Guanine- and Potassium-Based Two-Dimensional Coordination Network Self-Assembled on Au(111)

Assembling Surface Molecular Sierpiński Triangle Fractals via K+-Invoked Electrostatic Interaction

Molecular Sierpiński triangles (STs), a family of elegant and well-known fractals, can be prepared on surfaces with atomic precision. Up to date, several kinds of intermolecular interactions such as hydrogen bond, halogen bond, coordination, and even covalent bond have been employed to construct molecular STs on metal surfaces. Herein a series of defect-free molecular STs have been fabricated via electrostatic attraction between potassium cations and electronically polarized chlorine atoms in 4,4″-dichloro-1,1':3',1″-terphenyl (DCTP) molecules on Cu(111) and Ag(111). The electrostatic interaction is confirmed both experimentally by scanning tunneling microscopy and theoretically by density functional theory calculations. These findings illustrate that electrostatic interaction can serve as an efficient driving force to construct molecular fractals, which enriches our toolbox for the bottom-up fabrication of complex functional supramolecular nanostructures.

Interconversion between guanine quartets and triads on the Au(111) surface

Based on STM imaging and DFT calculations, we show the real-space experimental evidence of the interconversion between G-quartets and G-triads on the Au(111) surface, and further reveal the relative stabilities of these two elementary motifs, which helps to increase the fundamental understanding of the relationship between G-triplex and G-quadruplex DNA structures.

Multiple Molecular Interactions between Alkyl Groups and Dissociated Bromine Atoms on Ag(111)

Multiple intermolecular interactions offer a high-degree of controllability of on-surface molecular assemblies. Here, two kinds of molecular networks were formed by depositing 11,11,12,12-tetrabromo-1,4,5,8-tetraaza-9,10-anthraquinodimethane derivatives with two different alkyl groups in...

Flexible Alkali-Halogen Bonding in Two Dimensional Alkali-Metal Organic Frameworks

On-surface fabrication of two-dimensional (2D) metal organic frameworks (MOFs) has been continuously attracting attentions for years. However, the synthesis of 2D MOFs with large-amplitude flexibility was rarely carried out since the bonding configurations in the coordination nodes are typically highly directional. Here we demonstrate that single alkali ions, which are fully isotropic in ionic bonding, can act as pivot joints for constructing tunable 2D MOFs by bonding to dihalogen groups in organic molecules. We take 2,3,6,7,10,11-hexabromotriphenylene, a 3-fold polycyclic molecule with three ortho-dibromo groups, and sodium (Na) atoms as a model system and successfully construct Na-based MOFs on Au(111) surface. The deflection angle of the Na coordination nodes is variable in an unprecedentedly large range between ±36° that allows the construction of multiple 2D MOF architectures. Such a flexible alkali-halogen bonding may provide a unique toolbox for designing and constructing more tunable MOFs by choosing various alkali atoms and halogen moieties.

Two-Dimensional Coordination Networks from Cyclic Dipeptides

Peptide-based biomimetic nanostructures and metal-organic coordination networks on surfaces are two promising classes of hybrid materials which have been explored recently. However, despite the great versatility and structural variability of natural and synthetic peptides, the two directions have so far not been merged in fabrication of metal-organic coordination networks using peptides as building blocks. Here we demonstrate that cyclic peptides can be used as ligands to form highly ordered, two-dimensional, peptide-based metal-organic coordination networks. The networks are formed on a Au(111) surface through coadsorption of cyclic dialanine with Cu-adatoms under Ultra-High Vacuum (UHV) conditions. Scanning Tunneling Microscopy (STM) in combination with X-ray Photoelectron spectroscopy (XPS) has been utilized to characterize the network structures at submolecular resolution and expound the chemical changes involved in network coordination. The networks involve a motif of three cyclic dialanine molecules coordinating to a central Cu-adatom. Interestingly the networks expose pores functionalized by the side chain of the cyclic peptide, suggesting a general method to form functionalized porous metal-organic networks on surfaces.

Fine-tuning of two-dimensional metal-organic nanostructures via alkali-pyridyl coordination

Herein, we report a fine-tuning of the two-dimensional alkali-pyridyl coordination assemblies facilely realized by surface reaction between tetrapyridyl-porphyrin molecules and alkali halides on Ag(111) under a solventless ultrahigh vacuum condition. High-resolution scanning tunneling topography and X-ray photoelectron spectra reveal the formation of alkali-pyridyl coordination and the induced conformational tuning of the porphyrin macrocycle cores. Furthermore, employing other different alkali halide substitutes, we demonstrate a fine-tuning of the metal-organic nanostructures at the sub-Å scale. Postdeposition of Fe onto the as-formed precursor layer yields a two-dimensional bimetallic framework structure, manifesting a functionalization of the metal-organic interfaces.

Chlorine-assisted fabrication of hybrid supramolecular structures via electrostatic interactions

Supramolecular self-assembly is a spontaneous process relying on non-covalent intermolecular interactions. Among them, electrostatic interactions generated by organic molecules interacting with alkali metals and/or halogens play an important role in structural formation. Herein, we choose cytosine and NaCl as a model system and, from the interplay of STM imaging and DFT calculations, a hybrid network composed of both metal-organic and pure organic motifs interlinked by Cl ions via electrostatic interactions is observed on the Au(111) surface. Moreover, the occasionally missing Cl ions in connections are accompanied by the absence of adjacent organic motifs resulting in defects of the network. This study successfully demonstrates the generality of salt providing both cations and anions simultaneously in the modulation of the structure and provides fundamental knowledge on the formation of hybrid structures as well as the function of halogens in affecting the self-assembly process.

G-Quadruplex based hydrogels stabilized by a cationic polymer as an efficient adsorbent of picric acid

Hydrogels based on G-quadruplexes (G-hydrogels) were prepared using guanosine 5′-monophosphate disodium salt, GMP, with a hyperbranched poly(ethylenimine), PEI, containing abundant –NH₂ groups.

Linear array of cesium atoms assisted by uracil molecules on Au(111)

A series of metal–organic U + Cs structures are achieved in which the Cs cations tend to form linear arrays.

Two-dimensional self-assembled nanostructures of nucleobases and their related derivatives on Au(111)

The construction of two-dimensional (2D) self-assembled nanostructures has been one of the considerably interesting areas of on-surface chemistry in the past few decades, and has benefited from the rapid development and improvement of scanning probe microscopy techniques. In this research field, many attempts have been made in the controllable fabrication of well-ordered and multifunctional surface nanostructures, which attracted interest because of the prospect for artificial design of functional molecular nanodevices. DNA and RNA are considered to be programmable self-assembly systems and it is possible to use their base sequences to encode instructions for assembly in a predetermined fashion at the nanometer scale. As important constituents of nucleic acids, nucleobases, with intrinsic functional groups for hydrogen bonding, coordination bonding, and electrostatic interactions, can be employed as a potential system for the versatile construction of various biomolecular nanostructures, which may be used to structure the self-assembly of DNA-based artificial molecular constructions and play an important role in novel biosensors based on surface functionalization. In this article, we will review the recent progress of on-surface self-assembly of nucleobases and their derivatives together with different reactants (e.g., metals, halogens, salts and water), and as a result, various 2D surface nanostructures are summarized.

Structural Transformation of Guanine Coordination Motifs in Water Induced by Metal Ions and Temperature

The transformation effects of metal ions and temperature on the DNA base guanine (G) metal-organic coordination motifs in water have been investigated by scanning tunneling microcopy (STM). The G molecules form an ordered hydrogen-bonded structure at the water-highly oriented pyrolytic graphite interface. The STM observations reveal that the canonical G/9H form can be transformed into the G/(3H,7H) tautomer by increasing the temperature of the G solution to 38.6 °C. Moreover, metal ions bind with G molecules to form G₄Fe₁³⁺, G₃Fe₃²⁺, and the heterochiral intermixed G₄Na₁⁺ metal-organic networks after the introduction of alkali-metal ions in cellular environment.

Bis(aminothiolato)nickel nanosheet as a redox switch for conductivity and an electrocatalyst for the hydrogen evolution reaction

A π-conjugated coordination nanosheet comprising bis(aminothiolato)nickel (NiAT) moieties was synthesized by the reaction of Ni(acac)2 with 1,3,5-triaminobenzene-2,4,6-trithiol at liquid-liquid and gas-liquid interfaces. The sheet thickness could be controlled down to a single layer (0.6 nm). Selected area electron diffraction and grazing incidence X-ray diffraction analyses indicated the formation of a flat crystalline sheet with a kagome lattice stacked in a staggered alignment. NiAT was reversibly interconverted to a bis(iminothiolato)nickel (NiIT) nanosheet by the chemical 2H+-2e- reaction, which was accompanied by a drastic change in electrical conductivity from 3 × 10-6 to 1 × 10-1 S cm-1. This change in conductivity was explained by the difference in band structures between NiAT and NiIT. NiAT acted as an efficient electrocatalyst for the hydrogen evolution reaction, showing strong acid durability and an onset overpotential of -0.15 V.

Structural diversity of metal-organic self-assembly assisted by chlorine

From the combination of STM imaging and DFT calculations, we show that both alkali metal and halogens interact with different sites of the target molecules resulting in structural formation in a synergistic way. The elementary metal-organic motifs are connected by Cl in a variety of fashions demonstrating structural diversity.

Self-assembly of melem on Au(111) and Ag(111): the origin of two different hydrogen bonding configurations

We studied the self-assembly of melem on the Au(111) and Ag(111) surfaces. By scanning tunneling microscopy imaging, we observed two different STM appearances of the melem molecule within the self-assembled nanostructure on Au(111), which resulted from the different intermolecular bonding configurations. Moreover, further DFT details including the intermolecular charge density difference and bonding energy were also obtained to compare the different natures of the intermolecular bonding configurations.

Construction of Two-Dimensional Chiral Networks through Atomic Bromine on Surfaces

Using atomic bromine and 2,6-diphenylanthracene (DPA), we successfully constructed and characterized the large-area 2D chiral networks on Ag(111) and Cu(111) surfaces by combining molecular beam epitaxy with scanning tunneling microscopy. The Br atoms distribute themselves periodically in the network with the maximum number of -C-H···Br hydrogen bonds. Density functional theory calculations demonstrate that the hydrogen bonds contribute to the stability of the Br-organic networks. In addition, by controlling the ratio of bromine atoms to DPA molecules, different patterns of Br-organic networks were obtained on Ag(111) surfaces. Further experiments with 2,6-di(4-cyclohexylphenyl)anthracene on Ag(111) produced analogous atomic bromine guided 2D chiral networks.

Self-assembled nanostructures of a di-carbonitrile molecule on copper single-crystal surfaces

A di-carbonitrile molecule prefers to form nanostructures by hydrogen bonds rather than coordination bonds on Cu(110) and Cu(100) at RT.

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.

Coordination Programming of Two-Dimensional Metal Complex Frameworks

Since the discovery of graphene, two-dimensional materials with atomic thickness have attracted much attention because of their characteristic physical and chemical properties. Recently, coordination nanosheets (CONASHs) came into the world as new series of two-dimensional frameworks, which can show various functions based on metal complexes formed by numerous combinations of metal ions and ligands. This Feature Article provides an overview of recent progress in synthesizing CONASHs and in elucidating their intriguing electrical, sensing, and catalytic properties. We also review recent theoretical studies on the prediction of the unique electronic structures, magnetism, and catalytic ability of materials based on CONASHs. Future prospects for applying CONASHs to novel applications are also discussed.

Self-assembly of hydrogen-bonded supramolecular complexes of nucleic-acid-base and fatty-acid at the liquid–solid interface

The interesting sandwich-like architectures were formed at the liquid–solid interface by using a binary system consisting of guanine and stearic acid.

Tunable lanthanide-directed metallosupramolecular networks by exploiting coordinative flexibility through ligand stoichiometry

Eu forms 4-fold or 5-fold coordination structures with terpyridyl and carbonitrile ligands on the Au(111) surface depending on the ligand stoichiometry.

Formation of a G-quartet-Fe complex and modulation of electronic and magnetic properties of the Fe center

Although the G-quartet structure has been extensively investigated due to its biological importance, the formation mechanism, in particular, the necessity of metal centers, of an isolated G-quartet on solid surfaces remains ambiguous. Here, by using scanning tunneling microscopy under well-controlled ultra-high-vacuum conditions and density functional theory calculations we have been able to clarify that besides the intraquartet hydrogen bonding a metal center is mandatory for the formation of an isolated G-quartet. Furthermore, by subtly perturbing the local coordination bonding schemes within the formed G-quartet complex via local nanoscale scanning tunneling microscopy manipulations, we succeed in modulating the d orbitals and the accompanying magnetic properties of the metal center. Our results demonstrate the feasibility of forming an isolated G-quartet complex on a solid surface and that the strategy of modulating electronic and magnetic properties of the metal center can be extended to other related systems such as molecular spintronics.

On-surface single molecule synthesis chemistry: a promising bottom-up approach towards functional surfaces

In this review, we introduce recent progress on surface synthesis and focus on supramolecular self-assembled structures driven by several typical chemical reactions at solid surfaces, with the aid of scanning tunneling microscopy (STM). We also emphasize the relationship between the non-covalent self-assembly and surface reactivity, by which we hope to find an effective way for further controllable nano-manufacture.

Reverse engineering of monolayers and nanopatterns

In a molecularly decorated surface, the molecular tiles are “glued” to the surface by binding constants and possibly further “glued” to each other by cooperativity factors. At odds with mosaics, these “glues” come with the tiles and cannot be removed or supplemented. Binding polynomials quantify glue amounts from experimental data and may predict molecular self-organization on surfaces that can be exploited in organic (opto-)electronics.

Stereoselectivity and electrostatics in charge-transfer Mn- and Cs-TCNQ₄ networks on Ag(100)

Controlling supramolecular self-assembly is a fundamental step towards molecular nanofabrication, which involves a formidable reverse engineering problem. It is known that a variety of structures are efficiently obtained by assembling appropriate organic molecules and transition metal atoms on well-defined substrates. Here we show that alkali atoms bring in new functionalities compared with transition metal atoms because of the interplay of local chemical bonding and long-range forces. Using atomic-resolution microscopy and theoretical modelling, we investigate the assembly of alkali (Cs) and transition metals (Mn) co-adsorbed with 7,7,8,8-tetracyanoquinodimethane (TCNQ) molecules, forming chiral superstructures on Ag(100). Whereas Mn-TCNQ(4) domains are achiral, Cs-TCNQ(4) forms chiral islands. The specific behaviour is traced back to the different nature of the Cs- and Mn-TCNQ bonding, opening a novel route for the chiral design of supramolecular architectures. Moreover, alkali atoms provide a means to modify the adlayer electrostatic properties, which is important for the design of metal-organic interfaces.

Chemical transformations drive complex self-assembly of uracil on close-packed coinage metal surfaces

We address the interplay of adsorption, chemical nature, and self-assembly of uracil on the Ag(111) and Cu(111) surfaces as a function of molecular coverage (0.3 to 1 monolayer) and temperature. We find that both metal surfaces act as templates and the Cu(111) surface acts additionally as a catalyst for the resulting self-assembled structures. With a combination of STM, synchrotron XPS, and NEXAFS studies, we unravel a distinct polymorphism on Cu(111), in stark contrast to what is observed for the case of uracil on the more inert Ag(111) surface. On Ag(111) uracil adsorbs flat and intact and forms close-packed two-dimensional islands. The self-assembly is driven by stable hydrogen-bonded dimers with poor two-dimensional order. On Cu(111) complex structures are observed exhibiting, in addition, a strong annealing temperature dependence. We determine the corresponding structural transformations to be driven by gradual deprotonation of the uracil molecules. Our XPS study reveals unambiguously the tautomeric signature of uracil in the contact layer and on Cu(111) the molecule's deprotonation sites. The metal-mediated deprotonation of uracil and the subsequent electron localization in the molecule determine important biological reactions. Our data show a dependence between molecular coverage and molecule-metal interaction on Cu(111), as the molecules tilt at higher coverages in order to accommodate a higher packing density. After deprotonation of both uracil N atoms, we observe an adsorption geometry that can be understood as coordinative anchoring with a significant charge redistribution in the molecule. DFT calculations are employed to analyze the surface bonding and accurately describe the pertaining electronic structure.

Construction and repair of highly ordered 2D covalent networks by chemical equilibrium regulation

The construction of well-ordered 2D covalent networks via the dehydration of di-borate aromatic molecules was successfully realized through introducing a small amount of water into a closed reaction system to regulate the chemical equilibrium.