On‐Surface Self‐Assembly of a C3‐Symmetric π‐Conjugated Molecule Family Studied by STM: Two‐Dimensional Nanoporous Frameworks

The on‐surface self‐assembled behavior of four C ₃‐symmetric π‐conjugated planar molecules ( Tp , T12 , T18 , and Ex ) has been investigated. These molecules are excellent building blocks for the construction of noncovalent organic frameworks in the bulk phase. Their hydrogen‐bonded 2D on‐surface self‐assemblies are observed under STM at the solid/liquid interface; these structures are very different to those in the bulk crystal. Upon combining the results of STM measurements and DFT calculations, the formation mechanism of different assemblies is revealed; in particular, the critical role of hydrogen bonding in the assemblies. This research provides us with not only a deep insight into the self‐assembled behavior of these novel functional molecules, but also a convenient approach toward the construction of 2D multiporous networks.     

Peptide Nanomaterials Designed from Natural Supramolecular Systems

Natural supramolecular assemblies exhibit unique structural and functional properties that have been optimized over the course of evolution. Inspired by these natural systems, various bio‐nanomaterials have been developed using peptides, proteins, and nucleic acids as components. Peptides are attractive building blocks because they enable the important domains of natural protein assemblies to be isolated and optimized while retaining the original structures and functions. Furthermore, the peptide subunits can be conjugated with exogenous molecules such as peptides, proteins, nucleic acids, and metal nanoparticles to generate advanced functions. In this personal account, we summarize recent progress in the construction of peptide‐based nanomaterial designed from natural supramolecular systems, including (1) artificial viral capsids, (2) self‐assembled nanofibers, and (3) protein‐binding motifs. The peptides inspired by nature should provide new design principles for bio‐nanomaterials.     

Supramolecular Columnar Liquid Crystals with Tapered‐Shape Simple Pyrazoles Obtained by Efficient Henry/Michael Reactions

A straightforward synthesis of mesogenic pyrazoles starting from benzaldehydes by a combination of efficient Henry and Michael reactions led to novel supramolecular liquid crystals. The mesogens are fluorescent 3,5‐dimethyl‐4‐(di or trialkoxyphenyl)pyrazoles and, in spite of the tapered shape of these molecules and their structural simplicity (only one phenyl ring), columnar liquid‐crystal phases were formed that are stable at room temperature. The self‐assembled structure was studied by XRD and the columnar cross section contains two molecules on average with an antiparallel arrangement of pyrazoles interacting through hydrogen bonds. In contrast, the single‐crystal structure of a trimethoxy analog did not show hydrogen‐bonded pyrazoles but chains of head‐to‐tail arranged molecules.     

Discrete π‐Stacks from Self‐Assembled Perylenediimide Analogues

The formation of well‐defined finite‐sized aggregates represents an attractive goal in supramolecular chemistry. In particular, construction of discrete π‐stacked dye assemblies remains a challenge. Reported here is the design and synthesis of a novel type of discrete π‐stacked aggregate from two comparable perylenediimide (PDI) dyads ( PEP and PBP ). The criss‐cross PEP ‐ PBP dimers in solution and ( PBP ‐ PEP )‐( PEP ‐ PBP ) tetramers in the solid state are well elucidated using single‐crystal X‐ray diffraction, dynamic light scattering, and diffusion‐ordered NMR spectroscopy. Extensive π–π stacking between the PDI units of PEP and PBP as well as repulsive interactions of swallow‐tailed alkyl substituents are responsible for the selective formation of discrete dimer and tetramer stacks. Our results reveal a new approach to preparing discrete π stacks that are appealing for making assemblies with well‐defined optoelectronic properties.     

Self‐Assembly of a Mononuclear [FeIII(L)(EtOH)2] Complex Bearing an n‐Dodecyl Chain on Solid Highly Oriented Pyrolytic Graphite Surfaces

The synthesis and structures of the N‐[(2‐hydroxy‐3‐methyl‐5‐dodecylphenyl)methyl]‐N‐(carboxymethyl)glycine disodium salt (H L ) ligand and its neutral mononuclear complex [Fe^III( L )(EtOH)₂] ( 1 ) are reported. Structural and electronic properties of 1 were investigated by using scanning tunneling microscopy (STM) and current imaging tunneling spectroscopy (CITS) techniques. These studies reveal that molecules of 1 form well‐ordered self‐assemblies when deposited on a highly oriented pyrolytic graphite (HOPG) surface. At low concentrations, single or double chains (i.e., nanowires) of the complex were observed, whereas at high concentration the complex forms crystals and densely packed one‐dimensional structures. In STM topographies, the dimensions of assemblies of 1 found on the surface are consistent with dimensions obtained from X‐ray crystallography, which indicates the strong similarities between the crystal form and surface assembled states. Double chains are attributed to hydrogen‐bonding interactions and the molecules align preferentially along graphite defects. In the CITS image of complex 1 a strong tunneling current contrast at the positions of the metal ions was observed. These data were interpreted and reveal that the bonds coordinating the metal ions are weaker than those of the surrounding ligands; therefore the energy levels next to the Fermi energy of the molecule should be dominated by metal‐ion orbitals.     

Electrospray‐Ionization Mass Spectrometry for Screening the Specificity and Stability of Single‐Stranded‐DNA Templated Self‐Assemblies

Supramolecular complexes consisting of a single‐stranded oligothymine ( dTn ) as the host template and an array of guest molecules equipped with a complementary diaminotriazine hydrogen‐bonding unit have been studied with electrospray‐ionization mass spectrometry (ESI‐MS). In this hybrid construct, a supramolecular stack of guest molecules is hydrogen bonded to dTn . By changing the hydrogen‐bonding motif of the DNA host template or the guest molecules, selective hydrogen bonding was proven. We were able to detect single‐stranded‐DNA (ssDNA)–guest complexes for strands with lengths of up to 20 bases, in which the highest complex mass detected was 15 kDa; these complexes constitute 20‐component self‐assembled objects. Gas‐phase breakdown experiments on single‐ and multiple‐guest–DNA assemblies gave qualitative information on the fragmentation pathways and the relative complex stabilities. We found that the guest molecules are removed from the template one by one in a highly controlled way. The stabilities of the complexes depend mainly on the molecular weight of the guest molecules, a fact suggesting that the complexes collapse in the gas phase. By mixing two different guests with the ssDNA template, a multicomponent dynamic library can be created. Our results demonstrate that ESI‐MS is a powerful tool to analyze supramolecular ssDNA complexes in great detail.     

Charge Transfer Induces Formation of Stimuli‐Responsive,Chiral, Cohesive Vesicles‐on‐a‐String that Eventually Turn into a Hydrogel

A charge transfer (CT) mediated two‐component, multistimuli responsive supergelation involving a L ‐histidine‐appended pyrenyl derivative (PyHisOMe) as a donor and an asymmetric bolaamphiphilic naphthalene‐diimide (Asym‐NDI) derivative as an acceptor in a 2:1 mixture of H₂O/MeOH was investigated. Asym‐NDI alone self‐assembled into pH‐responsive vesicular nanostructures in water. Excellent selectivity in CT gel formation was achieved in terms of choosing amino acid appended pyrenyl donor scaffolds. Circular dichroism and morphological studies suggested formation of chiral, interconnected vesicular assemblies resembling “pearls‐on‐a‐string” from these CT mixed stacks. XRD studies revealed the formation of monolayer lipid membranes from these CT mixed stacks that eventually led to the formation of individual vesicles. Strong cohesive forces among the interconnected vesicles originate from the protrusion of the oxyethylene chains from the surfaces of the chiral vesicles.     

Template‐Free Synthesis of a Molecular Solomon Link by Two‐Component Self‐Assembly

A molecular Solomon link was synthesized in high yield through the template‐free, coordination‐driven self‐assembly of a carbazole‐functionalized donor and a tetracene‐based dinuclear ruthenium(II) acceptor. The doubly interlocked topology was realized by a strategically chosen ligand which was capable of participating in multiple CH ??? π and π–π interactions, as evidenced from single‐crystal X‐ray analysis and computational studies. This method is the first example of a two‐component self‐assembly of a molecular Solomon link using a directional bonding approach. The donor alone was not responsible for the construction of the Solomon link, and was confirmed by its noncatenane self‐assemblies obtained with other similar ruthenium(II) acceptors.     

β‐Sheet to Helical‐Sheet Evolution Induced by Topochemical Polymerization: Cross‐α‐Amyloid‐like Packing in a Pseudoprotein with Gly‐Phe‐Gly Repeats

Protein‐mimics are of great interest for their structure, stability, and properties. We are interested in the synthesis of protein‐mimics containing triazole linkages as peptide‐bond surrogate by topochemical azide‐alkyne cycloaddition (TAAC) polymerization of azide‐ and alkyne‐modified peptides. The rationally designed dipeptide N₃‐CH₂CO‐Phe‐NHCH₂CCH ( 1 ) crystallized in a parallel β‐sheet arrangement and are head‐to‐tail aligned in a direction perpendicular to the β‐sheet‐direction. Upon heating, crystals of 1 underwent single‐crystal‐to‐single‐crystal polymerization forming a triazole‐linked pseudoprotein with Gly‐Phe‐Gly repeats. During TAAC polymerization, the pseudoprotein evolved as helical chains. These helical chains are laterally assembled by backbone hydrogen bonding in a direction perpendicular to the helical axis to form helical sheets. This interesting helical‐sheet orientation in the crystal resembles the cross‐α‐amyloids, where α‐helices are arranged laterally as sheets.     

Combinatorial Crystal Synthesis: Structural Landscape of Phloroglucinol:1,2‐bis(4‐pyridyl)ethylene and Phloroglucinol:Phenazine

A large number of crystal forms, polymorphs and pseudopolymorphs, have been isolated in the phloroglucinol‐dipyridylethylene (PGL:DPE) and phloroglucinol‐phenazine (PGL:PHE) systems. An understanding of the intermolecular interactions and synthon preferences in these binary systems enables one to design a ternary molecular solid that consists of PGL, PHE, and DPE, and also others where DPE is replaced by other heterocycles. Clean isolation of these ternary cocrystals demonstrates synthon amplification during crystallization. These results point to the lesser likelihood of polymorphism in multicomponent crystals compared to single‐component crystals. The appearance of several crystal forms during crystallization of a multicomponent system can be viewed as combinatorial crystal synthesis with synthon selection from a solution library. The resulting polymorphs and pseudopolymorphs that are obtained constitute a crystal structure landscape.     

Direct Synthesis of a Covalently Self‐Assembled Peptide Nanogel from a Tyrosine‐Rich Peptide Monomer and Its Biomineralized Hybrids

There has been significant progress in the self‐assembly of biological materials, but the one‐step covalent peptide self‐assembly for well‐defined nanostructures is still in its infancy. Inspired by the biological functions of tyrosine, a covalently assembled fluorescent peptide nanogel is developed by a ruthenium‐mediated, one‐step photo‐crosslinking of tyrosine‐rich short peptides under the visible light within 6 minutes. The covalently assembled peptide nanogel is stable in various organic solvents and different pH levels, unlike those made from vulnerable non‐covalent assemblies. The semipermeable peptide nanogel with a high density of redox‐active tyrosine acts as a novel nano‐bioreactor, allowing the formation of uniform metal–peptide hybrids by selective biomineralization under UV irradiation. As such, this peptide nanogel could be useful in the design of novel nanohybrids and peptidosomes possessing functional nanomaterials.     

Anion‐Induced Shuttling of a Naphthalimide Triazolium Rotaxane

The anion‐templated synthesis of a rotaxane structure, incorporating the new naphthalimide triazolium motif, is described and the interlocked host shown to exhibit selective, uni‐directional, anion‐induced shuttling. Initial pseudorotaxane investigations demonstrate the ability of a naphthalimide triazolium threading component to form interpenetrated assemblies with counter‐anion‐dependent co‐conformations. ¹H NMR studies reveal that the shuttling behaviour of the analogous rotaxane host system is controlled by selective anion binding and by the nature of the solvent conditions. Complete macrocycle translocation only occurs upon the recognition of the smaller halide anions (chloride and bromide). The rotaxane solid‐state crystal structure in the presence of chloride is in agreement with the solution‐phase co‐conformation. The sensitivity of the axle naphthalimide absorbance band to the position of the macrocycle component within the interlocked structure enabled the molecular motion to be observed by UV/Vis spectroscopy, and the chloride‐induced shuttling of the rotaxane was reversed upon silver hexafluorophosphate addition.     

Fabrication of Pascal‐triangle Lattice of Proteins by Inducing Ligand Strategy

A protein Pascal triangle has been constructed as new type of supramolecular architecture by using the inducing ligand strategy that we previously developed for protein assemblies. Although mathematical studies on this famous geometry have a long history, no work on such Pascal triangles fabricated from native proteins has been reported so far due to their structural complexity. In this work, by carefully tuning the specific interactions between the native protein building block WGA and the inducing ligand R‐SL , a 2D Pascal‐triangle lattice with three types of triangular voids has been assembled. Moreover, a 3D crystal structure was obtained based on the 2D Pascal triangles. The distinctive carbohydrate binding sites of WGA and the intralayer as well as interlayer dimerization of RhB was the key to facilitate nanofabrication in solution. This strategy may be applied to prepare and explore various sophisticated assemblies based on native proteins.     

Self‐Assembly of a 3D DNA Crystal Structure with Rationally Designed Six‐Fold Symmetry

Programming self‐assembled designer DNA crystals with various lattices and functions is one of the most important goals for nanofabrication using nucleic acids. The resulting porous materials possess atomic precision for several potential applications that rely on crystalline lattices and cavities. Herein, we present a rationally designed and self‐assembled 3D DNA crystal lattice with hexagonal symmetry. In our design, two 21‐base oligonucleotides are used to form a duplex motif that further assembles into a 3D array. The interactions between the strands are programmed using Watson–Crick base‐pairing. The six‐fold symmetry, as well as the chirality, is directed by the Holliday junctions formed between the duplex motifs. The rationally designed DNA crystal provides a new avenue that could create self‐assembled macromolecular 3D crystalline lattices with atomic precision. In addition, the structure contains a highly organized array of well‐defined cavities that are suitable for future applications with immobilized guests.     

Photoconductive Curved‐Nanographene/Fullerene Supramolecular Heterojunctions

This study presents synthesis and characterizations of two novel curved nanographenes that strongly bind with fullerene C₆₀ to form photoconductive heterojunctions. Films of the self‐assembled curved nanographene/fullerene complexes, which served as the photoconductive layer, generated a significant photocurrent under light irradiation. Gram‐scale quantities of these curved nanographenes (TCR and HCR) as the “crown” sidewalls can be incorporated into a carbon nanoring to form molecular crowns, and the molecular structure of C₆₀@TCR is determined by single‐crystal X‐ray diffraction. The UV/Vis absorption and emission spectra, and theoretical studies revealed their unique structural features and photophysical properties. Time‐resolved spectroscopic results clearly suggest fast photoinduced electron transfer process in the supramolecular heterojunctions.     

Cu‐Based Nanocomposites as Multifunctional Catalysts

Herein, we report the synthesis of Cu/Cu₂O nanocomposites by a one‐step hydrothermal process at 180 °C, for which the resulting morphology is dependent on the hydrothermal reaction time (24, 72, and 120 h). With a longer reaction time of 120 h, a rod‐shape morphology is obtained, whereas at 72 and 24 h assemblies of nanoparticles are obtained. The rod‐shaped (120 h) particles of the Cu/Cu₂O nanocomposites show a much higher efficiency (6.3 times) than the agglomerates and 2.5 times more than the assemblies of nanoparticles for the hydrogen‐evolution reaction. During the oxygen‐evolution reaction, the nanorods produce a current that is 5.2 and 3.7 times higher than that produced by the agglomerated and assembled nanoparticles, respectively. The electrocatalysts are shown to be highly stable for over 50 cycles. As catalysts for organic synthesis, a 100 % yield is achieved in the Sonogashira cross‐coupling reaction with the nanorods, which is higher than with the other nanocomposite particles. This result demonstrates the significant enhancement of yield obtained with the nanorods for cross‐coupling reactions.     

Thermally Induced Intra‐Carboxyl Proton Shuttle in a Molecular Rack‐and‐Pinion Cascade Achieving Macroscopic Crystal Deformation

Proton transport via dynamic molecules is ubiquitous in chemistry and biology. However, its use as a switching mechanism for properties in functional molecular assemblies is far less common. In this study, we demonstrate how an intra‐carboxyl proton shuttle can be generated in a molecular assembly akin to a rack‐and‐pinion cascade via a thermally induced single‐crystal‐to‐single‐crystal phase transition. In a triply interpenetrated supramolecular organic framework (SOF), a 4,4′‐azopyridine (azpy) molecule connects to two biphenyl‐3,3′,5,5′‐tetracarboxylic acid (H₄BPTC) molecules to form a functional molecular system with switchable mechanical properties. A temperature change reversibly triggers a molecular movement akin to a rack‐and‐pinion cascade, which mainly involves 1) an intra‐carboxyl proton shuttle coupled with tilting of the azo molecules and azo pedal motion and 2) H₄BPTC translation. Moreover, both the molecular motions are collective, and being propagated across the entire framework, leading to a macroscopic crystal expansion and contraction.     

Hybrid Structure of the Type 1 Pilus of Uropathogenic Escherichia coli

Type 1 pili are filamentous protein assemblies on the surface of Gram‐negative bacteria that mediate adhesion to host cells during the infection process. The molecular structure of type 1 pili remains elusive on the atomic scale owing to their insolubility and noncrystallinity. Herein we describe an approach for hybrid‐structure determination that is based on data from solution‐state NMR spectroscopy on the soluble subunit and solid‐state NMR spectroscopy and STEM data on the assembled pilus. Our approach is based on iterative modeling driven by structural information extracted from different sources and provides a general tool to access pseudo atomic structures of protein assemblies with complex subunit folds. By using this methodology, we determined the local conformation of the FimA pilus subunit in the context of the assembled type 1 pilus, determined the exact helical pilus architecture, and elucidated the intermolecular interfaces contributing to pilus assembly and stability with atomic detail.     

Entropically Favoured Assembly of Pyrazine‐Based Helical Fibers into Superstructures: Achiral/ Chiral Guest‐Induced Chirality Transformation

The development of synthetic helical structures undergoing stimuli‐responsive chirality transformations is important for an understanding of the role of chirality in natural systems. However, controlling supramolecular chirality in entropically driven assemblies in aqueous media is challenging. To develop stimuli‐responsive assemblies, we designed and synthesized pyrazine derivatives with l ‐alanine groups as chiral building blocks. These systems undergo self‐assembly in aqueous media to generate helical fibers and the embedded alanine groups transfer their chirality to the assembled structures. Furthermore, these helical fibers undergo a Ni²⁺‐induced chirality transformation. The study demonstrates the role of intermolecular hydrogen bonding, π–π stacking, and the hydrophobic effect in the Ni²⁺‐mediated transition of helical fibers to supercoiled helical ensembles which mimic the formation of superstructures in biopolymers.     

Assemblies of Peptides in a Complex Environment and their Applications

Using peptide assemblies with emergent properties to achieve elaborate functions has attracted increasing attention in recent years. Besides tailoring the self‐assembly of peptides in vitro, peptide research is advancing into a new and exciting frontier: the rational design of peptide assemblies (or their derivatives) for biological functions in a complex environment. This Minireview highlights recent developments in peptide assemblies and their applications in biological systems. After introducing the unique merits of peptide assemblies, we discuss the recent progress in designing peptides (or peptide derivatives) for self‐assembly with conformational control. Then, we describe biological functions of peptide assemblies, with an emphasis on approach‐instructed assembly for spatiotemporal control of peptide assemblies, in the cellular context. Finally, we discuss the future promises and challenges of this exciting area of chemistry.