Supramolecular staircase via self-assembly of disklike molecules at the solid-liquid interface.

A series of soluble hexabenzocoronene (HBC) derivatives with pendant optically active (S)-3,7-dimethyloctanyl and (R,S)-3,7-dimethyloctanyl (mixture of stereoisomers) hydrocarbon side chains with and without a phenylene spacer were assembled into differently ordered arrays at the interface between a solution and the basal plane of highly oriented pyrolytic graphite (HOPG). Molecularly resolved scanning tunneling microscopy (STM) images revealed that all derivatives self-assemble into oriented crystals in quasi-two dimensions. However, while for the alkyl-substituted HBCs (1,4) all of the single aromatic cores within a monolayer exhibit the same contrast in the STM, the single aromatic cores with a phenylene group between the alkyl side chains and the aromatic core (2a,2b,3) exhibit different contrasts within a monolayer. For the disks carrying racemic branched or n-alkyl side chains (2b,3) a random distribution of the two different contrasts within the 2D-crystal is observed, while the optically active phenylene-alkyl-substituted HBC (2a) exhibits a periodical distribution of three contrasts within the monolayer. We attribute the different contrasts of the aromatic cores in the presence of the phenylene groups to a loss of the planarity of the whole molecule and different conformations, which allow the conjugated disks to attain different equilibrium positions above the surface of HOPG. In the case of the optically active side chains a regular superstructure with three distinctly different positions such as in a staircase is attained. The self-assembly processes are governed by the interplay of intramolecular as well as intermolecular and interfacial interactions. In the present case, the interactions may induce both the molecules to acquire well distinct positions along the z axis and to adopt different conformations. The reported results open new avenues of exploration. For instance, the different couplings of conjugated molecules with the substrate at different separations can be investigated by means of scanning tunneling spectroscopy (STS). Furthermore, experiments on the STM tip-induced switching of single molecules embedded in a monolayer appear feasible.     

β-联碳酰基类衍生物有序自组装膜的STM研究

在大气条件下, 利用扫描隧道显微镜研究了四个β-联碳酰基类衍生物在高定向裂解石墨(HOPG)表面的自组装结构. 研究分子的结构中均包含π电子共轭体系和烷基链. 实验研究了分子结构对自组装结构的影响, 并利用分子结构的变化实现了自组装膜结构的调控. 结果表明, 在甲苯溶剂中制备的这些自组装结构均长程有序, 分子间氢键和偶极相互作用是影响自组装膜结构变化的重要因素.     

Scanning tunneling microscopy of prochiral anthracene derivatives on graphite: chain length effects on monolayer morphology

The morphology of monolayers formed upon adsorption of prochiral 1,5-substituted anthracene derivatives on highly oriented pyrolytic graphite is investigated using scanning tunneling microscopy at the liquid-solid interface. The adsorption orientation of these prochiral anthracene derivatives positions one of their enantiotopic faces in contact with the graphite. The molecules adsorb in rows with contact between adjacent anthracenes. The anthracene side chains extend perpendicular to the direction of the row repeat. All molecules within a single row adsorb via the same enantiotopic face. Anthracenes with side chains containing an even number of non-hydrogenic atoms (C, S) form monolayers in which molecules in adjacent rows adsorb via opposite enantiotopic faces. Anthracenes with side chains that contain an odd number of non-hydrogenic atoms form two-dimensional chiral domains in which all rows contain molecules adsorbed via the same enantiotopic face. This chain length effect on monolayer morphology represents a generalized example of structural effects previously observed in alkanoic acid monolayers formed on HOPG. The variation of the STM current with position in the vicinity of the anthracenes indicates that the highest occupied molecular orbital is the predominant mediator of tunneling for the aromatic group.     

Two-dimensional porous molecular networks of dehydrobenzo[12]annulene derivatives via alkyl chain interdigitation

The self-assembly of a series of hexadehydrotribenzo[12]annulene (DBA) derivatives has been scrutinized by scanning tunneling microscopy (STM) at the liquid-solid interface. First, the influence of core symmetry on the network structure was investigated by comparing the two-dimensional (2D) ordering of rhombic bisDBA 1a and triangular DBA 2a (Figure 1). BisDBA 1a forms a Kagomé network upon physisorption from 1,2,4-trichlorobenzene (TCB) onto highly oriented pyrolytic graphite (HOPG). Under similar experimental conditions, DBA 2a shows the formation of a honeycomb network. The core symmetry and location of alkyl substituents determine the network structure. The most remarkable feature of the DBA networks is the interdigitation of the nonpolar alkyl chains: they connect the pi-conjugated cores and direct their orientation. As a result, 2D open networks with voids are formed. Second, the effect of alkyl chain length on the structure of DBA patterns was investigated. Upon increasing the length of the alkyl chains (DBAs 3c-e) a transition from honeycomb networks to linear networks was observed in TCB, an observation attributed to stronger molecule-substrate interactions. Third, the effect of solvent on the structure of the nonpolar DBA networks was investigated in four different solvents: TCB as a polar aromatic solvent, 1-phenyloctane as a solvent having both aromatic and aliphatic moieties, n-tetradecane as an aliphatic solvent, and octanoic acid as a polar alkylated solvent. The solvent dramatically changes the structure of the DBA networks. The solvent effects are discussed in terms of factors that influence the mobility of molecules at the liquid-solid interface such as solvation.     

Self-assembly of [Et,Et]-bacteriochlorophyll cF on highly oriented pyrolytic graphite revealed by scanning tunneling microscopy

The chlorosomal light-harvesting antennae of green phototrophic bacteria consist of large supramolecular aggregates of bacteriochlorophyll c (BChl c). The supramolecular structure of (3(1)-R/S)-BChl c on highly oriented pyrolytic graphite (HOPG) and molybdenum disulfide (MoS2) has been investigated by scanning tunneling microscopy (STM). On MoS2, we observed single BChl c molecules, dimers or tetramers, depending on the polarity of the solvent. On HOPG, we observed extensive self-assembly of the dimers and tetramers. We propose C=O...H-O...Mg bonding networks for the observed dimer chains, in agreement with former ultraviolet-visible and infrared spectroscopic work. The BChl c moieties in the tetramers are probably linked by four C=O...H-O hydrogen bonds to form a circle and further stabilized by Mg...O-H bondings to underlying BChl c layers. The tetramers form highly ordered, distinct chains and extended two-dimensional networks. We investigated semisynthetic chlorins for comparison by STM but observed that only BChl c self-assembles to well-structured large aggregates on HOPG. The results on the synthetic chlorins support our structure proposition.     

Graphene功能分子在HOPG上自组装结构的密度泛函研究

Graphene自组装超分子结构,是指FTBC-Cn(n=4,6,8,12)分子有序自组装在高定向裂解石墨(HOPG)上形成的自组装超分子结构,是一种新型二维固体表面材料.其中FTBC-Cn分子是由三角形扶手椅型graphene每边添加2条含有n(n=4,6,8,12)个C原子的烷基链所形成具有曲面结构的一种分子.采用...     

Synthesis, aggregation, and adsorption phenomena of shape-persistent macrocycles with extraannular polyalkyl substituents

The synthesis of shape-persistent macrocycles based on the phenyl-ethynyl backbone containing various extraannular alkyl side chains is described. Although compound solubility increases with increasing size of the side groups, decreasing the solvent polarity induces aggregation of the rings by nonspecific interactions. This was investigated by proton NMR spectroscopy. The magnitude of aggregation can be varied by using solvent mixtures of different hexane content, supporting the model of a solvophobic effect. From 1,2,4-trichlorobenzene solution the macrocycle 1c adsorbs at the surface of highly oriented pyrolitic graphite (HOPG). The two-dimensional order of the structure was investigated by scanning tunneling microscopy (STM) revealing the formation of a two-dimensional lattice of p1(2)mm symmetry with lattice parameters A = 3.6 nm, B = 5.7 nm, and Gamma = 74 degrees.     

取代烷基侧链长度对二维纳米结构的影响

合成了一系列烷基取代的间苯三酚衍生物,并在大气条件下用扫描隧道显微镜研究了它们在高定向裂解石墨表面的吸附和组装行为.实验结果表明,这些自组装分子具有条状结构特征.在链长较短的分子图像中,两条平行的烷氧基链肩并肩地排列在苯环的一侧,另一条烷氧基链则排列在苯环的另一侧,链与链之间彼此相互交错排列形成均一的烷基条带.当链长增加时,这种高稳定性和密排结构遭到破坏,出现单个分子和分子对共存的组装结构.这是由于烷基链与烷基链之间以及烷基链与基底之间的作用力共同决定的.通过调控分子烷基链的长度可以得到不同的表面二维纳米结构.     

Growth of palladium nanoparticles on nanostructured highly ordered pyrolytic graphite

We report on the growth of palladium nanoparticles on the basal plane of as‐cleaved highly oriented pyrolytic graphite (HOPG) samples, and on CO₂ ion sputtered nanostructured HOPG surfaces. The morphology of Pd nanostructures grown at room temperature is investigated by scanning tunneling microscopy (STM). The STM observations indicate that the morphology of the Pd films is strongly dependent on the HOPG surface. Stabilized Pd particles only form on the sputtered surface, while ramified Pd particles decorate the clean HOPG terraces. The prestructuring of HOPG surface leads to a selective location of particles at the rim of the nanopits generated by the CO₂ ion sputtering and annealing of the surface. The correlation between size, form, density, spatial distribution of the Pd nanoparticles and the quantity of metal added on surface is discussed. We also describe trench channeling of graphite or graphene basal planes by means of Pd nanoparticles in an ambient environment. Copyright © 2014 John Wiley & Sons, Ltd.     

Tetradecylferrocene: ordered molecular array of an organometallic amphiphile in the crystal and in a two-dimensional assembled structure on a surface

Tetradecylferrocene (4, Fc-(CH2)13CH3) was synthesized via lithiation of ferrocene by treatment with tert-butyl lithium, followed by alkylation with 1-bromotetradecane. Complex 4 forms a physisorbed ordered molecular monolayer on the surface of highly oriented pyrolytic graphite (HOPG) that was analyzed by scanning tunneling microscopy (STM). It features a lamellar structure with single rows of ferrocenyl moieties separating connecting areas formed by the long alkyl chains which are arranged parallel to each other. The ordering principle of 4 on the surface can be related to the arrangement of Fc-(CH2)13CH3 molecules in the three-dimensional crystal lattice.     

Two‐ and Three‐Dimensional Molecular Organization of Schiff‐Base Derivatives

We have designed and synthesized a series of Schiff base derivatives, and studied their structural features in two‐dimensional (2D) and three‐dimensional (3D) states by combining scanning tunneling microscopy (STM) and X‐ray diffraction experiments. The Schiff‐base derivatives with short alkyl chains crystallize easily, which allows a detailed structural analysis by X‐ray diffraction. Due to the strong adsorbate–substrate interactions, those bases with long alkyl chains easily form 2D assemblies on highly oriented pyrolytic graphite (HOPG). The STM images indicate also that the introduction of two methoxy groups into the molecule can change the structure of these 2D assemblies as a result of the increased steric hindrances, for example: the Schiff‐base derivative, bearing both methoxy groups and C₁₆H₃₃ tails, forms 2D Moiré patterns, and an alignment of pairing Schiff‐base molecules may be easily resolved. Conversely, the Schiff base derivative, bearing solely C₁₆H₃₃ tails, forms 2D non‐Moiré patterns. It is demonstrated that the 3D structural features result from the compromise of intermolecular interactions of different molecular moieties. However, there is one more factor, which also governs the 2D structure: the adsorbate‐substrate interaction. The 3D crystal structure may thus help to understand many factors involved in the formation of 2D structures, and would be helpful for designing new molecular assemblies with tailoring functions.     

高氯酸根阴离子在HOPG中嵌入行为的EC-STM研究

运用电化学扫描隧道显微镜（EC-STM）和循环伏安（CV）技术对高氯酸根阴离子ClO₄^-在高序热解石墨（HOPG）中的电化学嵌入行为进行了研究. 通过观察嵌入前后石墨台阶处高度的变化,比较了不同高度的台阶对嵌入的影响,讨论了ClO₄^-离子嵌入石墨的可行性、可逆性和嵌入速率. 研究表明,3层以上的台阶位才有可能观察到由四阶和三阶嵌入引起的台阶高度变化,4 ~ 8个原子层高度的石墨台阶可以实现ClO₄^-在台阶处较为可逆的四阶嵌入,但1 ~ 2层台阶处无法观察到嵌入引起的台阶高度变化,嵌入反应通常会伴随台阶的剥离和脱落现象. 四阶的嵌入反应较三阶可逆,二阶和一阶时,嵌入所需反应电势较高,此时氧化反应较为剧烈,嵌入反应被掩盖,很难观察到台阶高度的变化,更多的形貌变化是台面和台阶处不可逆的损坏如剥落、断层、黑坑等.     

High Resolution Scanning Tunneling Microscopy of a 1D Coordination Polymer with Imidazole‐Based N,N,O Ligands on HOPG

Novel κ³‐N,N,O ligands tend to form 1D coordination polymer strands. Deposition of 1D structures on highly oriented pyrolytic graphite (HOPG) was achieved from diluted solutions and polymer strands have been studied on HOPG by AFM/STM. Single strands were mapped by STM and their electronic properties were subsequently characterized by current imaging tunneling spectroscopy (CITS). Periodic density functional calculations simulating a polymer strand deposited on a HOPG surface are in agreement with the zig‐zag structure indicated by experimental findings. Both the observed periodicity and the Zn–Zn distances can be reproduced in the simulations. Van der Waals interactions were found to play a major role for the geometry of the isolated polymer strand, for the adsorption geometry on HOPG, as well as for the adsorption energy.     

Molecular architecture of oligothiophene on a highly oriented pyrolytic graphite surface by employing hydrogen bondings

To achieve a controllable and predictable molecular architecture on a two-dimensional (2D) surface, a series of oligothiophenes with carboxylic groups and alkane chains were synthesized. The alkane chains and carboxylic groups, which can form hydrogen bonding, were intentionally designed in different positions of the oligothiophenes. The resulted molecular architectures by using the so-prepared oligothiophenes on a highly oriented pyrolytic graphite (HOPG) surface were investigated by scanning tunneling microscopy (STM) and density functional theory (DFT). It is found that the hydrogen bonding plays an essential role in the formation of the ordered assemblies. A controlled 2D molecular assembly could be fabricated by using hydrogen bondings.     

Atomic structure of highly ordered pyrolytic graphite doped with boron

Boron-doped carbon was prepared by the high-temperature reaction of B₂O₃ with the highly ordered pyrolytic graphite (HOPG). In order to reveal the effect of the boron doping on the HOPG structure, several experimental tools were employed such as X-ray photoelectron spectroscopy (XPS), X-ray diffraction (XRD), scanning tunneling microscopy (STM), and atomic force microscopy (AFM). While the interlayer spacing of the graphite plane remains virtually unchanged, the boron doping makes the graphite plane of HOPG more disordered. Both the STM and the AFM studies show that the boron-doped HOPG surface is deformed not only in its bonding geometry, but also in its electronic structure. The overall results imply that the boron atom is substituted for the carbon atom rather than is intercalated into the graphite layers.     

枝状分子表面组装结构的形成与结构转变

本文是对近期有关枝状分子在石墨表面吸附组装研究的综述.利用扫描隧道显微技术,系统研究了5-甲氧基间苯二酸类枝状分子在石墨表面组装结构的形成及结构转变,发现虽然该类枝状分子大都可以在石墨表面自发有序组装,但是最终形成的组装结构不仅与分子本身结构例如烷基链的数目有关,与分子浓度有关,还与所用溶剂有关.分子浓度和溶剂的变化,影响组装体系内的相互作用力如分子与基底间的作用力、分子间氢键的作用力等,影响分子迁移和结构转变的动力学过程,从而影响枝状分子组装的最终结构.研究揭示了特定体系中枝状分子组装结构与分子浓度、所用溶剂的定量和定性关系.研究结果有助于认识和掌握枝状分子组装规律,进而可以通过改变相关技术参数,调控得到不同的枝状分子表面组装体,为实现可控构筑分子表面组装结构提供了新的思路.     

Self-assembly of patterned monolayers with nanometer features: molecular selection based on dipole interactions and chain length

Patterned cocrystal monolayers self-assemble on HOPG in contact with solutions containing complementary pairs of 1,5-chain-substituted anthracene derivatives. Monolayer unit cells containing three or four molecules and spanning 9-11 nm are generated. The monolayers consist of alternating aromatic and aliphatic columns. The designs and dimensions of the cocrystal patterns (unit cells) are determined by (i) the preferred packing alignment of identical length side chains, (ii) the selectivity of each side chain for neighboring chains, (iii) the identities of the two side chains on each anthracene, and (iv) the 2D-chirality of 1,5-substituted anthracenes. The aliphatic columns form by interdigitation of identical length side chains arrayed in an antiparallel alignment, with the nth heavy atom of one side chain in registration with the (omega+2-n)th heavy atom of two adjacent chains ((omega <--> 2) packing). Adjacent side chains are attached, alternately, to anthracenes in one of the two flanking aromatic columns. The preference for (omega <--> 2) packing optimizes side-chain van der Waals interactions. The composition and fidelity of patterning in the cocrystal monolayers requires an additional source of "molecular recognition" in addition to side-chain length. Dipolar interactions, both attractive and repulsive, between ether groups in neighboring, (omega <--> 2) packed side chains, constitute a second recognition element needed for cocrystal self-assembly.     

In situ electrochemical scanning tunnelling microscopy investigation of structure for horseradish peroxidase and its electricatalytic property

Immobilization of protein molecules is a fundamental problem for scanning tunnelling microscopy (STM) measurements with high resolution. In this paper, an electrochemical method has been proved to be an effective way to fix native horseradish peroxidase (HRP) as well as inactivated HRP from electrolyte onto a highly oriented pyrolytic graphite (HOPG) surface. This preparation is suitable for both ex situ and in situ electrochemical STM (ECSTM) measurements. In situ STM has been successfully employed to observe totally different structures of HRP in three typical cases: (1) in situ ECSTM reveals an oval-shaped pattern for a single molecule in neutral buffer solution, which is in good agreement with the dimension determined as 6.2×4.3×1.2. nm³ by ex situ STM for native HRP; (2) in situ ECSTM shows that the adsorbed HRP molecules on HOPG in a denatured environment exhibit swelling globes at the beginning and then change into a V-shaped pattern after 30 min; (3) in situ ECSTM reveals a black hole in every ellipsoidal sphere for inactivated HRP in strong alkali solution. The cyclic voltammetry results indicate that the absorbed native HRP can directly catalyse the reduction of hydrogen peroxide, demonstrating that a direct electron transfer reduction occurred between the enzyme and HOPG electrode, whereas the corresponding cyclic voltammograms for denatured HRP and inactivated HRP adsorbed on HOPG electrodes indicate a lack of ability to catalyse H₂O₂ reduction, which confirms that the HRP molecules lost their biological activity. Obviously, electrochemical results powerfully support in situ STM observations.     

Ordered arrays of organometallic iridium complexes with long alkyl chains on graphite

Iridium(III) fac-tris(2-phenylpyridine) fac-[Ir(ppy)3] complexes equipped with long alkyl chains were prepared to examine their capability to form organized arrays on the surface of highly oriented pyrolytic graphite (HOPG). The molecules form lamellar arrays at the 1-phenyloctane/HOPG interface. From the analysis of the STM images, it was concluded that the molecules align with alkyl chains being interdigitated. Similar lamellar arrays were also obtained at the air/HOPG interface upon drop-casting of toluene solutions. The lamellar structure at the molecular level leads to rectangular two-dimensional crystalline domains a few hundred nanometers long (nanoslips). Infrared external reflection spectroscopy suggested that the adsorbed alkyl chains adopt the trans-zigzag conformation in the nanoslip, although the orientations of the zigzag plane of the alkyl groups are mixed. Cyclic voltammetry indicates fast electron transfer between the adsorbed molecules and the substrate and significant intermolecular electronic interactions. It was found that annealing at high temperatures is an effective method to prepare ordered assemblies more than a few micrometer scale (microslips). The orientations of the nanoslips prepared from the racemic mixture exhibited an apparent 12-fold symmetry, while its optically active enantiomer resulted in more irregular domains with a six-fold symmetry, implying an important role of chirality on packing at the molecular level and on the orientation of the domains at larger scales. When drop-cast from more concentrated solutions than a few hundreds of micromolar, multilayers were obtained, in which the alkyl chains in the molecules are more or less perpendicular to the surface. This structure can be transformed into the nanoslips upon standing.     

Some Unusual Features of Highly Oriented Pyrolytic Graphite Observed by Electrochemical Scanning Tunneling Microscopy

HOPGisoneofthemostcommonlyusedsubstratesinSTMforitiseasilycleavedtoalargeatondcallyflatareaonthebasalplane.ExceptforO.246nmperiodicityrelatedregularatomicstructure,thedefectsandothervarious5e,t,,,,nativetothebasa1planeofHOPGcancoverasmuchasl-lO%ofthesurface.'Ofthesefeatures,stepsarethe'mostconunonlyobserved.'ThewidespreaduseofthissubstratehasledtothediscoveryofsomecrystalimperfectionsnativetothebasalplaneofHOPG',includingstackingfaults,graphitestrandsandfibers,brokenorflakedIayersandsup…