Mapping the first electronic resonances of a Cu phthalocyanine STM tunnel junction

Using a low temperature, ultrahigh vacuum scanning tunneling microscope (STM), dI/dV differential conductance maps were recorded at the tunneling resonance energies for a single Cu phthalocyanine molecule adsorbed on an Au(111) surface. We demonstrated that, contrary to the common assumption, such maps are not representative of the molecular orbital spatial expansion, but rather result from their complex superposition captured by the STM tip apex with a superposition weight which generally does not correspond to the native weight used in the standard Slater determinant basis set. Changes in the molecule conformation on the Au(111) surface further obscure the identification between dI/dV conductance maps and the native molecular orbital electronic probability distribution in space.     

Scanning tunneling microscopy observation of copper-phthalocyanine molecules on Si(100) and Si(111) surfaces

Molecules of Cu-phthalocyanine (CuPc) deposited on Si(100) and Si(111) surfaces have been observed by an ultra high vacuum field ion scanning tunneling microscope (FI-STM). On a Si(100) surface, STM images with four-fold symmetry are observed, which reflect the shape of the CuPc molecule. The STM pictures show that CuPc molecules are deposited with the molecular plane parallel to the substrate surface and have three kinds of adsorption configurations on the dimer-row of Si(100). The images of the CuPc are modified by the electronic state of the Si(100) surface. This behavior suggests strong interaction between the molecule and the substrate. The molecular images on the Si(111) surface have a unique bias-voltage dependence. At a sample bias of 1.6 V, the molecule looks transparent by STM, and becomes dark like a vacancy at 1.2 V. From the bias dependence, the electronic interaction between the CuPc molecule and the Si surface is discussed.     

室温下单个甘氨酸分子在Cu(111)表面的操纵研究

先用低能电子衍射(LEED)证明了甘氨酸(NH₂-CH₂-COOH)能在室温下在Cu单晶表面产生比较稳定的吸附，然后用扫描隧道显微镜(STM)进一步研究了其吸附情况，看到单个甘氨酸分子在Cu(111)面上吸附稳定并至少有三种吸附状态.分子操纵研究结果表明，甘氨酸分子是被针尖“推着”移动的，它在Cu(111)面有固定的吸附位，并且移动时其吸附状态可以不变.研究结果表明，甘氨酸适合做室温下小分子的可控操纵研究，并且也说明室温下小分子的可控操纵是可能的. 关键词：     

Image potential states mediated STM imaging of cobalt phthalocyanine on NaCl/Cu(100)

The adsorption and electronic properties of isolated cobalt phthalocyanine(Co Pc) molecule on an ultrathin layer of NaCl have been investigated. High-resolution STM images give a detailed picture of the lowest unoccupied molecular orbital(LUMO) of an isolated CoPc. It is shown that the Na Cl ultrathin layer efficiently decouples the interaction of the molecules from the underneath metal substrate, which makes it an ideal substrate for studying the properties of single molecules. Moreover, strong dependence of the appearance of the molecules on the sample bias in the region of relatively high bias( 3.1 V) is ascribed to the image potential states(IPSs) of NaCl/Cu(100), which may provide us with a possible method to fabricate quantum storage devices.     

Scattering of surface state electrons at large organic molecules

The scattering of surface state electrons at Lander-type molecules on Cu(111) is investigated by means of scanning tunneling microscope (STM) experiments at low temperature and model calculations. Specific information concerning the electronic interaction of the different internal groups of the molecule with the surface is obtained. Remarkably, the central molecular wire of the molecule, although decoupled from the surface by spacer groups and therefore not visible in STM images, is the main one responsible for scattering of surface state electrons.     

Scanning tunneling microscopy and molecular orbital calculation of pentacene molecules adsorbed on the Si(100)2×1 surface

Adsorption of the organic molecule pentacene on Si(100)2×1 surfaces was imaged using scanning tunneling microscopy (STM). The molecular images exhibit distinct shapes corresponding to the expected shapes for adsorption configurations. Semi-empirical molecular orbital (MO) calculations reveal a local surface density of states for the adsorbed pentacene on the Si surface. In the cases where the pentacene molecule is adsorbed on an Si dimer row, the calculated MOs are in good agreement with the molecular images observed in STM. In the case of pentacene adsorbed on two or three Si-dimer rows, however, the MOs of the pentacene do not correlate directly with the observed STM images. It is thus considered that the STM images are produced by a combination of Si dimer states and MO.     

Probing the different stages in contacting a single molecular wire

A crucial problem in molecular electronics is the control of the electronic contact between a molecule and its electrodes. As a model system, we investigated the contact between the molecular wire group of a C90H98 (Lander) molecule and the edge of a Cu(111) monatomic step. The reproducible contact and decontact of the wire was obtained by manipulating the Lander with a low temperature scanning tunneling microscope. The electronic standing wave patterns on the Cu(111) surface serve to monitor the local electronic perturbation caused by the interaction of the wire end with the step edge, giving information on the quality of the contact.     

A density functional theory study on the adsorption of CO and O₂ on Cu-terminated Cu₂O（111） surface

The adsorptions of CO and O2 molecules individually on the stoichiometric Cu-terminated Cu2O(111) surface are investigated by first-principles calculations on the basis of the density functional theory.The calculated results indicate that the CO molecule preferably coordinates to the Cu2 site through its C atom with an adsorption energy of -1.69 eV,whereas the O2 molecule is most stably adsorbed in a tilt type with one O atom coordinating to the Cu2 site and the other O atom coordinating to the Cu1 site,and has an adsorption energy of -1.97 eV.From the analysis of density of states,it is observed that Cu 3d transfers electrons to 2π orbital of the CO molecule and the highest occupied 5σ orbital of the CO molecule transfers electrons to the substrate.The sharp band of Cu 4s is delocalized when compared to that before the CO molecule adsorption,and overlaps substantially with bands of the adsorbed CO molecule.There is a broadening of the 2π orbital of the O2 molecule because of its overlapping with the Cu 3d orbital,indicating that strong 3d-2π interactions are involved in the chemisorption of the O2 molecule on the surface.     

High-resolution molecular orbital imaging using a p-wave STM tip

Individual pentacene and naphthalocyanine molecules adsorbed on a bilayer of NaCl grown on Cu(111) were investigated by means of scanning tunneling microscopy using CO-functionalized tips. The images of the frontier molecular orbitals show an increased lateral resolution compared with those of the bare tip and reflect the modulus squared of the lateral gradient of the wave functions. The contrast is explained by tunneling through the p-wave orbitals of the CO molecule. Comparison with calculations using a Tersoff-Hamann approach, including s- and p-wave tip states, demonstrates the significant contribution of p-wave tip states.     

A density functional theory study on the adsorption of CO and O2 on Cu-terminated Cu2O （111） surface

The adsorptions of CO and 02 molecules individually on the stoichiometric Cu-terminatcd Cu20 （111） surface are investigated by first-principles calculations on the basis of the density functional theory. The calculated results indicate that the CO molecule preferably coordinates to the Cu2 site through its C atom with an adsorption energy of-1.69 eV, whereas the 02 molecule is most stably adsorbed in a tilt type with one O atom coordinating to the Cu2 site and the other O atom coordinating to the Cul site, and has an adsorption energy of -1.97 eV. From the analysis of density of states, it is observed that Cu 3d transfers electrons to 2π orbital of the CO molecule and the highest occupied 5σ orbital of the CO molecule transfers electrons to the substrate. The sharp band of Cu 4s is delocalized when compared to that before the CO molecule adsorption, and overlaps substantially with bands of the adsorbed CO molecule. There is a broadening of the 2π orbital of the 02 molecule because of its overlapping with the Cu 3d orbital, indicating that strong 3d-2π interactions are involved in the chemisorption of the 02 molecule on the surface.     

High-resolution imaging of C60 molecules using tuning-fork-based non-contact atomic force microscopy

Recent advances in non-contact atomic force microscopy (nc-AFM) have led to the possibility of achieving unprecedented resolution within molecular structures, accomplished by probing short-range repulsive interaction forces. Here we investigate C(60) molecules adsorbed on KBr(111) and Cu(111) by tuning-fork-based nc-AFM. First, measurements of C(60) deposited on KBr(001) were conducted in cryogenic conditions revealing highly resolved nc-AFM images of the self-assembly. Using constant-frequency shift mode as well as three-dimensional spectroscopic measurements, we observe that the relatively weak molecule-substrate interaction generally leads to the disruption of molecular assembled structures when the tip is probing the short-range force regime. This particular issue hindered us in resolving the chemical structure of this molecule on the KBr surface. To obtain a better anchoring of C(60) molecules, nc-AFM measurements were performed on Cu(111). Sub-molecular resolutions within the molecules was achieved which allowed a direct and unambiguous visualization of their orientations on the supporting substrate. Furthermore, three-dimensional spectroscopic measurements of simultaneous force and current have been performed above the single molecules giving information of the C(60) molecular orientation as well as its local conductivity. We further discuss the different imaging modes in nc-AFM such as constant-frequency shift nc-AFM, constant-height nc-AFM and constant-current nc-AFM as well as three-dimensional spectroscopic measurement (3D-DFS) employed to achieve such resolution at the sub-molecular scale.     

Initial stage of adsorption of octithiophene molecules on Cu(111)

The initial stage of the adsorption of octithiophene (8T) molecules on a Cu(111) surface is investigated using a scanning tunneling microscope at room temperature. We find a characteristic molecular chain structure of 8T molecules on a terrace of the Cu(111) surface, which has not been reported so far for adsorption of oligothiophene molecules on metal surfaces. Up to the adsorption of 0.26 monolayer (ML), 8T molecules in the molecular chain align with their long axis parallel to the Cu<11-2> direction. With increasing coverage, there appear 8T molecules that align with their long axis parallel to the Cu<110> direction. The appearance of different molecular orientations is understood by the decrease of the number of the adsorption sites for extending the molecular chains. Fragments of 8T molecules, such as single thiophene molecules, are also observed in this work. They are trapped only at the step edges of the Cu(111) surface at the beginning and later trapped in a small Cu(111) region surrounded by 8T molecules.     

Two-dimensional self-assembly of DNA base molecules on Cu(111) surfaces

We present scanning tunneling microscope images of the self-assembled nucleic-acid base molecules on the surfaces of Cu(111). The images reveal that the chemical inertness of the Cu(111) substrate allows the molecules to diffuse over the surface to self-assemble themselves spontaneously into their own unique structure: adenine into one-dimensional (1D) molecular chains, thymine into 2D islands, guanine into 2D square lattices, and cytosine into 1D zig-zag molecule-cluster networks. We find that molecular orbital calculations reproduce some of the observed self-assembly, and suggest that base-base interaction induced by hydrogen bonding is essential to this phenomenon.     

Contacting a single molecular wire by STM manipulation

The Lander molecule (C₉₀H₉₈) consists of a long polyaromatic molecular wire and four lateral di-tert-butyl-phenyl spacer groups, designed to maintain the molecular wire parallel above the substrate. It represents a model system for investigating the electronic contacts of a molecular wire to a nanoscale metallic electrode. In this article, some recent manipulation experiments of single Lander molecules by low temperature scanning tunneling microscopy (LT-STM) are presented. The selective adsorption of the molecule, the molecule-induced reconstruction of copper substrates, and their application to the investigation of contacts between molecules and nanostructures or between molecules are discussed. Manipulation experiments are reported, where the molecular wire part of a Lander molecule is contacted to a monoatomic step and to a two-atom-wide metallic nanostructure. The contact is characterized by the apparent height of the contact point in STM images and, in case of the Cu(111) substrate, by the perturbation observed in the electronic standing wave patterns. PACS 68.37.Ef; 72.80.Le; 68.65.La; 85.65.+h     

基于石墨烯电极的Co-Salophene分子器件的自旋输运

采用基于非平衡格林函数结合第一性原理的密度泛函理论的计算方法,研究了基于锯齿型石墨纳米带电极的Co-Salophene分子器件的自旋极化输运性质.计算结果表明,当左右电极为平行自旋结构时,自旋向上的电流明显大于自旋向下的电流,自旋向下的电流在[-1V,1V]偏压下接近零,分子器件表现出优异的自旋过滤效应.与此同时,在自旋向上电流中发现负微分电阻效应.当左右电极为反平行自旋结构时,器件表现出双自旋过滤和双自旋分子整流效应.除此之外,整个分子器件还表现出较高的巨磁阻效应.通过分析器件的自旋极化透射谱、局域态密度、电极的能带结构和分子自洽投影哈密顿量,详细解释该分子器件表现出众多特性的内在机理.研究结果对设计多功能分子器件具有重要的借鉴意义.     

Effect of the electronic structure of a substrate on the photoinduced behavior of adsorbed NO and CO molecules

Photoprocesses in systems produced by adsorption of NO and CO molecules on the Pt(111) and Ni(111) surfaces, as well as on the (111) surface of Pt-Ge alloy, is studied by the IR absorption spectroscopy, resonant multiphoton ionization, and UV photoelectron spectroscopy methods. The energy of photons varies between 2.3 and 6.4 eV. The character of the processes depends on the type of the metallic substrate. On the Pt(111) surface, NO molecules dissociate or are desorbed, depending on the degree of coverage. On the Ni(111) surface, the molecules only dissociate. Conversely, NO molecules adsorbed on the (111) surface of the Pt-Ge alloy are only desorbed from the surface. In the CO/Pt(111) and CO/Pt(111)-Ge systems, CO molecules adsorbed on on-top adsorption sites are desorbed under the action of the photons, while those occupying bridging adsorption sites change their properties insignificantly. A model of photoinduced processes is suggested. According to this model, the lifetime of a state excited by charge transfer between the valence band of the metal and the 2π-antibonding molecular orbital plays a decisive part in the occurrence of one or the other of these processes.     

Induced spin polarization of copper spin 1/2 molecular layers

Thin films of the metal organic molecule bis(4-cyano-2,2,6,6-tetramethyl-3,5-heptanedionato)copper(II) (or Cu(CNdpm)₂), (C₂₄H₃₆N₂O₄Cu, Cu(II)), deposited on ferromagnetic Co(111) at 40 K, exhibit a finite electron spin polarization. The spin polarization magnitude and sign for Cu(CNdpm)₂ deposited on Co(111) is coverage dependent, but deviates from the mean field expectations for a simple paramagnet on a ferromagnetic substrate. The spin asymmetry is seen to favor select molecular orbitals, consistent with the predicted single molecule density of states. The overlayer polarization observed indicates a strong influence of the ferromagnetic Co(111) substrate and some extra-molecular magnetic coupling.     

Reversible switching of single tin phthalocyanine molecules on the InAs(111)A surface

Individual tin phthalocyanine (SnPc) molecules adsorbed on the InAs(111)A surface were studied by low-temperature scanning tunnelling microscopy (STM) at 5?K. Consistently with the nonplanar molecular structure, SnPc adopts two in-plane adsorption geometries with the centre Sn atom either above (SnPc(up)) or below (SnPc(down)) the molecular plane. Depending on the current and bias applied to the tunnel junction, the molecule can be reversibly switched between the two conformations, implying a controlled transfer of the Sn atom through the molecular plane. The SnPc(down) conformer is characterized by an enhanced surface bonding as compared to the SnPc(up) conformer. SnPc(up) molecules can be repositioned by the STM tip by means of lateral manipulation, whereas this is not feasible for SnPc(down) molecules. The reversible switching process thus enables one to either laterally move the molecule or anchor it to the semiconductor surface.     

Orbital Kondo effect in cobalt-benzene sandwich molecules

We study a Co-benzene sandwich molecule bridging the tips of a Cu nanocontact as a realistic model of correlated molecular transport. To this end we employ a recently developed method for calculating the correlated electronic structure and transport properties of nanoscopic conductors. When the molecule is slightly compressed by the tips of the nanocontact the dynamic correlations originating from the strongly interacting Co 3d shell give rise to an orbital Kondo effect while the usual spin Kondo effect is suppressed due to Hund's rule coupling. This nontrivial Kondo effect produces a sharp and temperature-dependent Abrikosov-Suhl resonance in the spectral function at the Fermi level and a corresponding Fano line shape in the low bias conductance.     

Interaction and local magnetic moments of metal phthalocyanine and tetraphenylporphyrin molecules on noble metal surfaces

In order to understand the Kondo effect observed in molecular systems, first-principles calculations have been widely used to predict the ground state properties of molecules on metal substrates. In this work, the interaction and the local magnetic moments of magnetic molecules （3d-metal phthalocyanine and tetraphenylporphyrin molecules） on noble metal surfaces are investigated based on the density functional theory. The calculation results show that the dz2 orbital of the transition metal atom of the molecule plays a dominant role in the molecule-surface interaction and the adsorption energy exhibits a simple declining trend as the adsorption distance increases. In addition, the Au（111） surface generally has a weak interaction with the adsorbed molecule compared with the Cu（ll 1） surface and thus serves as a better candidate substrate for studying the Kondo effect. The relation between the local magnetic moment and the Coulomb interaction U is examined by carrying out the GGA＋U calculation according to Dudarev＇s scheme. We find that the Coulomb interaction is essential for estimating the local magnetic moment in molecule-surface systems, and we suggest that the reference values of parameter U are 2 eV for Fe and 2-3 eV for Co.