Scanning tunneling microscopy observations of benzene molecules on the Rh(111)-(3 x 3) (C6H6+2CO) surface

A scanning tunnelling microscopy study of the formation and chemical activation of step defects on the basal plane of pyrolytic graphite

Scanning tunnelling microscopy is used to monitor etching of the basal plane of highly orientated pyrolytic graphite by ozone, oxygen and nitric acid. These treatments are seen to produce numerous single and multilayer step defects. Subsequent modification of the graphite sheet edges flanking these cavities by cyanuric chloride, TiCl4 and other reagents is shown to activate the edges, thereby making them capable of covalently binding various molecules.

Theoretical framework for the interpretation of STM images of adsorbates

A theoretical formalism for the interpretation of STM images of adsorbates is developed by approaching the calculation of the observed current as a transport problem in quantum statistical mechanics. The STM configuration is treated as a system of three groups of states--the substrate, the adsorbate and the tip--in contact with a thermal reservoir, with which it exchanges energy. A new definition of current is introduced, and shown to be related to that given in the traditional transfer Hamiltonian approach. The transport instrument used for the description is the stochastic Liouville equation, known to have the advantage of allowing the incorporation of thermal effects as well as arbitrary degree of coherence in the quantum transport. Some preliminary calculations of STM images of simple adsorbate models are presented.

Molecules at interfaces: STM in materials and life sciences

The scanning tunneling microscope (STM) enables us, for the first time, to directly observe individual molecules both at surfaces under ultrahigh-vacuum conditions as well as at interfaces with fluids or soft solids. In suitable systems, structure and dynamics of single molecules or monomolecular layers can be investigated at a resolution down to the atomic length scale and the time scale of milliseconds. The structure of individual biopolymers and biological membranes on solid supports can be studied on the nanometer scale. Furthermore, the STM may be viewed as a tool to address individual molecules, e.g., for molecular electronics studies or the manipulation of individual molecular structures. The paper reviews selected STM results on organic conductors, as well as small organic molecules and large biopolymers, which have been chemi- or physisorbed to conducting substrates. Finally, some prospects for future work are discussed.

Two-dimensional ordering of the DNA base guanine observed by scanning tunneling microscopy

Guanine, one of the four DNA bases, has been observed by tunneling microscopy to form a two-dimensional ordered structure on two crystalline substrates, graphite and MoS2. The two-dimensional lattice formed by guanine is nearly identical on the two surfaces, and heteroepitaxy appears to be the growth mechanism in both cases. Although the resolution of molecular details is superior for the graphite substrate, the simpler results on MoS2 are not only easier to interpret but also facilitate the understanding of the more complex images on graphite. We propose that the interfacial structure is composed of linear chains of hydrogen-bonded molecules aligned into a closely packed two-dimensional array.

Commensurability and Mobility in Two-Dimensional Molecular Patterns on Graphite

Two-dimensional molecular patterns were obtained by the adsorption of long-chain alkanes, alcohols, fatty acids, and a dialkylbenzene from organic solutions onto the basal plane of graphite. In situ scanning tunneling microscopy (STM) studies revealed that these molecules organize in lamellae with the extended alkyl chains oriented parallel to a lattice axis within the basal plane of graphite. The planes of the carbon skeletons, however, can be oriented either predominantly perpendicular to or predominantly parallel with the substrate surface, causing the lamellar lattice to be either in or near registry with the substrate (alkanes and alcohols) or not in registry (fatty acids and dialkylbenzenes). In the case of the alcohols and the dialkylbenzene the molecular axes are tilted by +30 degrees or -30 degrees with respect to an axis normal to the lamella boundaries, giving rise to molecularly well-defined domain boundaries. Fast STM image recording allowed the spontaneous switch between the two tilt angles to be observed in the alcohol monolayers on a time scale of a few milliseconds.

Scanning tunneling microscopy of planar biomembranes

We combined planar membrane monolayer techniques with scanning tunneling microscopy (STM) to measure the thickness of metal-coated purple membrane (PM) isolated from Halobacterium halobium. Although the metal coating precluded obtaining high-resolution lateral information, it facilitated obtaining high-resolution vertical information. For example, the apparent mean thickness of planar PM and variations in thickness of enzyme-treated PM could be detected and quantified at sub-nanometer resolution.

Identification of the Products from the Reaction of Chlorine with the Silicon(111)-(7×7) Surface

The various products from the reaction of chlorine (Cl) with the adatom layer of the Si(111)-(7x7) surface have been identified with scanning tunneling microscopy (STM). Initially, a single Cl atom reacts with the adatom dangling bond. At higher surface coverage, additional Cl atoms insert themselves into the Si-Si backbonds between the adatom and rest-atom layers, producing adatoms that have reacted with two or three Cl atoms. These products are characterized by different registries with respect to the underlying rest layer and appear in STM images as adatoms of different sizes, consistent with the breaking of Si-Si backbonds and the formation ofnew Si-Cl bonds.

Smectic Liquid Crystal Monolayers on Graphite Observed by Scanning Tunneling Microscopy

By means of scanning tunneling microscopy, it is observed that molecules of the form n-alkylcyanobiphenyl, where n = 8 to 12, form two-dimensional crystalline domains when adsorbed onto graphite. The layer spacings measured by tunneling microscopy are 20% larger than those measured previously on bulk material by x-ray diffraction. The structure of the adsorbed molecules is quite different from that of the bulk.

Atomic Resolution Imaging of Adsorbates on Metal Surfaces in Air: Iodine Adsorption on Pt(111)

The adsorption of iodine on platinum single crystals was studied with the scanning tunneling microscope (STM) to define the limits of resolution that can be obtained while imaging in air and to set a target resolution for STM imaging of metal surfaces immersed in an electrochemical cell. Two iodine adlattice unit cells of slightly different iodine packing density were clearly imaged: ( radical7 x radical7) R19.1 degrees -I, surface coverage ø(I) = 3/7; and (3 x 3)-I, ø(I) = 4/9. The three iodine atoms in the ( radical7 x radical7) unit cell form a regular hexagonal lattice interatomic distance d(I) = 0.424 nanometer, with two atoms adsorbed in threefold hollow sites and one atom adsorbed at an atop site. The (3 x 3) unit cell showed two different packing arrangements of the four iodine atoms exit. In one of the (3 x 3) structures, the iodine atoms pack to form a hexagonal lattice, d(I) = 0.417 nanometer, with three of the iodine atoms at twofold adsorption sites and one atom at an atop site. Another packing arrangement of iodine into the (3 x 3) unit cell was imaged in which the iodine atoms are not arranged symmetrically.