Chlorine adsorption on Au(111): chlorine overlayer or surface chloride?

We report the first scanning tunneling microscope (STM) investigation, combined with density functional theory calculations, to resolve controversy regarding the bonding and structure of chlorine adsorbed on Au(111). STM experiments are carried out at 120 K to overcome instability caused by mobile species upon chlorine adsorption at room temperature. Chlorine adsorption initially lifts the herringbone reconstruction. At low coverages (<0.33 ML), chlorine binds to the top of Au(111)-(1 x 1) surface and leads to formation of an overlayer with (square root(3) x square root(3))R30 degree structure at 0.33 ML. At higher coverages, packing chlorine into an overlayer structure is no longer favored. Gold atoms incorporate into a complex superlattice of a Au-Cl surface compound.     

氢原子在Be(0001)表面吸附的密度泛函理论研究

采用第一性原理的密度泛函理论研究单个氢原子和多个氢原子在Be(0001)表面吸附性质.给出了氢吸附Be(0001)薄膜表面的原子结构、吸附能、饱和度、功函数、偶极修正等特性参数.同时也讨论了相关吸附性质与氢原子覆盖度(0.06-1.33ML)的关系.计算结果表明:氢原子的吸附位置与覆盖度之间有强烈的依赖关系,覆盖度低于0.67ML时,氢原子能量上易于占据fcc或hcp的中空位置;覆盖度为0.78ML时,中空位与桥位为氢原子的最佳吸附位;覆盖度在0.89到1.00ML时,桥位是氢原子吸附能量最有利的位置;以上覆盖度中Be(0001)表面最外层铍原子的结构均没有发生明显变化.当覆盖度为1.11-1.33ML,高覆盖度下Be(0001)表面的最外层铍原子部分发生膨胀,近邻氢原子渗入到铍表面次层,氢原子易于占据在hcp和桥位.吸附结构中的氢原子比氢分子中的原子稳定.当覆盖度大1.33ML时,计算结果没有发现相对于氢分子更稳定的吸氢结构.同时从分析偶极修正和氢原子吸附垂直高度随覆盖度的变化关系判断氢覆盖度为1.33ML时,在Be(0001)表面吸附达到饱和.     

Double dative bond configuration: pyrimidine on Ge(100)

The adsorption of pyrimidine onto Ge(100) surfaces has been investigated using real-time scanning tunneling microscopy (STM), temperature-programmed desorption (TPD), and density-functional theory (DFT) calculations. Our results show that the adsorbed pyrimidine molecules are tilted about 40 degrees with respect to the Ge surface, and through a Lewis acid-base reaction form bridges between the down-Ge atoms of neighboring Ge dimer rows by double Ge-N dative bonding without loss of aromaticity. For coverages of pyrimidine up to 0.25 ML, a well-ordered c(4x2) structure results from states that appear in STM micrographs as oval-shaped protrusions, which correspond to pyrimidine molecules datively adsorbed on every other dimer. However, above 0.25 ML, the oval-shaped protrusions gradually change into brighter zigzag lines. At 0.50 ML, a p(2x2) structure results from the states that appear in STM as zigzag lines. The zigzag lines are formed by the attachment of pyrimidine molecules to the down-Ge atoms of every Ge dimer. However, the unstable p(2x2) structure eventually reconstructs into a c(4x2) structure due to steric hindrance between the adsorbed pyrimidine molecules after stopping the exposure of pyrimidine to the surface.     

一氧化碳共吸附法确定叔丁胺分子在Cu(111)表面的吸附位

采用扫描隧道显微镜(STM)和密度泛函理论(DFT)研究了78 K时单个叔丁胺分子在Cu(111)表面的吸附位. 我们提出以共吸附的一氧化碳√3 ×√3 超结构为基底铜原子的标识方法, 确定了低覆盖度的叔丁胺分子在Cu(111)表面的吸附位为顶位. 而采用单个一氧化碳分子标识基底铜原子的位置, 同样得出了叔丁胺分子的吸附位为顶位. 此外, 还采用DFT计算叔丁胺分子在Cu(111)表面的优势吸附构型. 理论计算结果表明顶位吸附构型为能量最稳定的构型, 与实验结果相吻合.     

Surface bonding and dynamical behavior of the CH3SH molecule on Au(111)

The chemisorption of the undissociated CH3SH molecule on the Au(111) surface has been studied at 5 K using scanning tunneling microscopy (STM) and density functional theory (DFT) calculations. The molecule was found to adsorb on atop Au sites on the defect-free surface. CH3SH undergoes hindered rotation about the Au-S bond on the defect-free surface which is seen in STM as a time-averaged 6-fold pattern. The pattern suggests that the potential minima directions occur for the rotating molecule at the six hollow sites surrounding the atop adsorption site. The barrier for rotation, obtained by DFT calculations, is approximately 0.1 kcal.mol(-1). At low coverages, preferential adsorption occurs at defect sites in the surface, namely, the herringbone "elbows" and random atomic step sites. Molecules adsorbed on these sites do not exhibit rotational freedom.     

Direct and indirect causes of Fermi level pinning at the SiO/GaAs interface

The correlation between atomic bonding sites and the electronic structure of SiO on GaAs(001)-c(2x8)/(2x4) was investigated using scanning tunneling microscopy (STM), scanning tunneling spectroscopy (STS), and density functional theory (DFT). At low coverage, STM images reveal that SiO molecules bond Si end down; this is consistent with Si being undercoordinated and O being fully coordinated in molecular SiO. At approximately 5% ML (monolayer) coverage, multiple bonding geometries were observed. To confirm the site assignments from STM images, DFT calculations were used to estimate the total adsorption energies of the different bonding geometries as a function of SiO coverage. STS measurements indicated that SiO pins the Fermi level midgap at approximately 5% ML coverage. DFT calculations reveal that the direct causes of Fermi level pinning at the SiO GaAs(001)-(2x4) interface are a result of either local charge buildups or the generation of partially filled dangling bonds on Si atoms.     

Atomic imaging of nucleation of trimethylaluminum on clean and H2O functionalized Ge(100) surfaces

The direct reaction of trimethylaluminum (TMA) on a Ge(100) surface and the effects of monolayer H(2)O pre-dosing were investigated using ultrahigh vacuum techniques, such as scanning tunneling microscopy (STM), scanning tunneling spectroscopy (STS), and x-ray photoelectron spectroscopy (XPS), and density functional theory (DFT). At room temperature (RT), a saturation TMA dose produced 0.8 monolayers (ML) of semi-ordered species on a Ge(100) surface due to the dissociative chemisorption of TMA. STS confirmed the chemisorption of TMA passivated the bandgap states due to dangling bonds. By annealing the TMA-dosed Ge surface, the STM observed coverage of TMA sites decreased to 0.4 ML at 250?°C, and to 0.15 ML at 450?°C. XPS analysis showed that only carbon content was reduced during annealing, while the Al coverage was maintained at 0.15 ML, consistent with the desorption of methyl (-CH(3)) groups from the TMA adsorbates. Conversely, saturation TMA dosing at RT on the monolayer H(2)O pre-dosed Ge(100) surface followed by annealing at 200?°C formed a layer of Ge-O-Al bonds with an Al coverage a factor of two greater than the TMA only dosed Ge(100), consistent with Ge-OH activation of TMA chemisorption and Ge-H blocking of CH(3) chemisorption. The DFT shows that the reaction of TMA has lower activation energy and is more exothermic on Ge-OH than Ge-H sites. It is proposed that the H(2)O pre-dosing enhances the concentration of adsorbed Al and forms thermally stable Ge-O-Al bonds along the Ge dimer row which could serve as a nearly ideal atomic layer deposition nucleation layer on Ge(100) surface.     

Chemical reactions and adsorption geometries of pyrrole on Ge(100)

The adsorption structures of pyrrole (C(4)H(5)N) on a Ge(100) surface at various coverages have been investigated with both scanning tunneling microscopy (STM) and ab initio density-functional theory (DFT) calculations. Three distinct features are observed in the STM images at low coverages. The comparison of the STM images with the simulation reveals that the most dominant flowerlike feature with a dark side is that the adsorbed pyrrole molecules with H dissociated form bridges between two down Ge atoms of neighboring Ge dimer rows through N-Ge bonding and beta-carbon-Ge interaction. The flowerlike feature without a dark side is also observed as a minority, which is identified as nearly the same structure as the most dominant one where a dissociated H is out of the feature. The third feature showing bright protrusions may be due to a C- and N-end-on (CN) configuration, where the pyrrole molecule is located on one dimer row. At higher coverages, the number of localized configurations increases.     

Bromine Adsorption and Thermal Stability on Rh(111): A Combined XPS,LEED and DFT Study

This study addresses a fundamental question in surface science: the adsorption of halogens on metal surfaces. Using synchrotron radiation-based high-resolution X-ray photoelectron spectroscopy (XPS), temperature-programmed XPS, low-energy electron diffraction (LEED) and density functional theory (DFT) calculations, we investigated the adsorption and thermal stability of bromine on Rh(111) in detail. The adsorption of elemental bromine on Rh(111) at 170 K was followed in situ by XPS in the Br 3d region, revealing two individual, coverage-dependent species, which we assign to fcc hollow- and bridge-bound atomic bromine. In addition, we find a significant shift in binding energy upon increasing coverage due to adsorbate-adsorbate interactions. Subsequent heating shows a high thermal stability of bromine on Rh(111) up to above 1000 K, indicating strong covalent bonding. To complement the XPS data, LEED was used to study the long-range order of bromine on Rh(111): we observe a (√3×√3)R30° structure for low coverages (≤0.33 ML) and a star-shaped compression structure for higher coverages (0.33–0.43 ML). Combining LEED and DFT calculations, we were able to visualize bromine adsorption on Rh(111) in real space for varying coverages.     

Scanning tunneling microscopy study of metal-free phthalocyanine monolayer structures on graphite

Low temperature scanning tunneling microscopy (STM) studies of metal-free phthalocyanine (H2Pc) adsorbed on highly oriented pyrolytic graphite (HOPG) have shown ordered arrangement of molecules for low coverages up to 1 ML. Evaporation of H2Pc onto HOPG and annealing of the sample to 670 K result in a densely packed structure of the molecules. Arrangements of submonolayer, monolayer, and monolayer with additional adsorbed molecules have been investigated. The high resolution of our investigations has permitted us to image single molecule orientation. The molecular plane is found to be oriented parallel to the substrate surface and a square adsorption unit cell of the molecules is reported. In addition, depending on the bias voltage, different electronic states of the molecules have been probed. The characterized molecular states are in excellent agreement with density functional theory ground state simulations of a single molecule. Additional molecules adsorbed on the monolayer structures have been observed, and it is found that the second layer molecules adsorb flat and on top of the molecules in the first layer. All STM measurements presented here have been performed at a sample temperature of 70 K.     

Bonding mechanism and atomic geometry of an ordered hydroxyl overlayer on Pt(111)

Exposing water to a (2 x 2)-O precovered Pt(111) surface at 100 K and subsequently annealing at 155 K led to the formation of a well-ordered (square root 3 x square root 3)R30 degrees overlayer. The structure of this overlayer is determined by DFT and full dynamical LEED calculations. There are two O containing groups per (square root 3 x square root 3)R30 degrees unit cell and both occupy near on-top positions with a Pt-O bond length of (2.11 +/- 0.04) A. DFT calculations determined the hydrogen positions of the OH species and clearly indicate hydrogen bonds between the neighboring adsorbed OH groups whose interaction is mainly of electrostatic nature. A theoretical comparison with H(2)O shows the hybridization of OH on Pt(111) to be sp(3).     

Dissociation of CH3I on the Al111 surface--an STM and density functional theory study

The reaction of methyl iodide with the Al(111) surface was studied by room-temperature scanning tunneling microscopy (STM) and by first principles calculations. It was found that at 300 K methyl iodide decomposes on the Al(111) surface, forming methyl (CH(3)), methylidyne (CH), and adsorbed iodine. Methyl groups are observed to occupy atop sites by STM. The occupation of the hollow site by methylidyne was observed in STM measurements. Total energy density functional theory calculations have shown that methyl species occupy atop Al sites (E(A) = 45.3 kcal/mol), methylidyne species adsorb on fcc hollow sites (E(A) = 155.0 kcal/mol), while individual iodine atoms can bind on both on-top or hollow sites with adsorption energies between 54 and 56 kcal/mol.     

Adsorption and desorption of HCl on Pt(111)

The adsorption and desorption of HCl on Pt(111) is investigated by temperature programmed desorption, infrared reflection absorption spectroscopy, and low energy electron diffraction. Five peaks are identified in the desorption spectra prior to the onset of multilayer desorption. At low coverage ( < 0.25 monolayers (ML)), desorption peaks at approximately 135 and 200 K are observed and assigned to recombinative desorption of dissociated HCl. At higher coverages, desorption peaks at 70, 77, and 84 K are observed. These peaks are assigned to the desorption of molecularly adsorbed HCl. The infrared spectra are in agreement with these assignments and show that HCl deposited at 20 K is amorphous but crystallizes when heated above 60 K. Kinetic analysis of the desorption spectra reveals a strong repulsive coverage dependence for the desorption energy of the low coverage features ( < 0.25 ML). The diffraction data indicate that at low temperature the adsorbed HCl clusters into ordered islands with a (3 x 3) structure and a local coverage of 4/9 with respect to the Pt(111) substrate.     

Imaging fibrinogen adsorbed on noble metal surfaces with scanning tunneling microscopy: correlation of images with electron spectroscopy for chemical analysis, secondary ion mass spectrometry, and radiolabeling studies

Fibrinogen adsorption on gold and platinum surfaces has been studied with electron spectroscopy for chemical analysis (ESCA), secondary ion mass spectrometry (SIMS), ¹²⁵I labeling, and scanning tunneling microscopy (STM). Stable images of single molecules have been obtained, but are rare. ESCA, SIMS, and labeling studies confirm that absorbed fibrinogen is present on samples at monolayer and submonolayer coverages even when STM images show only a bare substrate. Imaging is more reproducible at high coverages at which single molecules cannot be resolved. Possible explanations for the failure of STM to observe adsorbed fibrinogen molecules are discussed.     

Determination of O and OH adsorption sites and coverage in situ on Pt electrodes from Pt L(2,3) X-ray absorption spectroscopy

The adsorption of atomic oxygen and hydroxide on a platinum electrode in 0.1 M HClO4 or H2SO4 electrolytes was studied in situ with Pt L(2,3) X-ray absorption spectroscopy (EXAFS and XANES). The Pt L3 edge absorption data, mu, were collected at room temperature in transmission mode on beamline X-11A at the National Synchrotron Light Source using a custom built cell. The Pt electrode was formed of highly dispersed 1.5-3 nm particles supported on carbon. A novel difference procedure (delta mu = mu(O[H]/Pt) - mu(Pt)) utilizing the L3 XANES spectra at different applied voltages was used to isolate the effects of O[H] (O or OH) adsorption in the XANES spectra. The Deltamu results are compared with results obtained from real-space full-multiple scattering calculations utilizing the FEFF8 code on model clusters. The experimental results, when compared with theoretical calculations, allow the adsorption site to be identified. At low coverages OH adsorbs primarily in 1-fold coordinated atop sites. As the coverage increases, O binds in the bridge/fcc sites, and at still higher coverages above 1.05 V RHE, O adsorbs into a higher coordinated n-fold or subsurface site, which is thought to be the result of Pt-O site exchange and oxide formation. These results are similar to those found in the gas phase. Direct specific adsorption of bisulfate anions in H2SO4 is spectroscopically seen in both the EXAFS and XANES data and is seen to impede oxygen adsorption consistent with previous reports.     

CO adsorption and CO and O coadsorption on Rh(111) studied by reflection absorption infrared spectroscopy and density functional theory

The adsorption of carbon monoxide on Rh(111) and on oxygen modified Rh(111) was investigated using thermal desorption spectroscopy, reflection absorption infrared spectroscopy (RAIRS), and density functional theory. The results show that CO adsorbs on Rh(111) in on top sites at low coverages. With increasing coverage hollow sites and bridge sites get occupied according to the RAIRS results. A new vibrational feature at high wave numbers was found in the on top region of the CO stretching frequency. This feature can be explained by a local high density CO structure where two CO molecules are adsorbed in the ( radical3x radical3)R30 degrees structure. The coadsorption of oxygen and carbon monoxide leads to a shift of the CO stretching frequency to higher wave numbers with increasing O to CO ratio. CO adsorption on a (2x1) oxygen layer is possible and RAIRS shows that the CO adsorbs in on top and most likely in bridge sites in this case.     

First-principles study of the adsorption of cesium on Si(001)(2 x 1) surface

First-principles calculations based on density functional theory-generalized gradient approximation method have been performed on cesium adsorption on Si(001)(2 x 1) surface. The optimized geometries and adsorption energies have been obtained and the preferred binding sites have been determined for the coverage (Theta) of one monolayer and half a monolayer. At Theta = 0.5 ML the most stable adsorption site is shown to be T3 site. At Theta = 1 ML two Cs atoms are adsorbed at HH and T3 sites, respectively. It was found that the saturation coverage of Cs for the Si(001)(2 x 1)-Cs surface is one monolayer instead of half a monolayer. This finding supports the majority of experimental observations but does not support recent coaxial impact collision ion scattering spectroscopy investigations [Surf. Sci. 531, L340 (2003)] and He(+) Rutherford backscattering spectroscopy studies [Phys. Rev. B 62, 4545 (2000)]. Mulliken charge and overlap population analysis showed that the Cs-Si bond is indeed ionic rather than polarized covalent as generally assumed for alkali metal (AM) on Si(001)(2 x 1) surface. Geometrical structure analysis seems to have limitations in determining the nature of AM-substrate bond. We also found that the silicon surface is metallic and semiconducting for the coverages of 0.5 and 1 ML, respectively.     

Reduction of NO adlayers on Pt(110) and Pt(111) in acidic media: evidence for adsorption site-specific reduction

We present a combined in situ Fourier transform infrared reflection-absorption spectroscopy and voltammetric study of the reduction of saturated and subsaturated NO adlayers on Pt(111) and Pt(110) single-crystal surfaces in acidic media. The stripping voltammetry experiments and the associated evolution of infrared spectra indicate that different features (peaks) observed in the voltammetric profile for the electrochemical reduction of NO adlayers on the surfaces considered are related to the reduction of NO(ads) at different adsorption sites and not to different (consecutive) processes. More specifically, reduction of high- and intermediate-coverage (ca. 0.5-1 monolayers (ML)) NO adlayers on Pt(110) is accompanied by site switching from atop to bridge position, in agreement with the ultra-high-vacuum data. On Pt(111) linearly bonded (atop) NO and face-centered cubic 3-fold-hollow NO species coexist at high coverages (0.25-0.5 ML) and can be reduced consecutively and independently. On Pt(111) and Pt(110) electrodes, linearly bonded NO species are more reactive than multifold-bonded NO species. Both spectroscopic and voltammetric data indicate that ammonia is the main product of NO(ads) reduction on the two surfaces examined.     

Coverage dependent supramolecular structures: C60:ACA monolayers on Ag(111)

The dependence of supramolecular structure on fractional molecular coverage has been investigated for acridine-9-carboxylic acid (ACA) and the C(60):ACA binary molecular system. The coverage-dependent phase diagram for ACA is first determined from room-temperature STM imaging. At low molecular coverages (theta < 0.4 ML, ML = monolayer), ACA forms a 2-D gas phase. Ordered ACA structures appear with increasing coverage: first a chain structure composed of ACA molecules linked by consecutive O-H...N hydrogen bonds (theta > 0.4 ML), then a dimer structure composed of ACA dimers linked by paired carboxyl-carboxyl hydrogen bonds (theta approximately equal to 1.0 ML). Structures of the C(60):ACA binary system depend on the coverage of predeposited ACA. At intermediate (0.4 ML approximately 0.8 ML) ACA coverages, C(60) deposition results in a hexagonal cooperative structure with the C(60) periodicity nearly 3 times that of the normal C(60) 2-D packing of 1 nm and exists in enantiopure domains. At higher ACA coverages, a C(60) quasi-chain structure is formed in which parallel C(60) chains are spaced by ACA dimer domains. The mechanistic role of the initial ACA phase in the formation of C(60):ACA supramolecular structures is described. Chemically intuitive molecular packing models are presented based on the observed STM images.     

Energetics of cyclohexene adsorption and reaction on Pt(111) by low-temperature microcalorimetry

The heat of adsorption and sticking probability of cyclohexene on Pt(111) were measured as a function of coverage using single-crystal adsorption calorimetry in the temperature range from 100 to 300 K. At 100 K, cyclohexene adsorbs as intact di-sigma bonded cyclohexene on Pt(111), and the heat of adsorption is well described by a second-order polynomial (130 - 47 theta - 1250 theta(2)) kJ/mol, yielding a standard enthalpy of formation of di-sigma bonded cyclohexene on Pt(111) at low coverages of -135 kJ/mol and a C-Pt sigma bond strength of 205 kJ/mol. At 281 K, cyclohexene dehydrogenates upon adsorption, forming adsorbed 2-cyclohexenyl (c-C6H(9,a)) and adsorbed hydrogen, and the heat of adsorption is well described by another second-order polynomial (174 - 700 theta + 761 theta(2)) kJ/mol. This yields a standard enthalpy of formation of adsorbed 2-cyclohexenyl on Pt(111) at a low coverage of -143 kJ/mol. At coverages below 0.10 ML, the sticking probability of cyclohexene on Pt(111) is close to unity (>0.95), independent of temperature.