Solvent-controlled 2D host-guest (2,7,12-trihexyloxytruxene/coronene) molecular nanostructures at organic liquid/solid interface investigated by scanning tunneling microscopy

Coronenes with push-pull geometries from macrocycle-forming Perkin condensations

Although the Perkin reaction has been successful in producing ester-substituted conjugated macrocycles with four or six building blocks, macrocycles composed of only two elements remained elusive until now. Through the development of a building block derived from phenanthrene with two glyoxylic acid substituents in a pincer-like arrangement, formation of a two-block macrocycle was induced when paired with a complementary phenylenediacetic acid unit. The addition of ether functions to the phenanthrene building block not only improved the yields, but led to macrocycles with push-pull geometries. Photocyclisation of the resulting cyclophanes efficiently yield tetra- and hexasubstituted coronenes.

Temperature-induced self-assembly transformation: an effective external stimulus on 2D supramolecular structures

With the development of nano-characterization technology, imaging and controlling of two-dimension (2D) self-assembled supramolecular structures on the surface have drawn increasing attention in nanoscience and technology. As an important influence...

Revealing the Influences of Solvent Boiling Point and Alkyl Chains on the Adlayer Crystallinity of Furan-Diketopyrrolopyrrole-Thienylene Copolymer at Molecular Level

Crystallinity of the polymer poly(3,6-difuran-2-yl-2,5-di(2-octyldodecyl)-pyrrolo[3,4-c]pyrrole-1,4-dione-altthieylenevinylene) (PDVF) adlayers casted from low-boiling-point (L-bp), medium-bp (M-bp), and high-bp (H-bp) solvents was investigated through scanning tunneling microscopy (STM) and analyzed by the assistance of Hansen solubility parameter (HSP) theory and molecular dynamics (MD) simulations. Crystallinity of the PDVF adlayers increases evidently from the L- to H-bp solvents. Also, the solvent with an alkyl chain such as ethylbenzene (EB) facilitates in improving the crystallinity than the one without an alkyl chain such as chlorobenzene (CB) if the solvent bp is present in the same group. The HSP space discloses that EB is a marginal solvent for PDVF in contrast to CB. Quasi-isolate PDVF in the EB solution revealed by MD simulations facilitates the formation of crystallized domains through surface assembling mechanism. However, in CB, interconnected PDVF molecules through intermolecular overlapping tend to generate amorphous structures through direct deposition of the preformed structures in solution.

Two solvent-induced variable host-guest two-dimensional binary frameworks mediated by hydrogen bonding

Two-dimensional binary hydrogen-bonded organic frameworks constructed from 1,3,5-benzenetricarboxylic acid (TMA) and 4,4'-biphenyldicarboxylic acid (BDA) on highly oriented pyrolytic graphite (HOPG) were investigated by scanning tunneling microscopy (STM) in heptanoic acid and octanoic acid solvents. High-resolution STM observations demonstrated that various assemblies of hydrogen-bonded networks are strongly dependent on the nature of the solvent. Well-ordered porous rectangular flowerlike networks were revealed at the heptanoic acid/HOPG interface, whereas two different coexisting densely packed guest-host BDA/TMA structures were observed at the octanoic acid/HOPG interface. It is suggested that the stabilization of the binary networks is possibly associated with the solvent chain length, and longer-chain solvents favored the formation of porous polymorphic networks.

Assemblies of porphyrin and phthalocyanine derivatives studied by STM

Porphyrins and phthalocyanines are currently a prevalent topic with great potential due to their abundant photonic/electronic properties. The study of porphyrin or phthalocyanine supramolecular architectures on solid surfaces is laying the foundation for the further development of molecular electronics or other structures in applications. Above all, the invention of scanning tunneling microscopy (STM) has opened a new path to explore these concepts on surfaces. Self-assemblies on solid surfaces can be probed with STM at submolecular resolutions to disclose the conformations and arrangements of molecules on an individual molecule basis. In this paper, the progress of STM research on porphyrin and phthalocyanine derivatives over past ten years is reviewed. We introduce the self-assembled structures of different porphyrins or phthalocyanines. Throughout the review, the structures, thermodynamics, and dynamics have been emphasized, which are essential current and future research themes.

Potential- and concentration-dependent self-assembly structures at solid/liquid interfaces

We report the potential and concentration controlled assembly of an alkyl-substituted benzo[1,2-b:4,5-b']dithiophene (DDBDT) on an Au(111) electrode by in situ electrochemical scanning tunneling microscopy (ECSTM). It is found that a lamellar structure is formed at low concentrations, while herringbone-like and rhombus structures are obtained at high concentrations. In situ STM results reveal that herringbone-like and rhombus structures could transform into lamellar structures when the electrode potential is tuned negatively. A phase diagram is obtained to illustrate the relationship and effects of concentration and substrate potential on the interfacial structures of DDBDT. Both the substrate potential and the solute concentration can modulate the self-assembly structure through changing the molecular surface density. The results provide important insights into the understanding and precise control of molecular self-assembly on solid surfaces through a combination of different approaches.

Selective Adsorption of Coronene atop the Polycyclic Aromatic Diimide Monolayer Investigated by STM and DFT

The self-assemblies of polycyclic aromatic diimide (PAI) compounds on solid surfaces have attracted great interest because of the versatile and attractive properties for application in organic electronics. Here, a planar guest species (coronene) selectively adsorbs on the helicene-typed PAI1 monolayer strongly, depending on the conjugated cores of these PAIs. PAI1 molecule displays evidently a bowl structure lying on the highly oriented pyrolytic graphite surface due to the torsion of the "C"-shaped fused benzene rings. In combination with density functional theory calculation, the selective inclusion of coronene atop the backbone of the PAI1 array might be attributed to the bowl structure, which provides a groove for immobilizing coronene molecules. On the other planar densely packed arrays, it is difficult to observe the unstable adsorption of coronene. The selective addition of coronene molecules would be a strategic step toward the controllable multicomponent supramolecular architectures.

A 2D Substitutional Solid Solution through Hydrogen Bonding of Molecular Building Blocks

Two-dimensional (2D) molecular self-assembly allows for the formation of well-defined supramolecular layers with tailored geometrical, compositional, and chemical properties. To date, random intermixing and entropic effects in these systems have largely been associated with crystalline disorder and glassy phases. Here we describe a 2D crystalline self-assembled molecular system that exhibits random incorporation of substitutional molecules. The lattice is formed from a mixture of trimesic acid (TMA) and terthienobenzenetricarboxylic acid (TTBTA), C₃-symmetric hydrogen-bonding units of very different sizes (0.79 and 1.16 nm, respectively), at the solution-highly oriented pyrolitic graphite (HOPG) interface. Remarkably, the TTBTA substitutes into the TMA lattice at a fixed stoichiometry near 12%. The resulting lattice constant is consistent with Vegard's law prediction for an alloy with a composition TMA_0.88TTBTA_0.12, and the substrate orientation of the lattice is defined by an epitaxial relation with the HOPG substrate. The Gibbs free energy for the TMA/TTBTA lattice was elucidated by considering the entropy of intermixing, via Monte Carlo simulations of multiplicity of the substitutional lattices, and the enthalpy of intermixing, via density functional theory calculations. The latter show that both the bond enthalpy of the H-bonded lattice and the adsorption enthalpy of the molecule/substrate interactions play important roles. This work provides insight into the manifestation of entropy in a molecular crystal constrained by both epitaxy and intermolecular interactions and demonstrates that a randomly intermixed yet crystalline 2D solid can be formed through hydrogen bonding of molecular building blocks of very different size.

Complexity of two-dimensional self-assembled arrays at surfaces

The developing field of complexity in self-assembled systems on surfaces is discussed.

Investigating the Co-Adsorption Behavior of Nucleic-Acid Base (Thymine and Cytosine) and Melamine at Liquid/Solid Interface

The co-adsorption behavior of nucleic-acid base (thymine; cytosine) and melamine was investigated by scanning tunneling microscopy (STM) technique at liquid/solid (1-octanol/graphite) interface. STM characterization results indicate that phase separation happened after dropping the mixed solution of thymine-melamine onto highly oriented pyrolytic graphite (HOPG) surface, while the hetero-component cluster-like structure was observed when cytosine-melamine binary assembly system is used. From the viewpoints of non-covalent interactions calculated by using density functional theory (DFT) method, the formation mechanisms of these assembled structures were explored in detail. This work will supply a methodology to design the supramolecular assembled structures and the hetero-component materials composed by biological and chemical compound.

Formation of Coronene Clusters in Concentration and Temperature Controlled Two-Dimensional Porous Network

In this research, with the assistance of scanning tunneling microscopy (STM), we observed the two-dimensional (2D) self-assembly transition of a star-shaped oligofluorene derivative (StOF) from disordered structure to honeycomb network by adjusting StOF concentration in solution. By introducing guest molecules coronene (COR), we for the first time achieved novel triangle-shaped COR trimers on liquid/highly oriented pyrolytic graphite (HOPG) interface in both honeycomb network and the disordered structure. In thermal tests, the COR/StOF-disorder system underwent a structural conformation to form well-ordered ladder structures, while the COR/StOF-honeycomb system remained the perfect hexagonal network with COR trimers included in the cavities. Density functional theory (DFT) calculations have been employed to investigate the forming mechanism of the molecular nanoarrays. These studies are expected to enhance controlling on 2D self-assembly and provide a facial approach toward constructing on-surface molecular clusters.

Nanopatterning of a covalent organic framework host-guest system

We have used a boroxine-based COF as a template for C60-fullerene self-assembly on graphite. Local removal of the COF by STM based nanomanipulation creates nanocorrals that may host other species.

STM analysis of surface-adsorbed conjugated oligo(p-phenylene-ethynylene) (OPE) nanostructures

A series of conjugated oligomers with different backbone lengths and side chains displayed various self-assembled structures on HOPG surface.

S-Shaped Conformation of the Quaterthiophene Molecular Backbone in Two-Dimensional Bisterpyridine-Derivative Self-Assembled Nanoarchitecture

The conformation and the two-dimensional self-assembly of 4'-(3',4″-dihexyloxy-5,2':5',2″:5″,2‴-quaterthien-2,5‴-diyl)-bis(2,2':6',2″-terpyridine) molecules are theoretically and experimentally investigated. This molecular building block forms a hydrogen-bonded chiral supramolecular nanoarchitecture on graphite at the solid/liquid interface. Scanning tunneling microscopy (STM) shows that the molecule adopts an S-shaped conformation in this structure. DFTB+ calculations reveal that this conformation is not the lowest-energy conformation. The molecular nanoarchitecture appears to be stabilized by hydrogen bonding as well as van der Waals interactions. I-, L-, and D-shaped molecular conformations are, however, locally observed at the domain boundary, but these conformations do not self-assemble into organized 2D structures.

Photoinduced Four-State Three-Step Ordering Transformation of Photochromic Terthiophene at a Liquid/Solid Interface Based on Two Principles: Photochromism and Polymorphism

We have investigated photoinduced ordering transformation of a photochromic terthiophene derivative by scanning tunneling microscopy (STM) at the trichlorobenzene (TCB)/highly oriented pyrolytic graphite (HOPG) interface. The open-ring and annulated isomers of the terthiophene formed two-dimensional molecular orderings with different patterns while the closed-ring isomer did not form any ordering. The ordering of the open-ring isomer exhibited polymorphism depending on the concentration of supernatant solution. Upon UV light irradiation to a solution of the open-ring isomer or the closed-ring isomer, ordering composed of the annulated isomer was irreversibly formed. Upon visible light irradiation or thermal stimulus to the closed-ring isomer, the two kinds of polymorph composed of the open-ring isomer were formed due to the polymorphism. By controlling photochromism and polymorphism among four states made of three photochemical isomers, four-state three-step transformation was achieved by in situ photoirradiation from a solution of the closed-ring isomer (no ordering) into the ordering composed of the open-ring isomer (ordering α and β) followed by the orderings composed of the annulated isomer (ordering γ).

Self-assembly polymorphism of 2,7-bis-nonyloxy-9-fluorenone: solvent induced the diversity of intermolecular dipole–dipole interactions

The dielectric variance of homologous acids induced different coadsorption behaviors. Intermolecular dipolar interaction stabilized the arrangements of fluorenone moieties.

Solvent-induced variable conformation of bis(terpyridine) derivatives during supramolecular self-assembly at liquid/HOPG interfaces

Variable supramolecular structures of bis-(2,2′:6′,2′′-terpyridine)-4′-oxyhexadecane (BT-O-C16) at various liquid–HOPG interfaces were observed by scanning tunneling microscopy (STM).

Formation of hydroxyl-functionalized stilbenoid molecular sieves at the liquid/solid interface on top of a 1-decanol monolayer

Specific molecular tectons can be designed to form molecular sieves through self-assembly at the solid-liquid interface. After demonstrating a model tecton bearing apolar alkyl chains, we then focus on a modified structure involving asymmetric functionalization of some alkyl chains with polar hydroxyl groups in order to get chemical selectivity in the sieving. As the formation of supramolecular self-assembled networks strongly depends on molecule-molecule, molecule-substrate and molecule-solvent interactions, we compared the tectons' self-assembly on graphite for two types of solvent. We demonstrate the possibility to create hydroxylated stilbenoid molecular sieves by using 1-decanol as a solvent. Interestingly, with this solvent, the porous network is developed on top of a 1-decanol monolayer.

Adaptive reorganization of 2D molecular nanoporous network induced by coadsorbed guest molecule

The ordered array of nanovoids in nanoporous networks, such as honeycomb, Kagome, and square, provides a molecular template for the accommodation of "guest molecules". Compared with the commonly studied guest molecules featuring high symmetry evenly incorporated into the template, guest molecules featuring lower symmetry are rare to report. Herein, we report the formation of a distinct patterned superlattice of guest molecules by selective trapping of guest molecules into the honeycomb network of trimesic acid (TMA). Two distinct surface patterns have been achieved by the guest inclusion induced adaptive reconstruction of a 2D molecular nanoporous network. The honeycomb networks can synergetically tune the arrangement upon inclusion of the guest molecules with different core size but similar peripherals groups, resulting in a trihexagonal Kagome or triangular patterns.

Synthesis, properties, and remarkable 2 D Self-Assembly at the Liquid/Solid interface of a series of triskele-shaped 5,11,17-triazatrinaphthylenes (TrisK)

A series of 5,11,17-triazatrinaphthylene (TrisK) derivatives, large disk-like π-conjugated molecules with C3h symmetry, has been synthesised by following an optimised synthetic pathway. The synthesis was performed by a four-step protocol based on the N-arylation of 1,3,5-tribromobenzene with appropriate anthranilate derivatives. This strategy permits the generation of either chlorinated (TrisK-Cl-OCn) or non-chlorinated (TrisK-H-OCn) alkoxy-substituted derivatives (OCn H2n+1 with n=3, 10, 12 and 16), thus providing additional versatility in the control of the structure-property relationships. The electronic properties of the various TrisK compounds have been characterised in solution by absorption and emission spectroscopies as well as cyclic voltammetry. The crystal structure of 2,8,14-propyloxy-5,11,17-triazatrinaphthylene TrisK-H-OC3 has been determined by X-ray diffraction analysis, which revealed the presence of stabilising weak intermolecular H bonds. Scanning tunnelling microscopy (STM) at the liquid/solid interface has revealed the remarkable 2D self-assembling properties of the TrisK compounds. In particular, it has shown that TrisK-H-OC12 forms three concomitant self-organised 2D phases with different row-packing arrangements. This 2D polymorphism arises from slow ordering due to the presence of three long dodecyloxy chains on the molecular backbone. Individual molecules can be imaged with spectacular intramolecular resolution, thus providing the possibility of correlating the STM features with the calculated charge density distribution.

Interfacial self-assembly of amino acids and peptides: scanning tunneling microscopy investigation

Proteins play important roles in human daily life. To take advantage of the lessons learned from nature, it is essential to investigate the self-assembly of subunits of proteins, i.e., amino acids and polypeptides. Due to its high resolution and versatility of working environment, scanning tunneling microscopy (STM) has become a powerful tool for studying interfacial molecular assembly structures. This review is intended to reflect the progress in studying interfacial self-assembly of amino acids and peptides by STM. In particular, we focus on environment-induced polymorphism, chiral recognition, and coadsorption behavior with molecular templates. These studies would be highly beneficial to research endeavors exploring the mechanism and nanoscale-controlling molecular assemblies of amino acids and polypeptides on surfaces, understanding the origin of life, unravelling the essence of disease at the molecular level and deeming what is necessary for the "bottom-up" nanofabrication of molecular devices and biosensors being constructed with useful properties and desired performance.

Incorporation dynamics of molecular guests into two-dimensional supramolecular host networks at the liquid-solid interface

The objective of this work is to study both the dynamics and mechanisms of guest incorporation into the pores of 2D supramolecular host networks at the liquid-solid interface. This was accomplished by adding molecular guests to prefabricated self-assembled porous monolayers and the simultaneous acquisition of scanning tunneling microscopy (STM) topographs. The incorporation of the same guest molecule (coronene) into two different host networks was compared, where the pores of the networks either featured a perfect geometric match with the guest (for trimesic acid host networks) or were substantially larger than the guest species (for benzenetribenzoic acid host networks). Even the moderate temporal resolution of standard STM experiments in combination with a novel injection system was sufficient to reveal clear differences in the incorporation dynamics in the two different host networks. Further experiments were aimed at identifying a possible solvent influence. The interpretation of the results is aided by molecular mechanics (MM) and molecular dynamics (MD) simulations.

Scanning tunneling microscopy investigation of copper phthalocyanine and truxenone derivative binary superstructures on graphite

The binary self-assembly of copper phthalocyanine (CuPc) and 2,3,7,8,12,13-hexahexyloxy-truxenone (TrO23) at the solid/liquid interface of highly oriented pyrolytic graphite (HOPG) was investigated by using scanning tunneling microscopy (STM) and scanning tunneling spectroscopy (STS). Pseduohexagonal and linear patterned superstructures of CuPc are obtained by co-adsorbing with TrO23. High-resolution STM images reveal the structural details of the arrangement of TrO23 and CuPc in the binary assembly structures. The molecular ratio between CuPc and TrO23 in the adlayer can be modulated by the CuPc concentration in liquid phase. The electronic properties of CuPc and TrO23 in the co-adsorbed self-assembly are investigated by STS. The results presented here are helpful to the design and fabrication of multi-component functional molecular nanostructures.