Molecular Pom Poms from Self‐Assembling α,γ‐Cyclic Peptides

The hierarchical self‐assembly properties of a dimer‐forming cyclic peptide that bears a nicotinic acid moiety to form molecular pom‐pom‐like structures are described. This dimeric assembly self organizes into spherical structures that can encapsulate small organic molecules owing to its porosity and it can also facilitate metal deposition on its surface directed by the pyridine moiety.     

Light‐Driven Self‐Healing of Nanoparticle‐Based Metamolecules

Metamolecules and crystals consisting of nanoscale building blocks offer rich models to study colloidal chemistry, materials science, and photonics. Herein we demonstrate the self‐assembly of colloidal Ag nanoparticles into quasi‐one‐dimensional metamolecules with an intriguing self‐healing ability in a linearly polarized optical field. By investigating the spatial stability of the metamolecules, we found that the origin of self‐healing is the inhomogeneous interparticle electrodynamic interactions enhanced by the formation of unusual nanoparticle dimers, which minimize the free energy of the whole structure. The equilibrium configuration and self‐healing behavior can be further tuned by modifying the electrical double layers surrounding the nanoparticles. Our results reveal a unique route to build self‐healing colloidal structures assembled from simple metal nanoparticles. This approach could potentially lead to reconfigurable plasmonic devices for photonic and sensing applications.     

Self‐assembly of a Sequence‐shuffled Short Peptide Amphiphile Triggered by Metal Ions into Terraced Nanodome‐like Structures

We highlight the structural diversity of strategically designed two short peptide amphiphiles (sPAs) and describe their structure–function relationship studies. The shuffling of two key amino acids, that is, tyrosine and phenylalanine, in a designed sPA lead to a pair of constitutional isomers. Such small and strategic alteration can bring a substantial change in the self‐assembling pattern. Inspired from the naturally occurring metallopeptides, bioactive transition‐metal ions were used for constructing the unusual nanostructures. Use of appropriate metal ions created bigger differences between the properties of these isomers and hence the self‐assembly. Coordination of appropriate transition metal ions modifies the internal nanoscale structures of sPA, thus leading to the formation of vertically stacked terraced layers with decreasing size, which possess a high degree of dimensional regularity. We propose that such metal‐induced terraced nanodome‐like hierarchical self‐assembly may have relevance for specific biotechnology applications.     

Self‐Assembled Cyclic Structures from Copper(II) Peptoids

Metal–ligand coordination is a key interaction in the self‐assembly of both biopolymers and synthetic oligomers. Although the binding of metal ions to synthetic proteins and peptides is known to yield high‐order structures, the self‐assembly of peptidomimetic molecules upon metal binding is still challenging. Herein we explore the self‐assembly of three peptoid trimers bearing a bipyridine ligand at their C‐terminus, a benzyl group at their N‐terminus, and a polar group (N‐ethyl‐R) in the middle position (R=OH, OCH₃, or NH₂) upon Cu²⁺ coordination. X‐ray diffraction analysis revealed unique, highly symmetric, dinuclear cyclic structure or aqua‐bridged dinuclear double‐stranded peptoid helicates, formed by the self‐assembly of two peptoid molecules with two Cu²⁺ ions. Only the macrocycle with the highest number of intermolecular hydrogen bonds is stable in solution, while the other two disassemble to their corresponding monometallic complexes.     

Two‐Dimensional Self‐Assembly of a Porphyrin–Polypyridyl Ruthenium(II) Hybrid on HOPG Surface through Metal–Ligand Interactions

The synthesis and self‐assembly behavior of porphyrin–polypyridyl ruthenium(II) hybrid, which consists of a flexible alkyl chain attached with two conjugated moieties is described. The electronic absorption spectrum and emission spectra show that the [C₈‐TPP‐(ip)Ru(phen)₂](ClO₄)₂, abbreviated as (C₈ip)TPPC has optical properties. Scanning tunneling microscopy (STM) studies found that the π–π interaction and metal–ligand interaction allow (C₈ip)TPPC to form self‐assembled structure and have an edge‐on orientation on the highly oriented pyrolytic graphite (HOPG) surface. The multidentate structure in (C₈ip)TPPC molecules act as linkers between the molecules and form metal–ligand coordination, which forces the assembly process in the direction of stable columnar arrays. In addition, although the sample was stored for two months in ambient conditions, STM experiments showed that the order of (C₈ip)TPPC self‐assembly only slightly decreased which indicates that the self‐assembled monolayer is stable. This work demonstrates that introducing a metal‐ligand in the porphyrin‐polypyridyl compound is a useful strategy to obtain novel surface assemblies.     

Mimicking Primitive Photobacteria: Sustainable Hydrogen Evolution Based on Peptide–Porphyrin Co‐Assemblies with a Self‐Mineralized Reaction Center

Molecular evolution, with self‐organization of simple molecules towards complex functional systems, provides a new strategy for biomimetic architectonics and perspectives for understanding the complex processes of life. However, there remain many challenges to fabrication of systems comprising different types of units, which interact with one another to perform desired functions. Challenges arise from a lack of stability, dynamic properties, and functionalities that reconcile with a given environment. A co‐assembling fiber system composed of simple peptide and porphyrin is presented. This material is considered a prebiotic assembly of molecules that can be rather stable and flexibly self‐functionalized with the assistance of visible light in a “prebiotic soup”; acidic (pH 2), hot (70 °C), and mineral‐containing (Na⁺, Ti⁴⁺, Pt²⁺, and so forth) water. The co‐assembled peptide–porphyrin fiber, with self‐mineralized reaction centers, may serve as a primitive photobacteria‐like cellular model to achieve light harvesting, energy transfer, and ultimately sustainable hydrogen evolution.     

Solvent‐Polarity‐Tuned Morphology and Inversion of Supramolecular Chirality in a Self‐Assembled Pyridylpyrazole‐Linked Glutamide Derivative: Nanofibers,Nanotwists, Nanotubes,and Microtubes

The self‐assembly of a low‐molecular‐weight organogelator into various hierarchical structures has been achieved for a pyridylpyrazole linked L ‐glutamide amphiphile in different solvents. Upon gel formation, supramolecular chirality was observed, which exhibited an obvious dependence on the polarity of the solvent. Positive supramolecular chirality was obtained in nonpolar solvents, whereas it was inverted into negative supramolecular chirality in polar solvents. Moreover, the gelator molecules self‐assembled into a diverse array of nanostructures over a wide scale range, from nanofibers to nanotubes and microtubes, depending on the solvent polarity. Such morphological changes could even occur for the xerogels in the solvent vapors. We found that the interactions between the pyridylpyrazole headgroups and the solvents could subtly change the stacking of the molecules and, hence, their self‐assembled nanostructures. This work exemplifies that organic solvents can significantly involve the gelation, as well as tune the structure and properties, of a gel.     

Switching of Single‐Molecule Magnetic Properties of TbIII–Porphyrin Double‐Decker Complexes and Observation of Their Supramolecular Structures on a Carbon Surface

Double‐decker complexes based on single‐molecule magnets (SMMs) are a class of highly promising molecules for applications in molecular spintronics, wherein control of both the ligand oxidative states and the 2D supramolecular structure on carbon materials is of great importance. This study focuses on the synthesis and study of 2,3,7,8,12,13,17,18‐octaethylporphyrin (OEP)–Tb^III double‐decker complexes with different electronic structures comprising protonated, anionic, and radical forms. Magnetic susceptibility measurements revealed that only the anionic and radical forms of the OEP–Tb^III double‐decker complexes exhibited SMM properties. The barrier heights for magnetic moment reversal were estimated to be 207 and 215 cm^?1 for the anionic and radical forms, respectively. Scanning tunneling microscopy (STM) investigations revealed that these OEP–Tb^III complexes form well‐ordered monolayers upon simple dropcasting from dilute dichloromethane solutions. All three complexes form an isomorphic pseudo‐hexagonal 2D pattern, regardless of the differences in the electronic structures of their porphyrin–Tb cores. This finding is of interest for SMM technology as ultrathin films of these materials undergoing chemical transformations will not require any detrimental reorganization. Finally, we demonstrate self‐assembly of the protonated 5,15‐bisdodecylporphyrin (BDP)–Tb^III double‐decker complex as an example of successful supramolecular design to achieve controlled alignment of SMM‐active sites.     

Enantioselective Assembly of a Ruthenium(II) Polypyridyl Complex into a Double Helix

Evolution can increase the complexity of matter by self‐organization into helical architectures, the best example being the DNA double helix. One common aspect, apparently shared by most of these architectures, is the presence of covalent bonds within the helix backbone. Here, we report the unprecedented crystal structures of a metal complex that self‐organizes into a continuous double helical structure, assembled by non‐covalent building blocks. Built up solely by weak stacking interactions, this alternating tread stairs‐like double helical assembly mimics the DNA double helix structure. Starting from a racemic mixture in aqueous solution, the ruthenium(II) polypyridyl complex forms two polymorphic structures of a left‐handed double helical assembly of only the Λ‐enantiomer. The stacking of the helices is different in both polymorphs: a crossed woodpile structure versus a parallel columnar stacking.     

Functional Molecular Junctions Derived from Double Self‐Assembled Monolayers

Information processing using molecular junctions is becoming more important as devices are miniaturized to the nanoscale. Herein, we report functional molecular junctions derived from double self‐assembled monolayers (SAMs) intercalated between soft graphene electrodes. Newly assembled molecular junctions are fabricated by placing a molecular SAM/(top) electrode on another molecular SAM/(bottom) electrode by using a contact‐assembly technique. Double SAMs can provide tunneling conjugation across the van der Waals gap between the terminals of each monolayer and exhibit new electrical functions. Robust contact‐assembled molecular junctions can act as platforms for the development of equivalent contact molecular junctions between top and bottom electrodes, which can be applied independently to different kinds of molecules to enhance either the structural complexity or the assembly properties of molecules.     

Role of Achiral Nucleobases in Multicomponent Chiral Self‐Assembly: Purine‐Triggered Helix and Chirality Transfer

Chiral self‐assembly is a basic process in biological systems, where many chiral biomolecules such as amino acids and sugars play important roles. Achiral nucleobases usually covalently bond to saccharides and play a significant role in the formation of the double helix structure. However, it remains unclear how the achiral nucleobases can function in chiral self‐assembly without the sugar modification. Herein, we have clarified that purine nucleobases could trigger N‐(9‐fluorenylmethox‐ycarbonyl) (Fmoc)‐protected glutamic acid to self‐assemble into helical nanostructures. Moreover, the helical nanostructure could serve as a matrix and transfer the chirality to an achiral fluorescence probe, thioflavin T (ThT). Upon chirality transfer, the ThT showed not only supramolecular chirality but also circular polarized fluorescence (CPL). Without the nucleobase, the self‐assembly processes cannot happen, thus providing an example where achiral molecules played an essential role in the expression and transfer of the chirality.     

Steric‐Structure‐Dependent Gel Formation,Hierarchical Structures,Rheological Behavior,and Surface Wettability

A series of bicholesteryl‐based gelators with different central linker atoms C, N, and O (abbreviated to GC , GN , and GO , respectively) have been designed and synthesized. The self‐assembly processes of these gelators were investigated by using gelation tests, field‐emission scanning electron microscopy, field‐emission transmission electron microscopy, UV/Vis absorption, IR spectroscopy, X‐ray diffraction, rheology, and contact‐angle experiments. The gelation ability, self‐assembly morphology, rheological, and surface‐wettability properties of these gelators strongly depend on the central linker atom of the gelator molecule. Specifically, GC and GN can form gels in three different solvents, whereas GO can only form a gel in N,N‐dimethylformamide (DMF). Morphologies from nanofibers and nanosheets to nanospheres and nanotubes can be obtained with different central atoms. Gels of GC , GN , and GO formed in the same solvent (DMF) have different tolerances to external forces. All xerogels gave a hydrophobic surface with contact angles that ranged from 121 to 152°. Quantum‐chemical calculations indicate that the GC , GN , and GO molecules have very different steric structures. The results demonstrate that the central linker atom can efficiently modulate the molecular steric structure and thus regulate the supramolecular self‐assembly process and properties of gelators.     

Intermolecular H···O═C bonds induced 2D self‐assembly of thiophene based diketopyrrolopyrrole derivative

Compounds with diketopyrrolopyrrole (DPP) and thiophene moieties have attracted considerable attention because of their promising charge transport properties. The molecular conformation and self‐assembly of 2,5‐dihexadecyl‐3,6‐di(thiophen‐2‐yl)‐2,5‐dihydropyrrolo[3,4‐c]pyrrole‐1,4‐dione (TDPP‐C16) molecule have been investigated by scanning tunneling microscopy and density functional theory alculation. The TDPP‐C16 molecules adsorb with their optimized S‐shaped conformation and form a zipper‐like pattern on highly oriented pyrolytic graphite surface. R and S rotated structures are observed. The nanostructure is dominated by intermolecular double hydrogen bonds between C═O of the DPP units and hydrogen atom of thiophene rings in the neighboring molecules in each row. Atomic force microscopy and density functional theory calculation also display the existence of strong intermolecular hydrogen bonding. The results provide molecular evidence for the intermolecular interactions of the surface structure, which could benefit to the design of the organic semiconducting materials and understanding of underlying principle of charge transfer process. Copyright © 2017 John Wiley & Sons, Ltd.     

Self‐Assembly of Bolaamphiphilic Molecules

The current buzzword in science and technology is self‐assembly and molecular self‐assembly is one of the most prominent fields as far as research in chemical and biological sciences is concerned. Generally, self‐assembly of molecules occurs through weak non‐covalent interactions like hydrogen bonding, π–π stacking, hydrophobic effects, etc. Inspired by many natural systems consisting of self‐assembled structures, scientists have been trying to understand their formation and mimic such processes in the laboratory to create functional “smart” materials, which respond to temperature, light, pH, electromagnetic field, mechanical stress, and/or chemical stimuli. These responses are usually manifested as remarkable changes from the molecular (e. g., conformational state, hierarchical order) to the macroscopic level (e. g., shape, surface properties). Many molecules such as peptides, viruses, and surfactants are known to self‐assemble into different structures. Among them, glycolipids are the new entries in the area of molecules that are being investigated for their self‐assembly characteristics. Among the different classes of glycolipids like rhamnolipids and trehalose lipids, owing to their biological preparations and their structural novelty, sophorolipids (SLs) are evoking greater interest among researchers. Sophorolipids are a class of asymmetric bolas bearing COOH groups at one end and sophorose (dimeric glucose linked by an unusual β(1→2) linkage). The extreme membrane stability of Archaea, attributed to the membrane‐spanning bolas (tetraether glycolipids), has inspired chemists to unravel the molecular designs that underpin the self‐assembly of bolaamphiphilic molecules. Apart from these self‐assembled structures, bolaamphiphiles find applications in many fields such as drug delivery, membrane mimicking, siRNA therapies, etc. The first part of this Personal Account presents some possible self‐assembled structures of bolaamphiphiles and their mechanism of formation. The later part covers our work on one of the typical bolaamphiphiles known as sophorolipids.     

Frame‐Guided Assembly of Vesicles with Programmed Geometry and Dimensions

In molecular self‐assembly molecules form organized structures or patterns. The control of the self‐assembly process is an important and challenging topic. Inspired by the cytoskeletal‐membrane protein lipid bilayer system that determines the shape of eukaryotic cells, we developed a frame‐guided assembly process as a general strategy to prepare heterovesicles with programmed geometry and dimensions. This method offers greater control over self‐assembly which may benefit the understanding of the formation mechanism as well as the functions of the cell membrane.     

Breaking Parallel Orientation of Rods via a Dendritic Architecture toward Diverse Supramolecular Structures

Self‐assembled nanostructures of rod‐like molecules are commonly limited to nematic or layered smectic structures dominated by the parallel arrangement of the rod‐like components. Distinct self‐assembly behavior of four categories of dendritic rods constructed by placing a tri(hydroxy) group at the apex of dendritic oligo‐fluorenes is observed. Designed hydrogen bonding and dendritic architecture break the parallel arrangement of the rods, resulting in molecules with specific (fan‐like or cone‐like) shapes. While the fan‐shaped molecules tend to form hexagonal packing cylindrical phases, the cone‐shaped molecules could form spherical motifs to pack into various ordered structures, including the Frank–Kasper A15 phase and dodecagonal quasicrystal. This study provides a model system to engineer diverse supramolecular structures by rod‐like molecules and sheds new light into the mechanisms of the formation of unconventional spherical packing structures in soft matter.     

Arsenic in prebiotic species: a theoretical approach

A recent controversy about the presence of arsenic in biological systems prompted us to investigate the possible replacement of phosphorus by arsenic in prebiotic species small enough to be potentially identified in space. Systematic computational experiments were carried out on simple systems able to form a peptide or analogous bond. Density Functional Theory (DFT) within the B3LYP formalism, MP2 and CCSD(T) methods were used to determine the most stable isomers that can possibly form from the [C,H,O,As] and [C,3H,O,As] sets of atoms. It was found that HAsCO, like HPCO and HNCO was the most stable isomer. With three hydrogen atoms, the peptide-like bond (AsH(2)-CH=O) is not the most stable structure, contrary to NH(2)-CH=O. It is ～9 kcal mol(-1) higher than the most stable structure, CH(2)[double bond, length as m-dash]As-OH. To assess the plausibility of the As to P substitution, a comparative study of the dimethylphosphate (DMP) and dimethylarsenate (DMA) anions was then carried out. It was found that the gauche-gauche arrangement that mimics the helix structure is the most stable one in both model molecules, showing that there is no structural evidence to discard the hypothesis of the possible inclusion of As in place of P in the DNA architecture. The topological analysis of the ELF function showed a weakening by 50% of two As-O covalent bonds in all the DMA conformers. It means that if As replaces P, the structure of the DNA helix could be weakened. Rotational constants and IR frequencies of the low-lying isomers are given to encourage laboratory experiments on these prototype molecules.     

Cooperative,Reversible Self‐Assembly of Covalently Pre‐Linked Proteins into Giant Fibrous Structures

We demonstrate a simple bioconjugate polymer system that undergoes reversible self‐assembling into extended fibrous structures, reminiscent of those observed in living systems. It is comprised of green fluorescent protein (GFP) molecules linked into linear oligomeric strands through click step growth polymerization with dialkyne poly(ethylene oxide) (PEO). Confocal microscopy, atomic force microscopy, and dynamic light scattering revealed that such strands form high persistence length fibers, with lengths reaching tens of micrometers, and uniform, sub‐100 nm widths. We ascribe this remarkable and robust form of self‐assembly to the cooperativity arising from the known tendency of GFP molecules to dimerize through localized hydrophobic patches and from their covalent pre‐linking with flexible PEO. Dissipative particle dynamics simulations of a coarse‐grained model of the system revealed its tendency to form elongated fibrous aggregates, suggesting the general nature of this mode of self‐assembly.     

Effect of Head‐Group Chemistry on Surface‐Mediated Molecular Self‐Assembly

Surface molecular self‐assembly is a fast advancing field with broad applications in sensing, patterning, device assembly, and biochemical applications. A vast number of practical systems utilize alkane thiols supported on gold surfaces. Whereas a strong Au? S bond facilitates robust self‐assembly, the interaction is so strong that the surface is reconstructed, leaving etch pits that render the monolayers susceptible to degradation. By using different head group elements to adcust the molecule–surface interaction, a vast array of new systems with novel properties may be formed. In this paper we use a carefully chosen set of molecules to make a direct comparison of the self‐assembly of thioether, selenoether, and phosphine species on Au(111). Using the herringbone reconstruction of gold as a sensitive readout of molecule–surface interaction strength, we correlate head‐group chemistry with monolayer (ML) properties. It is demonstrated that the hard/soft rules of inorganic chemistry can be used to rationalize the observed trend of molecular interaction strengths with the soft gold surface, that is, P>Se>S. We find that the structure of the monolayers can be explained by the geometry of the molecules in terms of dipolar, quadrupolar, or van der Waals interactions between neighboring species driving the assembly of distinct ordered arrays. As this study directly compares one element with another in simple systems, it may serve as a guide for the design of self‐assembled monolayers with novel structures and properties.     

Peptide Nanofibers Modified with a Protein by Using Designed Anchor Molecules Bearing Hydrophobic and Functional Moieties

Self‐assembly of peptides and proteins is a key feature of biological functions. Short amphiphilic peptides designed with a β‐sheet structure can form sophisticated nanofiber structures, and the fibers are available as nanomaterials for arranging biomolecules. Peptide FI (H‐PKFKIIEFEP‐OH) self‐assembles into nanofibers with a coiled fine structure, as reported in our previous work. We have constructed anchor molecules that have both a binding moiety for the fiber structure and a functional unit capable of capturing target molecules, with the purpose of arranging proteins on the designed peptide nanofibers. Designed anchors containing an alkyl chain as a binding unit and biotin as a functional moiety were found to bind to peptide fibers FI and F2i (H‐ALEAKFAAFEAKLA‐NH₂). The surface‐exposed biotin moiety on the fibers could capture an anti‐biotin antibody. Moreover, hydrophobic dipeptide anchor units composed of iminodiacetate connected to Phe–Phe or Ile–Ile and a peptide composed of six histidine residues connected to biotin could also connect FI peptide fibers to the anti‐biotin antibody through the chelation of Ni²⁺ ions. This strategy of using designed anchors opens a novel approach to constructing nanoscale protein arrays on peptide nanomaterials.