Valence electron orbitals of an oligo(p-phenylene-ethynylene)thiol on gold

This communication reports measurement of one-photon (21.2 eV) and one-color, two-photon (3.2-4.5 eV) photoemission spectra of 4,4'-bis-(phenylethynyl)benzenethiol chemisorbed on gold. Four features are observed in these spectra: two occupied, predominantly molecular levels below the Fermi level and two unoccupied, predominantly molecular levels above the Fermi level. The occupied and unoccupied bands closest to the Fermi level are assigned to delocalized pi-bands, and the other occupied and unoccupied bands, to localized pi-bands. With this assignment, the hole- and electron-injection barriers and the transport gap for those levels are deduced.     

1-Phenyl-1-propyne on Cu(111): TOFMS TPD, XPS, UPS, and 2PPE Studies

The bonding properties of 1-phenyl-1-propyne (PP, C6H5CCCH3) on Cu(111) at 100 K have been studied using temperature-programmed desorption (TPD), and X-ray, ultraviolet, and two-photon photoemission spectroscopies (XPS, UPS, and 2PPE). In TPD, there is no evidence for dissociation. Multilayer desorption occurs at 187 K, and monolayer desorption occurs at 320 (83.5 kJ/mol) and 390 K (102.4 kJ/mol), with the latter dominating. Based on the calibrated C(1s) XPS, the saturation monolayer coverage is one PP per four surface Cu atoms. The broad and asymmetric C(1s) intensity profile of the monolayer can be resolved into three symmetric components, with peaks at 283.6, 284.5, and 285.2 eV and intensities of 2:6:1, respectively. These are attributed, respectively, to acetylenic carbons bound to Cu, phenyl, and methyl carbons. The monolayer valence band ultraviolet photoemission spectrum profile contains four resonances attributable to PP perturbed by interactions with the Cu(111) substrate. With the exception of the highest occupied molecular orbital (HOMO) that is shifted by 0.4 eV, these are uniformly shifted by 1 eV further from the Fermi level for the multilayer. Calculated electron density plots of the occupied orbitals coupled with UPS profiles suggest a spectator role for the phenyl group and bonding to Cu via the acetylenic carbons. The adsorption of 1.0 monolayer (ML) of PP on Cu(111) lowers the work function by 0.85 eV. Using 2PPE, two unoccupied orbitals were identified at 1.0 (U1*-LUMO) and 0.6 eV (U2*-image state) below the vacuum level. A chemisorption model consistent with these spectroscopic results and the major chemisorption peak in TPD involve di-sigma-bonding of the acetylenic carbons to a pair of second-nearest neighbor surface Cu atoms (cross-bridge).     

Polarized near-edge x-ray-absorption fine structure spectroscopy of C60-functionalized 11-amino-1-undecane thiol self-assembled monolayer: molecular orientation and evidence for C60 aggregation

Near-edge x-ray-absorption fine structure (NEXAFS) spectroscopy was adopted to probe the unoccupied electronic states of C60 anchored onto an organized assembly of 11-amino-1-undecane thiol on Au(111). The polarization dependence of the intensity of pi* resonance associated with C60 pi network revealed the self-assembled monolayer (SAM) system to be oriented with an average molecular tilt angle of 57 degrees with respect to the surface normal. Invoking the absence of solid-state band dispersion effects and in comparison to solid C60 and /or 1-ML C60/Au(111), the electronic structure of the resulting assembly was found dominated by spectral position shift and linewidth and intensity changes of the lowest unoccupied molecular orbital (LUMO), LUMO+1, and LUMO+2 orbitals. The latter implied hybridization between N Pz of -NH2 group of thiolate SAM and pi levels of C60, resulting in a nucleophilic addition with a change in the symmetry of C60 from Ih to C1 in the SAM. Occurrence of a new feature at 285.3 eV in the NEXAFS spectrum, assigned previously to pi* graphitic LUMO, signified the formation of aggregated clusters, (C60)n of C60 monomer. Low tunneling current scanning tunneling microscopy confirmed them to be spherical and stable aggregates with n approximately 5.     

Measuring Level Alignment at the Metal–Molecule Interface by In Situ Electrochemical 13C NMR

A new technique to measure energy‐level alignment at a metal–molecule interface between the Fermi level of the metal and the frontier orbitals of the molecule is proposed and experimentally demonstrated. The method, which combines the electrochemistry of organo‐ligand‐stabilized Au nanoparticles with ¹³C NMR spectroscopy (i.e. in situ electrochemical NMR), enables measuring both occupied and unoccupied states.     

Role of conformation in the electronic properties of chemisorbed pyridine on Cu(110): an STM/STS study

Pyridine was chemisorbed on Cu(110) at 10 K and observed using STM at 5 K as dosed and after annealing to temperatures between 20 and 300 K. At very low coverage, two molecular species with different apparent heights are observed to coexist. The higher species is assigned to a pyridine molecule bonded with its symmetry axis perpendicular to the surface plane, while the lower species is assigned to a pyridine molecule that is tilted down toward the surface plane. At low coverage, the tilted pyridine species predominates on the surface, but as the total surface coverage of pyridine increases, the molecules stand up until the upright geometry becomes favored. Measurements of the STS of the two species show different molecular resonances derived from the lowest unoccupied pyridine pi* orbitals. The tilted pyridine species has a peak in the unoccupied local density of states at 2.6 +/- 0.1 eV, whereas the upright pyridine species has a peak at 2.3 +/- 0.1 eV.     

Generalized van Vleck perturbation theory (GVVPT2) study of the excited states of benzene and the azabenzenes

Generalized van Vleck perturbation theory (GVVPT2) for molecular electronic structures is applied to examine the azabenzene series: benzene, pyridine, pyrazine, symmetric triazine and symmetric tetrazine. The spectra of azabenzenes are complex with large numbers of excited states at low energies comprising n --> pi* and pi --> pi* excited states and also doubly excited states of the n,n --> pi*,pi* type. The calculations are complicated due to strong correlation effects in the nitrogen lone-pair orbitals and the pi electrons. This study is the first to use GVVPT2 on conjugated systems. Comparison is made with experimental data and complete active space second-order perturbation theory, equation of motion coupled cluster and similarity transformed equation of motion coupled cluster theory data. Using polarized valence double split basis sets for benzene and pyrazine (cc-pVDZ) and pyridine (ANO-S) and polarized triple split basis sets (ANO-L) for triazine and tetrazine, the n --> pi* and pi --> pi* states are computed with an average error of 0.28 eV in comparison with available experimental data.     

Electron transport in a pi-stacking molecular chain

We have investigated the electronic structure and transport properties of a pi-stacking molecular chain which is covalently bonded to a H/Si(100) surface, using the first-principles density functional theory approach combined with Green's function method. The highest occupied molecular orbital (HOMO) dispersion is remarkably reduced, but remains noticeable ( approximately 0.1 eV), when a short pi-stacking styrene wire is cut from an infinitely long wire and sandwiched between metal electrodes. We find that the styrene chain's HOMO and lowest unoccupied molecular orbital (LUMO) states are not separated from Si, indicating that it does not work as a wire. By substituting -NO2 or -NH2 for the top -H of styrene, we are able to shift the position of the HOMO and LUMO with respect to the Fermi level. More importantly, we find that the HOMO of styrene-NH2 falls into the band gap of the substrate and is localized in the pi-stacking chain, which is what we need for a wire to be electrically separated from the substrate. The conductance of such an assembly is comparable to that of Au/benzene dithiolate/Au wire based on chemical bonding, and its tunability makes it a promising system for a molecular device.     

Manipulating the electronic structures of silicon carbide nanotubes by selected hydrogenation

We show that the electronic and atomic structures of silicon carbide nanotubes (SiCNTs) undergo dramatic changes with hydrogenation from first-principles calculations based on density-functional theory. The exo-hydrogenation of a single C atom results in acceptor states close to the highest occupied valence band of pristine SiCNT, whereas donor states close to the lowest unoccupied conduction band appear as a Si atom being hydrogenated. Upon fully hydrogenating Si atoms, (8,0) and (6,6) SiCNTs become metallic with very high density of states at the Fermi level. The full hydrogenation of C atoms, on the other hand, increases the band gap to 2.6 eV for (8,0) SiCNT and decreases the band gap to 1.47 eV for (6,6) SiCNT, respectively. The band gap of SiCNTs can also be greatly increased through the hydrogenation of all the atoms.     

Very-low-lying electronic states result from n --> pi excitations in open-shell annulenes, annelated with alpha-dicarbonyl groups

UB3LYP/6-31G* calculations find that alpha-dicarbonyl-annelated cyclopentadienyl radical 1 has a sigma ground state, which is formed by excitation of an electron from the in-phase combination of carbonyl lone-pair orbitals into the singly occupied pi orbital. Similarly, tetrakis-annelated cyclooctatetraene 3 is calculated to have very-low-lying singlet and triplet excited states, which result from excitations of electrons from the b1g combination of lone pair orbitals into the empty pi nonbonding MO of the COT ring.     

Conical and glancing Jahn-Teller intersections in the cyclic trinitrogen cation

The ground and electronically excited states of cyclic N(3) (+) are characterized at the equilibrium D(3h) geometry and along the Jahn-Teller distortions. Lowest excited states are derived from single excitations from the doubly degenerate highest occupied molecular orbitals (HOMOs) to the doubly degenerate lowest unoccupied molecular orbitals (LUMOs), which give rise to two exactly and two nearly degenerate states. The interaction of two degenerate states with two other states eliminates linear terms and results in a glancing rather than conical Jahn-Teller intersection. HOMO-2-->LUMOs excitations give rise to two regular Jahn-Teller states. Optimized structures, vertical and adiabatic excitation energies, frequencies, and ionization potential (IP) are presented. IP is estimated to be 10.595 eV, in agreement with recent experiments.     

Two-photon photoemission spectroscopy study of 1,3-butadiene on Cu(111): electronic structures and excitation mechanism

The characteristics of 1,3-butadiene (C(4)H(6)) adsorbed on Cu(111) were investigated with temperature-programmed desorption (TPD) and two-photon photoemission spectroscopy (2PPE). Dosed at 90 K, the work function drops by 0.4 eV and TPD provides no evidence for dissociation, but there are four coverage-dependent local maxima located at 195, 135, 121, and 115 K. From the 2PPE spectra, three unoccupied electronic states of the C(4)H(6)-Cu(111) system were identified: the LUMO (pi(1)*, 2a(u)), LUMO + 1 (pi(2)*, 2b(g)), and LUMO + 2 (sigma*, 7b(u)), lying 1.3, 3.4, and 4.8 eV above the Fermi level, respectively. Although the excitation mechanisms for the LUMO and LUMO + 1 are substrate mediated, the excitation of the LUMO + 2 is attributed to intramolecular excitation.     

Spectroscopic analysis of small organic molecules: a comprehensive near-edge x-ray-absorption fine-structure study of C6-ring-containing molecules

We report high-resolution C 1s near-edge x-ray-absorption fine-structure (NEXAFS) spectra of the C6-ring-containing molecules benzene (C6H6), 1,3- and 1,4-cyclohexadiene (C6H8), cyclohexene (C6H10), cyclohexane (C6H12), styrene (C8H8), and ethylbenzene (C8H10) which allow us to examine the gradual development of delocalization of the corresponding pi electron systems. Due to the high experimental resolution, vibrational progressions can be partly resolved in the spectra. The experimental spectra are compared with theoretical NEXAFS spectra obtained from density-functional theory calculations where electronic final-state relaxation is accounted for. The comparison yields very good agreement between theoretical spectra and experimental results. In all cases, the spectra can be described by excitations to pi*- and sigma*-type final-state orbitals with valence character, while final-state orbitals of Rydberg character make only minor contributions. The lowest C 1s-->1pi* excitation energy is found to agree in the (experimental and theoretical) spectra of all molecules except for 1,3-cyclohexadiene (C6H8) where an energy smaller by about 0.6 eV is obtained. The theoretical analysis can explain this result by different binding properties of this molecule compared to the others.     

Photoemission and near-edge X-ray absorption fine structure studies of the bacterial surface protein layer of Bacillus sphaericus NCTC 9602

The electronic structure of the regular, two-dimensional bacterial surface protein layer of Bacillus sphaericus NCTC 9602 has been examined by photoemission (PE) and near-edge X-ray absorption fine structure (NEXAFS) spectroscopy. Both the O 1s and the N 1s core-level PE spectra show a single structure, whereas the C 1s core-level spectrum appears manifold, suggesting similar chemical states for each oxygen atom and also for each nitrogen atom, while carbon atoms exhibit a range of chemical environments in the different functional groups of the amino acids. This result is supported by the element-specific NEXAFS spectra of the unoccupied valence electronic states, which exhibit a series of characteristic NEXAFS peaks that can be assigned to particular molecular orbitals of the amino acids by applying a phenomenological building-block model. The relative contributions of the C-O, C-N, and C-C bond originating signals into the C 1s PE spectrum are in good agreement with the number ratios of the corresponding bonds calculated from the known primary structure of the bacterial surface protein. First interpretation of the PE spectrum of the occupied valence states is achieved on the basis of electronic density-of-states calculations performed for small peptides. It was found that mainly the pi clouds of the aromatic rings contribute to both the lowest unoccupied and the highest occupied molecular orbitals.     

Local chemical reaction of benzene on Cu110 via STM-induced excitation

We have investigated the mechanism of the chemical reaction of the benzene molecule adsorbed on Cu(110) surface induced by the injection of tunneling electrons using scanning tunneling microscopy (STM). With the dosing of tunneling electrons of the energy 2-5 eV from the STM tip to the molecule, we have detected the increase of the height of the benzene molecule by 40% in the STM image and the appearance of the vibration feature of the nu(C-H) mode in the inelastic tunneling spectroscopy (IETS) spectrum. It can be understood with a model in which the dissociation of C-H bonds occurs in a benzene molecule that induces a bonding geometry change from flat-lying to up-right configuration, which follows the story of the report of Lauhon and Ho on the STM-induced change of benzene on the Cu(100) surface. [L. J. Lauhon and W. Ho, J. Phys. Chem. A 104, 2463 (2000)]. The reaction probability shows a sharp rise at the sample bias voltage at 2.4 V, which saturates at 3.0 V, which is followed by another sharp rise at the voltage of 4.3 V. No increase of the reaction yield is observed for the negative sample voltage up to 5 eV. In the case of a fully deuterated benzene molecule, it shows the onset at the same energy of 2.4 eV, but the reaction probability is 10(3) smaller than the case of the normal benzene molecule. We propose a model in which the dehydrogenation of the benzene molecule is induced by the formation of the temporal negative ion due to the trapping of the electrons at the unoccupied resonant states formed by the pi orbitals. The existence of the resonant level close to the Fermi level ( approximately 2.4 eV) and multiple levels in less than approximately 5 eV from the Fermi level, indicates a fairly strong interaction of the Cu-pi(*) state of the benzene molecule. We estimated that the large isotope effect of approximately 10(3) can be accounted for with the Menzel-Gomer-Redhead (MGR) model with an assumption of a shallow potential curve for the excited state.     

Core-shell photoabsorption and photoelectron spectra of gas-phase pentacene: experiment and theory

The C K-edge photoabsorption and 1s core-level photoemission of pentacene (C22H14) free molecules are experimentally measured, and calculated by self-consistent-field and static-exchange approximation ab initio methods. Six nonequivalent C atoms present in the molecule contribute to the C 1s photoemission spectrum. The complex near-edge structures of the carbon K-edge absorption spectrum present two main groups of discrete transitions between 283 and 288 eV photon energy, due to absorption to pi* virtual orbitals, and broader structures at higher energy, involving sigma* virtual orbitals. The sharp absorption structures to the pi* empty orbitals lay well below the thresholds for the C 1s ionizations, caused by strong excitonic and localization effects. We can definitely explain the C K-edge absorption spectrum as due to both final (virtual) and initial (core) orbital effects, mainly involving excitations to the two lowest-unoccupied molecular orbitals of pi* symmetry, from the six chemically shifted C 1s core orbitals.     

Electron affinity levels of benzene and azabenzenes on Cu(111) and Au(110) revealed by inverse photoemission

We have studied the first two unoccupied molecular orbitals of benzene and s-triazine and the three lowest π levels of pyridine and pyrazine adsorbed on Cu(111) and Au(110) using inverse photoemission. We have found a close one-to-one correspondence for the affinity levels in the gas phase and after adsorption onto the metallic substrates with the adsorbates exhibiting a uniform Coulomb relaxation of about 1 eV. While the lowest affinity orbitals of pyridine, pyrazine and s-triazine are observed between 2.2 and 3.7 eV above the Fermi level E_F the e_2u orbital of benzene has been found at 4.6 eV on Cu(111) and at 4.8 eV on Au(110).     

Relevance of pi sigma* states in the photoinduced processes of adenine, adenine dimer, and adenine-water complexes

Ab initio calculations and time-resolved photoionization spectroscopy were carried out to characterize the role of the lowest two pi sigma* excited states for the photoinduced processes in the adenine monomer, adenine dimer, and adenine-water clusters. The calculations show--with respect to the monomer--a stabilization of 0.11-0.14 eV for the pi sigma* states in different isomers of adenine dimer and an even bigger stabilization of 0.14-0.36 eV for isomers of adenine-(H2O)1 and adenine-(H2O)3. Hence, the stabilized pi sigma* states should play an important role in the excited-state relaxation of partially or fully solvated adenine. This conclusion is supported by experimental results: In the adenine monomer, strong n pi* state signals are observed. Those signals are reduced in adenine dimer and vanish in water clusters due to the competing relaxation via the pi sigma* states.     

DFT studies on the magnetic exchange across the cyanide bridge

Exchange coupling across the cyanide bridge in a series of novel cyanometalate complexes with CuII-NC-MIII (M = Cr and low-spin Mn, Fe) fragments has been studied using the broken-symmetry DFT approach and an empirical model, which allows us to relate the exchange coupling constant with sigma-, pi-, and pi*-type spin densities of the CN- bridging ligand. Ferromagnetic exchange is found to be dominated by pi-delocalization via the CN- pi pathway, whereas spin polarization with participation of sigma orbitals (in examples, where the dz2 orbital of MIII is empty) and pi* orbitals of CN- yields negative spin occupations in these orbitals, and reduces the CuII-MIII exchange coupling constant. When the dz2 orbital of MIII is singly occupied, an additional positive spin density appears in the sigma(CN) orbital and leads to an increase of the ferromagnetic Cu-NC-M exchange constant. For low-spin [MIII(CN)6]3- complexes, the dz2 orbital occupancy results in high-spin metastable excited states, and this offers interesting aspects for applications in the area of molecular photomagnetism. The DFT values of the exchange coupling parameters resulting from different occupations of the t2g orbitals of low-spin (t2g5) FeIII are used to discuss the effect of spin-orbit coupling on the isotropic and anisotropic exchange coupling in linear Cu-NC-Fe pairs.     

Uncovering transport properties of 4,4'-bipyridine/gold molecular nanobridges

Here, the fascinating connection between the chemical and the transport properties of recently fabricated 4,4'-bipyridine/gold nanobridges is addressed. By means of first-principles ab initio calculations, the remarkable reproducibility of the 4,4'-bipyridine conductance properties is explained as the combined result of (i) the bonding of the molecule to the metallic leads through hybridization between the 4,4'-bipyridine highest occupied molecular orbitals and lowest unoccupied molecular orbitals (LUMOs) with s and d orbitals at low-coordination gold atoms, (ii) the limited number of molecule-lead arrangements due to gold-hydrogen steric repulsions, and (iii) the electron transmission through a LUMO-derived resonance, whose positioning with respect to the Fermi level determines which of the above arrangements yields nonnegligible conductance. Structural and electronic interpretations to the stepped dependence reported for the electronic transport of 4,4'-bipyridine as a function of the distance between the gold tips are also given.     

Theoretical Study on the Structural and Electronic Properties of Thiocarbamide Hydrochloride

In the present paper, the electronic band structure, density of states （DOS）, and projected density of states （PDOS） analysis of thiocarbamide hydrochloride are reported. Calculations of the electronic properties have been carried out on the basis of fully self-consistent pseudopotential method using DFT. The results show that near the Fermi level, more prominent densities of states are seen between -8 eV and -6 eV in the valence band mainly due to the Cl-3p, N-2p and S-3p orbitals.