-bonding model. The interactions of CO described are closely related to the large range of CO stretching frequencies observed in heme proteins and specific interactions observed in carbonylmyoglobin (MbCO).     

INDO calculations of small copper clusters and CO adsorbed on copper(100) surfaces

A new parameterization for copper at the INDO/CI level is presented. Results for excitation energies, ionization potentials, and electron detachment energies are presented for selected copper clusters with up to ten atoms. The parameterization gives improved results for calculations of spectroscopic properties for systems with significant copper–copper interactions, such as clusters and model surfaces. Results for the O1s shakeup of CO attached to Cu(100) model surfaces for the new parameters are compared with experiments and with results obtained using the standard parameters. © 2000 John Wiley & Sons, Inc. J Comput Chem 21: 1221–1228, 2000     

Convergent synthesis of geometrically disassembling dendrimers using Cu(I)-catalyzed C-O bond formation

The convergent synthesis of geometrically degradable dendrimers based on the 2,4-bis(hydroxymethyl)phenol subunit is presented. The key step of the synthetic scheme involves the CuI/3,4,7,8-tetramethyl-1,10-phenanthroline-catalyzed coupling of aryl iodides and alcohols. The synthesis and disassembly of these compounds is discussed.     

Electron paramagnetic resonance and density-functional theory studies of Cu(II)-bis(oxamato) complexes

In this work we present the investigation of the influence of electronic and structural variations induced by varying the N,N'-bridge on the magnetic properties of Cu(II)- bis(oxamato) complexes. For this study the complexes [Cu(opba)] (2-) ( 1, opba = o-phenylene- bis(oxamato)), [Cu(nabo)] (2-) ( 2, nabo = 2,3-naphthalene- bis(oxamato)), [Cu(acbo)] (2-) ( 3, acbo = 2,3-anthrachinone- bis(oxamato)), [Cu(pba)] (2-) ( 4, pba = propylene- bis(oxamato)), [Cu(obbo)] (2-) ( 5, obbo = o-benzyl- bis(oxamato)), and [Cu(npbo)] (2-) ( 6, npbo = 1,8-naphthalene- bis(oxamato)), and the respective structurally isomorphic Ni(II) complexes ( 8- 13) have been prepared as ( (n)Bu 4N) (+) salts. The new complex ( (n)Bu 4N) 2[Cu(R-bnbo)].2H 2O ( 7, R-bnbo = (R)-1,1'-binaphthalene-2,2'- bis(oxamato)) was synthesized and is the first chiral complex in the series of Cu(II)-bis(oxamato) complexes. The molecular structure of 7 has been determined by single crystal X-ray analysis. The Cu(II) ions of the complexes 1- 7 are eta (4)(kappa (2) N, kappa (2) O) coordinated with a more or less distorted square planar geometry for 1- 6 and a distorted tetrahedral geometry for 7. Using pulsed Electron Nuclear Double Resonance on complex 6, detailed information about the relative orientation of the hyperfine ( A) and nuclear quadrupole tensors ( Q) of the coordinating nitrogens with respect to the g tensor were obtained. Electron Paramagnetic Resonance studies in the X, Q, and W-band at variable temperatures were carried out to extract g and A values of N ligands and Cu ion for 1- 7. The hyperfine values were interpreted in terms of spin population on the corresponding atoms. The obtained trends of the spin population for the monomeric building blocks were shown to correlate to the trends obtained in the dependence of the exchange interaction of the corresponding trinuclear complexes on their geometry.     

Arylgold(I) complexes from base-assisted transmetalation: structures, NMR properties, and density-functional theory calculations

The synthesis of gold(I) complexes of the type LAuR (L = PCy(3), IPr; R = aryl; IPr = 1,3-bis(2,6-diisopropylphenyl)imidazol-2-ylidene) starting from LAuX (X = Br, OAc) and boronic acids in the presence of Cs(2)CO(3) has been investigated. The reactions proceed smoothly in good to excellent yields over the course of 24-48 h in isopropyl alcohol at 50-55 °C. The aryl groups include a variety of functionalities and steric bulk, and in two cases, are heterocyclic. All of the products have been characterized by multinuclear NMR spectroscopy and elemental analysis and most by X-ray crystallography. This work affirms that, almost without exception, base-assisted auration is a useful and reliable way to form gold-carbon bonds.     

Vibrational excitation of adsorbed molecules by photoelectrons of very low energy: acrylonitrile on Cu(100)

In this study, we report on a powerful method of primary photoelectron scattering by adsorbed species. Specifically, threshold-energy (E(kin,max) < 0.5 eV) two-photon photoelectrons (2PPE) are used to probe acrylonitrile (ACN) molecules chemisorbed onto a Cu(100) substrate, held at room temperature. This has proven to constitute a perfect tool to reveal the ACN vibrational modes in the chemisorbed state. From the dynamics of the directional (perpendicular to the copper surface) electron energy loss we conclude that only a few fundamental vibrational motions of adsorbed ACN are excited, namely the C=C, C≡N and C-H stretch modes. From the excitation probability spectra threshold energies, E(th), of these modes was extracted: E(th)(C=C) = 182(15) meV, E(th)(C≡N) = 248(16) meV--which are shifted noticeably from the equivalent gas phase values; and E(th)(C-H) ～360-380 meV--which varies only marginally from the gas phase value. The interpretation of the excitation spectra suggests that the di-σ adsorption configuration of the terminal C- and N-atoms dominates, which agrees well with the orientation and bindings predicted in Density Functional Theory (DFT) calculations. Consistent with this is the observation that the contribution to the 2PPE excitation spectra from the C-H stretch motion is by far the largest, which are not directly affected by chemisorption bonding.     

Interaction potentials from periodic density-functional theory calculations: molecular-dynamics simulations of Au clusters deposited on the TiN (001) surface

Molecular-dynamics simulations of gold particles deposited on a TiN (001) surface have been accounted for through classical pair potentials describing the atom force field. The interaction between Ti-N, Ti-Ti, N-N, Au-Au, Au-Ti, and Au-N pairs was estimated by following a procedure in which the interaction energy between two sets of atoms is estimated from density-functional calculations performed with periodic boundary conditions using plane waves as basis set. The pair potentials were expressed as the sum of two contributions: long range in a Coulomb form and a short-range term, which included the rest of the energy contributions. Simulations of the TiN (001) isolated surface reproduced the already described surface relaxation, with a rippling parameter in agreement with that found from a purely first-principles approach. Simulations of gold deposition on such surfaces showed the formation of metal clusters with well-defined fcc structure and epitaxially grown.     

Characterization of enantiospecific chemisorption on chiral Cu surfaces vicinal to Cu(111) and Cu(100) using density functional theory

Surfaces of simple fcc metals such as Cu with nonzero and unequal Miller indices are intrinsically chiral. Density functional theory (DFT) calculations are a useful way to study the enantiospecific adsorption of small chiral molecules on these chiral metal surfaces. We report DFT calculations of seven chiral molecules on several structurally distinct chiral Cu surfaces. These surfaces include two surfaces with (111)-oriented terraces and one with (100)-oriented terraces. Calculations are also described on a surface that was modified to mimic the surface structures that typically appear on real metal surfaces following thermally driven fluctuations in step edges. Our results provide initial information on how variation in the surface structure of intrinsically chiral metal surfaces can affect the enantiospecific adsorption of small molecules on these surfaces.     

DFT quantum-chemical calculations of nitrogen oxide chemisorption and reactivity on the Cu(100) surface

A DFT quantum-chemical study of NO adsorption and reactivity on the Cu₂₀ and Cu₁₆ metal clusters showed that only the molecular form of NO is stabilized on the copper surface. The heat of monomolecular adsorption was calculated to be ΔH _m = ?49.9 kJ/mol, while dissociative adsorption of NO is energetically unfavorable, ΔH _d = + 15.7 kJ/mol, and dissociation demands a very high activation energy, E _a = + 125.4 kJ/mol. Because of the absence of NO dissociation on the copper surface, the formation mechanism of the reduction products, N₂ and N₂O, is debatable since the surface reaction ultimately leads to N-O bond cleavage. As the reaction occurs with a very low activation energy, E _a = 7.3 kJ/mol, interpretation of the NO direct reduction mechanism is both an important and intriguing problem because the binding energy in the NO molecule is high (630 kJ/mol) and the experimental studies revealed only physically adsorbed forms on the copper surface. It was found that the formation mechanism of the N₂ and N₂O reduction products involves formation (on the copper surface) of the (O_adN-NO_ad) dimer intermediate that is chemisorbed via the oxygen atoms and characterized by a stable N-N bond (r _N-N ～1.3 Å). The N-N binding between the adsorbed NO molecules occurs through electron-accepting interaction between the oxygen atoms in NO and the metal atoms on the “defective” copper surface. The electronic structure of the (O_adN-NO_ad) surface dimer is characterized by excess electron density (ON-NO)^δ? and high reactivity in N-O_ad bond dissociation. The calculated activation energy of the destruction of the chemisorbed intermediate (O_adN-NO_ad) is very low (E _a = 5–10 kJ/mol), which shows that it is kinetically unstable against the instantaneous release of the N₂ and N₂O reduction products into the gas phase and cannot be identified by modern experimental methods of metal surface studies. At the same time, on the MgO surface and in the individual (Ph₃P)₂Pt(O₂N₂) complex, a stable (O_adN-NO_ad) dimer was revealed experimentally.     

Ge adsorption on Ag(111): A density-functional theory investigation

First-principles density-functional theory has been used to investigate the adsorptions of Ge on Ag(111) surfaces for a wide range of coverage. Preferred adsorption sites, adsorption energies, surface structures, and the electronic properties are studied. Our results show that adsorption on the surface in fcc- sites is energetically favorable. The adsorption energies decrease as increasing Ge atoms, while the work functions of Ag surface decrease. The contour maps of the difference charge show that there exists covalent bonding in lower coverage systems to some extent for Ge on Ag(111) surface, and the interaction of Ge and Ag atoms becomes weaker with the increase of adsorption degree. The calculated density of states indicates that the adsorption structures have metallic character, while the number of electron transition is small and the interaction is not strong between Ge and Ag atoms.     

Multiconfigurational time-dependent Hartree calculations for dissociative adsorption of H2 on Cu(100)

The efficiency of the multiconfigurational time-dependent Hartree (MCTDH) method for calculating the initial-state selected dissociation probability of H(2)(v=0,j=0) on Cu(100) is investigated. The MCTDH method is shown to be significantly more efficient than standard wave packet methods. A large number of single-particle functions is required to converge the initial-state selected reaction probability for dissociative adsorption. Employing multidimensional coordinates in the MCTDH ansatz (mode combination) is found to be crucial for the efficiency of these MCTDH calculations. Perspectives towards the application of the MCTDH approach to study dissociative adsorption of polyatomic molecules on surfaces are discussed.     

First-principles studies of chiral step reconstructions of Cu(100) by adsorbed glycine and alanine

Adsorption of amino acids on Cu(100) is known experimentally to induce surface reconstructions featuring intrinsically chiral Cu(3,1,17) facets, but no information about the geometry of the molecules on these chiral facets is available. We present density-functional theory calculations for the structure of glycine and alanine at moderate coverages on Cu(3,1,17). As might be expected, molecules prefer to bind at the step edges on this surface rather than on the surface's (100)-oriented terraces. The adsorption of enantiopure alanine on Cu(3,1,17) is predicted to be weakly enantiospecific, with S-alanine being more stable on Cu(3,1,17)(S) than R-alanine. By comparing the surface energies of Cu(100) and Cu(3,1,17) in the presence of adsorbed glycine or alanine, our calculations provide insight into the driving force for chiral reconstructions of Cu(100) by amino acids.     

Electronic excited states of Si(100) and organic molecules adsorbed on Si(100)

The electronically excited states of the Si(100) surface and acetylene, benzene, and 9,10-phenanthrenequinone adsorbed on Si(100) are studied with time-dependent density functional theory. The computational cost of these calculations can be reduced through truncation of the single excitation space. This allows larger cluster models of the surface in conjunction with large adsorbates to be studied. On clean Si(100), the low-lying excitations correspond to transitions between the pi orbitals of the silicon-silicon dimers. These excitations are predicted to occur in the range 0.4-2 eV. When organic molecules are adsorbed on the surface, surface --> molecule, molecule --> surface, and electronic excitations localized within the adsorbate are also observed at higher energies. For acetylene and benzene, the remaining pipi* excitations are found to lie at lower energies than in the corresponding gas-phase species. Even though the aromaticity of 9,10-phenanthrenequinone is retained, significant shifts in the pipi* excitations of the aromatic rings are predicted. This is in part due to structural changes that occur upon adsorption.     

Direct identification of conformational isomers of adsorbed oligothiophene on Cu100

A direct conformational analysis using scanning tunneling microscopy (STM) has been performed for individual adsorbed alpha-octithiophene molecules on Cu(100). s-cis and s-trans conformational isomers are induced by the rotational flexibility of individual thiophene rings. By adding bulky N-silyl substituents to octithiophene, we successfully identify the s-cis and s-trans conformational isomers using STM. The obtained relative abundances of the s-cis and s-trans conformations are analyzed using ab initio molecular orbital calculations.     

Plasma-assisted oxidation of Cu(100) and Cu(111)

Oxidized copper surfaces have attracted significant attention in recent years due to their unique catalytic properties, including their enhanced hydrocarbon selectivity during the electrochemical reduction of CO₂. Although oxygen plasma has been used to create highly active copper oxide electrodes for CO₂RR, how such treatment alters the copper surface is still poorly understood. Here, we study the oxidation of Cu(100) and Cu(111) surfaces by sequential exposure to a low-pressure oxygen plasma at room temperature. We used scanning tunnelling microscopy (STM), low energy electron microscopy (LEEM), X-ray photoelectron spectroscopy (XPS), near edge X-ray absorption fine structure spectroscopy (NEXAFS) and low energy electron diffraction (LEED) for the comprehensive characterization of the resulting oxide films. O₂-plasma exposure initially induces the growth of 3-dimensional oxide islands surrounded by an O-covered Cu surface. With ongoing plasma exposure, the islands coalesce and form a closed oxide film. Utilizing spectroscopy, we traced the evolution of metallic Cu, Cu₂O and CuO species upon oxygen plasma exposure and found a dependence of the surface structure and chemical state on the substrate''s orientation. On Cu(100) the oxide islands grow with a lower rate than on the (111) surface. Furthermore, while on Cu(100) only Cu₂O is formed during the initial growth phase, both Cu₂O and CuO species are simultaneously generated on Cu(111). Finally, prolonged oxygen plasma exposure results in a sandwiched film structure with CuO at the surface and Cu₂O at the interface to the metallic support. A stable CuO(111) surface orientation is identified in both cases, aligned to the Cu(111) support, but with two coexisting rotational domains on Cu(100). These findings illustrate the possibility of tailoring the oxidation state, structure and morphology of metallic surfaces for a wide range of applications through oxygen plasma treatments.

A low-pressure oxygen plasma oxidized Cu(100) and Cu(111) surfaces at room temperature. The time-dependent evolution of surface structure and chemical composition is reported in detail for a range of exposure times up to 30 min.     

Intramolecular resonances afterK-shell excitation of C2H2n adsorbed on Ag and Cu(100) surfaces

The near edge X-ray absorption fine structure (NEXAFS) at the C K-edge of C₂H₂, C₂H₄, C₂H₆ on Cu(100) and Ag(100) surfaces is studied. The oriented character of the molecules on the surface combined to the dipole selection rules for photon absorption allows an experimental assignment of the nature of the various final states. A careful fitting of the NEXAFS spectra reveals final states of C–H character and shake-up satellites of the C(1 s) to π* (C–C) transition. The asymmetric line shape of the C(1 s) to σ* (C–C) transition is described in a scattering model of the photoelectron from the molecular potential.     

Pt on graphene monolayers supported on a Ni(111) substrate: relativistic density-functional calculations

The structural, energetic, and magnetic properties of Pt atoms and dimers adsorbed on a Ni-supported graphene layer have been investigated using density-functional calculations, including the influence of dispersion forces and of spin-orbit coupling. Dispersion forces are found to be essential to stabilize a chemisorbed graphene layer on the Ni(111) surface. The presence of the Ni-substrate leads not only to a stronger interaction of Pt atoms and dimers with graphene but also to a locally increased binding between graphene and the substrate and a complex reconstruction of the adlayer. The stronger binding of the dimer also stabilizes a flat adsorption geometry in contrast to the upright geometry on a free-standing graphene layer. These effects are further enhanced by dispersion corrections. Isolated Pt adatoms and flat dimers are found to be non-magnetic, while an upright Pt dimer has strongly anisotropic spin and orbital moments. For the clean C/Ni(111) system, we calculate an in-plane magnetic anisotropy, which is also conserved in the presence of isolated Pt adatoms. Surprisingly, upright Pt-dimers induce a re-orientation of the easy magnetic axis to a direction perpendicular to the surface, in analogy to Pt(2) on a free-standing graphene layer and to the axial anisotropy of a gas-phase Pt(2) dimer.     

UPS study of cyanogen adsorbed on Pt(100)

Ultraviolet photoelectron spectra for adsorbed cyanogen on Pt(100) are presented and discussed in terms of possible models for the different adsorption states detected by other surface techniques. Taking the gas phase spectra of C₂N₂ and HCN as guidance interpretation of the various cyanogen induced features is attempted as follows: A prominent peak 6 eV below the Fermi level is ascribed to the overlapping π and nitrogen lone-pair orbitals, whereas a weak, broad feature around 16 eV is assigned to CC π bonds present in the absorbate layer. A feature within the Pt d-band region at 3 eV is tentatively associated with the “back-bonding” from filled metal d-band states into empty 2π^* states of the absorbate.     

Structure and bonding of alkanethiols on Cu(111) and Cu(100)

The local structure of the sulfur atom of methanethiolate and ethanethiolate on the Cu(111) and Cu(100) surfaces was investigated from first principles employing the periodic supercell approach in the framework of density functional theory. On the 111 surface, we investigated the (square root 3 x square root 3)R30 degrees and (2 x 2) structures, whereas on the 100 surface, we investigated the p(2 x 2) and c(2 x 2) structures. The landscape of the potential energy surface on each metal surface presents distinctive features that explain the local adsorption structure of thiolates found experimentally. On the Cu(111) surface, the energy difference between the hollow and bridge sites is only 3 kcal/mol, and consequently, adsorption sites ranging from the hollow to the bridge site were observed for increasing surface coverages. On the Cu(100) surface, there is a large energy difference of 12 kcal/mol between the hollow and bridge sites, and therefore, only the 4-fold coordination was observed. The high stabilization of thiolates on the hollow site of Cu(100) may be the driving force for the pseudosquare reconstruction observed experimentally on Cu(111). Density of states analysis and density difference plots were employed to characterize the bonding on different surface sites. Upon interaction with the metal d bands, the pi* orbital of methanethiolate splits into several peaks. The two most prominent peaks are located on either edge of the metal d band. They correspond to bonding and antibonding S-Cu interactions. In the case of ethanethiolate, all the back-bonds are affected by the surface bonding, leading to alternating regions of depletion and accumulation of charge in the successive bonds.