Tuning Stopper Size in Multiresponsive [2]Rotaxanes for Fluoride Anion Selective Metastability

[23]Crown-7-ether incorporated [2]rotaxanes, comprising an anthracene blocker and 4-isopropylphenyl/cyclohexyl end groups, exhibited varying degrees of metastability with a range of chemical (base, halide anions) and physical (solvent, heat) stimuli. Among halides, fluoride, chloride, and bromide anions affected the deslippage of 23-crown-7-ether in 4-isopropylphenyl stoppered [2]rotaxane. Surprisingly, only fluoride anions could selectively induce deslippage in cyclohexyl stoppered [2]rotaxane, whose fluorescence quenching provided an additional tool to selectively detect the fluoride anions down to 2.49 × 10-7 M.

BP23C7: high-yield synthesis and application in constructing [3]rotaxanes and responsive pseudo[2]rotaxanes

A biphenyl-23-crown-7 ether (BP23C7) is synthesized in 86% yield from commercially available starting materials. BP23C7 forms pseudo[2]rotaxane with a dibenzylammonium ion (DBA+), exhibiting a good association constant value (ka = 1 × 103 M-1). Subsequently, fluorophoric properties of BP23C7 and anthracene terminated axles are blended to create responsive pseudo[2]rotaxanes. The "turn-on" fluorescence response of BP23C7 due to the addition of fluoride and chloride anions to pseudo[2]rotaxane systems has been investigated. Concomitant fluorescence quenching of the anthracene moiety of corresponding axles due to ion-pair formation has been addressed. Furthermore, two variants of [23]crown ethers, i.e. BP23C7 and o-xylene-23-crown-7 ether (X23C7), are applied for constructing homo[3]rotaxane architectures. A half-axle comprising of DBA+ moiety and a terminal olefin is mixed separately with two [23]crown ethers and subjected to self-metathesis using Grubbs' first-generation catalyst.

Balancing ring and stopper group size to control the stability of doubly threaded [3]rotaxanes

Synthesizing doubly threaded [3]rotaxanes requires the use of larger rings than more traditional singly threaded [2]rotaxanes. A key challenge in accessing stable doubly threaded [3]rotaxanes with large rings is finding the right combination of ring to stopper size. In this study, a series of doubly threaded [3]rotaxanes derived from five different sized macrocycles in the size range of 40-48 atoms and two different stopper groups, which contain 1 or 2 tris(p-t-butylbiphenyl)methyl moieties, were prepared and their kinetic stability examined. These interlocked compounds were synthesized using a metal-templated approach and fully characterized utilizing a combination of mass spectrometry, NMR spectroscopy, and size-exclusion chromatography techniques. The effect of ring size on the stability of the doubly threaded [3]rotaxane was investigated via kinetic stability tests monitored using 1H-NMR spectroscopy. By tightening the macrocycle systematically every 2 atoms from 48 to 40 atoms, a wide range of doubly threaded interlocked molecules could be accessed in which the rate of room temperature slippage of the macrocycle from the dumbbells could be tuned. Using the larger stopper group with a 48-atom ring results in no observable rotaxane, 46-44 atom macrocycles result in metastable rotaxane species with a slippage half-life of ∼5 weeks and ∼9 weeks, respectively, while macrocycles of 42 atoms or smaller yield a stable rotaxane. The smaller sized stopper is not able to fully stabilize any of the [3]rotaxane structures but metastable [3]rotaxanes are obtained with slippage half-lives of 25 ± 2 hours and 13 ± 1 days using macrocycles with 42 or 40 atoms, respectively. These results highlight the dramatic effect that relatively small ring size changes can have on the structure of doubly threaded [3]rotaxanes and lay the synthetic groundwork for a range of higher order doubly threaded interlocked architectures.

Preprogrammed assembly of supramolecular polymer networks via the controlled disassembly of a metastable rotaxane

In our daily life, some of the most valuable commodities are preprogrammed or preassembled by a manufacturer; the end-user puts together the final product and gathers properties or function as desired. Here, we present a chemical approach to preassembled materials, namely supramolecular polymer networks (SPNs), which wait for an operator's command to organize autonomously. In this prototypical system, the controlled disassembly of a metastable interlocked molecule (rotaxane) liberates an active species to the medium. This species crosslinks a ring-containing polymer and assembles with a reporting macrocycle to produce colorful SPNs. We demonstrate that by using identical preprogrammed systems, one can access multiple supramolecular polymer networks with different degrees of fluidity (μ^* = 2.5 to 624 Pa s^-1) and color, all as desired by the end-user.

Distinctive features and challenges in catenane chemistry

From being an aesthetic molecular object to a building block for the construction of molecular machines, catenanes and related mechanically interlocked molecules (MIMs) continue to attract immense interest in many research areas. Catenane chemistry is closely tied to that of rotaxanes and knots, and involves concepts like mechanical bonds, chemical topology and co-conformation that are unique to these molecules. Yet, because of their different topological structures and mechanical bond properties, there are some fundamental differences between the chemistry of catenanes and that of rotaxanes and knots although the boundary is sometimes blurred. Clearly distinguishing these differences, in aspects of bonding, structure, synthesis and properties, between catenanes and other MIMs is therefore of fundamental importance to understand their chemistry and explore the new opportunities from mechanical bonds.

Closing a Calix[6]arene-Based Funnel Zn2+ Complex at Its Large Rim Entrance: Consequences on Metal Ion Affinity and Host-Guest Properties

A molecular capsule based on a calix[6]arene core closed at the small rim by a three-point coordinated metal ion and at the large rim by a three-point covalent capping is described. It is derived from a trisimidazole funnel complex capped by a trenamide unit that prevents in/out exchange of guest molecules through the large rim. A detailed comparative study with three different calixarenes provides a unique opportunity for (i) comparing the binding ability of two different coordination sites in well three-dimensional (3D)-structured macrocyclic receptors and (ii) evaluating the impact of a covalent closing of one rim of a funnel receptor while the other rim is closed by weaker coordination bonds. Indeed, this study allowed for highlighting various interesting new features. It is first shown that the trenamide site can bind a metal ion such as Zn²⁺ by itself. This involves a 1:1 coordination of the metal ion to the three carbonyl groups of the amide functions, which undergo trans-to-cis isomerization and are partially embedded in the calix core. When the trisimidazole core is present, the Zn²⁺ ion preferentially binds at the small rim, thus closing the cavity. Guest ligand exchange must then occur through a decoordination/recoordination process of the metal ion. The modification and rigidification of the calixarene conformation induced by the large rim capping strengthen the metal ion coordination at the small rim. This also leads to a selective metallo-receptor that readily binds EtNH₂ under conditions where PrNH₂ is not recognized at all. The increased rigidity of the receptor, however, weakens the host-guest interactions, precluding important induced-fit behaviors that are at work in the parent, large rim opened, funnel complex.

Rapid and High-Yield Synthesis of [23]Crown Ether: Applied as a Wheel Component in the Formation of Pseudo[2]rotaxane and Synthesis of [2]Catenane with a Dibenzylammonium Dumbbell

A facile, rapid, and high yield synthesis of [23]crown ether (X23C7) has been developed from commercially available starting materials, in one step with good to excellent yield. The reaction is completed in 6 h under room temperature conditions, with the highest yield being 81%. The X23C7 macrocycle formed pseudo[2]rotaxane with a dibenzylammonium ion (DBA⁺) dumbbell, exhibiting strong association (K_a = 2.61 × 10³ M^-1). Consequently, a [2]catenane was synthesized from a DBA⁺-based diolefin terminated salt and X23C7 in 81% yield, using a threading-followed-ring-closing-metathesis approach.

Structural Insights into the Host-Guest Complexation between β-Cyclodextrin and Bio-Conjugatable Adamantane Derivatives

Understanding the host–guest chemistry of α-/β-/γ- cyclodextrins (CDs) and a wide range of organic species are fundamentally attractive, and are finding broad contemporary applications toward developing efficient drug delivery systems. With the widely used β-CD as the host, we herein demonstrate that its inclusion behaviors toward an array of six simple and bio-conjugatable adamantane derivatives, namely, 1-adamantanol (adm-1-OH), 2-adamantanol (adm-2-OH), adamantan-1-amine (adm-1-NH₂), 1-adamantanecarboxylic acid (adm-1-COOH), 1,3-adamantanedicarboxylic acid (adm-1,3-diCOOH), and 2-[3-(carboxymethyl)-1-adamantyl]acetic acid (adm-1,3-diCH₂COOH), offer inclusion adducts with diverse adamantane-to-CD ratios and spatial guest locations. In all six cases, β-CD crystallizes as a pair supported by face-to-face hydrogen bonding between hydroxyl groups on C2 and C3 and their adjacent equivalents, giving rise to a truncated-cone-shaped cavity to accommodate one, two, or three adamantane derivatives. These inclusion complexes can be terminated as (adm-1-OH)₂⊂CD₂ (1, 2:2), (adm-2-OH)₃⊂CD₂ (2, 3:2), (adm-1-NH₂)₃⊂CD₂ (3, 3:2), (adm-1-COOH)₂⊂CD₂ (4, 2:2), (adm-1,3-diCOOH)⊂CD₂ (5, 1:2), and (adm-1,3-diCH₂COOH)⊂CD₂ (6, 1:2). This work may shed light on the design of nanomedicine with hierarchical structures, mediated by delicate cyclodextrin-based hosts and adamantane-appended drugs as the guests.

A hydrogen-bonded polymer constructed from mechanically interlocked, suit[1]ane monomers

A T-shaped 2,4,7-substituted benzimidazolium “axle” with two ester functionalities and a 24-membered crown ether “wheel” with appendages containing terminal olefin groups were threaded — axle through wheel — to form a [2]pseudorotaxane. Grubbs’ ring-closing metathesis (RCM) was then used to form a third loop and create a bicyclic cage that fully encapsulates the axle and permanently interlocks the two molecular components creating a suit[1]ane. There are no bulky groups on the axle to prevent unthreading, but the axle is trapped due to the cage-like nature of the newly created polyether host. After hydrolysis of the esters groups to carboxylic acids, this novel mechanically interlocked molecule (MIM) polymerizes in the solid state. The structure of the resulting supramolecular polymer was determined by single-crystal X-ray diffraction and contains linear one-dimensional tapes of suit[1]ane monomers linked by intermolecular hydrogen bonding between the carboxylic acid groups.

Synthesis and Binding Properties of a Tren-Capped Hexahomotrioxacalix[3]arene

The straightforward synthesis of a new hexahomotrioxacalix[3]arene-based ligand capped by a tren subunit was developed and the binding properties of the corresponding zinc complex were explored by NMR spectroscopy. Similarly to the closely related calix[6]tren-based systems, the homooxacalixarene core ensures the mononuclearity of the zinc complex and the metal center displays a labile coordination site for exogenous guests. However, very different host-guest properties were observed: i) in CDCl₃ , the zinc complex strongly binds a water molecule and is reluctant to recognize other neutral guests, ii) in CD₃ CN, the exo-coordination of anions prevails. Thus, in strong contrast to the calix[6]tren-based systems, the coordination of neutral guests that thread through the small rim and fill the polyaromatic cavity was not observed. This unique behaviour is likely due to the fact that the 18-membered ethereal macrocycle is too small to let a molecule threading through it. This work illustrates the key role played by the second coordination sphere in the binding properties of metal complexes.

Programming permanent and transient molecular protection via mechanical stoppering

Chemical protection is an essential tool in synthetic chemistry, which involves blocking reactive sites on a molecule through covalent bonds. Physical approaches, such as encapsulation and host-mediated protection, have emerged as interesting alternatives that use steric bulk to inhibit reactivity. Here, we report the protection of a redox-active viologen through its incorporation into mechanically interlocked molecules (MIMs), namely hetero[4]rotaxanes. The viologen was confined inside a host cavity and flanked by two mechanical stoppers, which allowed for permanent and transient protection. Deprotection occurred on-demand via an unstoppering process, triggered by a proton transfer, polarity effect, or a thermal stimulus. We anticipate that permanent and transient mechanical stoppering could be incorporated into devices to function as molecular probes, transport/delivery systems, or stimuli-controlled degradable materials.

Disabling Molecular Recognition through Reversible Mechanical Stoppering

Mechanical stoppering of a guest molecule prevents its self-assembly with a macrocycle unit, so that both species coexist in a medium but do not recognize each other. The application of a chemical or physical stimulus reverses mechanical stoppering and subsequently enables molecular recognition. This process, which occurs without cross-reactivity and is perceptible at the macroscopic scale, could facilitate programming on/off states in supramolecular materials and molecular devices.

A switchable [2]rotaxane with two active alkenyl groups

A novel functional [2]rotaxane containing two alkenyl bonds was designed, synthesized and characterized by ¹H, ¹³C NMR spectroscopy and HRESI mass spectrometry. The introduction of alkenyl bonds endowed the [2]rotaxane a fascinating ability to react with versatile functional groups such as alkenyl and thiol functional groups. The reversible shuttling movement of the macrocycle between two different recognition sites on the molecular thread can be driven by external acid and base. This kind of rotaxane bearing functional groups provides a powerful platform for preparing stimuli-responsive polymers.

Synthesis of spiro quasi[1]catenanes and quasi[1]rotaxanes via a templated backfolding strategy

Due to their well-defined three-dimensional geometry, spiro compounds are widely utilized in drug research. From the central tetrahedral carbon atom, besides the regular structure, an inverted spiro connectivity may be envisioned. Here we disclose the synthesis of this molecule class that we have coined quasi[1]catenanes. Next to their fascinating and aesthetic shape, the higher compactness as compared to regular spiro bicycles is noteworthy. To enable synthetic access to compact entangled multimacrocyclic molecules, we have developed a new strategy. The key element is a template, which is covalently connected to the linear precursors, and spatially directs the sterically congested backfolding macrocyclizations that are required to give quasi[1]catenanes. Similarly, quasi[1]rotaxanes are made.

Spiro compounds contain two or more rings linked together through one common atom. Here the authors provide a method to backfold both rings, producing spiro quasi[1]catenanes, via a strategy of temporarily linking the linear intermediates with covalent bonds.

Reversible mechanical protection: building a 3D "suit" around a T-shaped benzimidazole axle

The T-shaped benzimidazolium/crown ether recognition motif was used to prepare suit[1]anes. These novel mechanically interlocked molecules (MIMs) were fully characterized by 1H and 13C NMR spectroscopy, single-crystal X-ray diffraction, UV-vis absorption and fluorescence spectroscopy. By conversion to a suit[1]ane, a simple benzimidazole was shown to be protected from deprotonation by strong base. Moreover, it was demonstrated that this unique three-dimensional encapsulation can be made reversible, thus introducing the concept of "reversible mechanical protection"; a protecting methodology that may have potential applications in synthetic organic chemistry and the design of molecular machinery.

Water-soluble pillar[5]arene induced the morphology transformation of self-assembled nanostructures and had further application in paraquat detection

Hex-4ClPBI can self-assemble into nanotubes in water, and the tubular structures can be transformed into nanoribbons and further vesicles by addition of H⁺ and further WP5.

Carboxylatopillar[n]arenes: a versatile class of water soluble synthetic receptors

Carboxylatopillar[n]arenes (CP[n]As, n = 5, 6, 7, 9, 10) constitute a family of water soluble synthetic receptors. These receptors are excellent hosts for a wide range of cationic organic molecules and have shown promising application in the fields of stimuli-responsive supramolecular assemblies, targeted drug delivery vehicles and sensors. Analogous metal-coordinated prismatic structures have shown excellent affinities for analytes.

Lasso peptides: an intriguing class of bacterial natural products

Natural products of peptidic origin often represent a rich source of medically relevant compounds. The synthesis of such polypeptides in nature is either initiated by deciphering the genetic code on the ribosome during the translation process or driven by ribosome-independent processes. In the latter case, highly modified bioactive peptides are assembled by multimodular enzymes designated as nonribosomal peptide synthetases (NRPS) that act as a protein-template to generate chemically diverse peptides. On the other hand, the ribosome-dependent strategy, although relying strictly on the 20-22 proteinogenic amino acids, generates structural diversity by extensive post-translational-modification. This strategy seems to be highly distributed in all kingdoms of life. One example for this is the lasso peptides, which are an emerging class of ribosomally assembled and post-translationally modified peptides (RiPPs) from bacteria that were first described in 1991. A wide range of interesting biological activities are known for these compounds, including antimicrobial, enzyme inhibitory, and receptor antagonistic activities. Since 2008, genome mining approaches allowed the targeted isolation and characterization of such molecules and helped to better understand this compound class and their biosynthesis. Their defining structural feature is a macrolactam ring that is threaded by the C-terminal tail and held in position by sterically demanding residues above and below the ring, resulting in a unique topology that is reminiscent of a lariat knot. The ring closure is achieved by an isopeptide bond formed between the N-terminal α-amino group of a glycine, alanine, serine, or cysteine and the carboxylic acid side chain of an aspartate or glutamate, which can be located at positions 7, 8, or 9 of the amino acid sequence. In this Account, we discuss the newest findings about these compounds, their biosynthesis, and their physicochemical properties. This includes the suggested mechanism through which the precursor peptide is enzymatically processed into a mature lasso peptide and crucial residues for enzymatic recognition. Furthermore, we highlight new insights considering the protease and thermal stability of lasso peptides and discuss why seven amino acid residue rings are likely to be the lower limit feasible for this compound class. To elucidate their fascinating three-dimensional structures, NMR spectroscopy is commonly employed. Therefore, the general methodology to elucidate these structures by NMR will be discussed and pitfalls for these approaches are highlighted. In addition, new tools provided by recent investigations to assess and prove the lasso topology without a complete structure elucidation will be summarized. These include techniques like ion mobility-mass spectrometry and a combined approach of thermal and carboxypeptidase treatment with subsequent LC-MS analysis. Nevertheless, even though much was learned about these compounds in recent years, their true native function and the exact enzymatic mechanism of their maturation remain elusive.

Binding of carboxylatopillar[5]arene with alkyl and aryl ammonium salts in aqueous medium

Alkyl ammonium salts exhibited strong binding with carboxylatopillar[5]arene in aqueous medium which resulted in the formation of pseudo[2]rotaxane and pseudo[3]rotaxane species.

A switchable bis-branched [1]rotaxane featuring dual-mode molecular motions and tunable molecular aggregation

A multifunctional bis-branched [1]rotaxane containing a perylene bisimide (PBI) core and two identical bistable[1]rotaxane arms terminated with ferrocene units was prepared and characterized by (1)H NMR, (13)C NMR, and 2D ROESY NMR spectroscopies and by HR-ESI spectrometry. The system is shown to possess several key features: (1) In acetone solution, external acid-base stimuli can result in relative mechanical movements of its ring and thread, which can induce extension and contraction movements of the whole system accompanied by a rotational movement of the ferrocene units, thus realizing dual-mode molecular motions, and the optimized conformations at different states are obtained through molecular dynamics simulations employing the general Amber force field. (2) The introduction of PBI enables the system fluorescence encoding through distance-dependent photoinduced electron transfer process from the ferrocene units to the PBI fluorophore. (3) The addition of Zn(2+) can increase the degree of aggregation of the system, while adding base hinders aggregation because of the movement of the macrocycle. The tunable aggregated nanostructural morphologies of [1]rotaxane were examined by scanning electron microscopy. These results can pave the way to achieve precise control of integrated and coupling nanomechanical motions at a single-molecule level and provide more insight into controlling the aggregate behavior of switchable mechanically interlocked molecules.

A musclelike [2](2)rotaxane: synthesis, performance, and molecular dynamics simulations

A novel bistable symmetric [2](2)rotaxane was prepared by a threading-followed-by-stoppering strategy and characterized with (1)H, (13)C, and 2D ROESY NMR spectroscopy and HR-ESI spectrometry. The symmetric [2](2)rotaxane system consists of an anthracene-based bis(crown ether) as macrocycles, and each of the two dibenzo[24]crown-8 (DB24C8) rings is threaded by the pendant substituents of a symmetrically substituted central rotatable ferrocene subunit that possesses two distinguishable recognition sites for the DB24C8 ring: namely, a dibenzylammonium site and an N-methyltriazolium site. The uniform shuttling motion of the thread relative to the two DB24C8 rings in [2](2)rotaxane can be driven by external acid-base stimuli, which was evidenced by (1)H and 2D ROESY NMR spectroscopy. Furthermore, molecular dynamics simulations of the [2](2)rotaxane were carried out both in protonated (stretched) and in neutral (contracted) forms. The calculated percentage change in molecular length of the [2](2)rotaxane between the two end-capping bis(methoxyl)phenyl groups is about 48% in the two different states (in acetone), which is much larger than the percentage change (∼27%) in human muscle. Moreover, in the two states, the C*-Cp-Cp-C* dihedral angles are computed as -177° in the stretched state and -112° in the contracted state, indicating a correlation between the translational and rotational motions of the [2](2)rotaxane.

Fluorescence modulation in tribranched switchable [4]rotaxanes

Two novel tribranched [4]rotaxanes with a 1,3,5-triphenylene core and three rotaxane arms have been designed, synthesized, and characterized by (1)H and (13)C NMR spectroscopies and HR-ESI mass spectrometry. [4]Rotaxanes 1 and 2 each possess the same three-armed skeleton. Each arm incorporates two distinguishable binding sites for a dibenzo[24]crown-8 ring, namely a dibenzylammonium site and an N-methyltriazolium site, and is terminated by a 4-morpholino-naphthalimide fluorophore as a stopper. [4]Rotaxane 1 has three di-ferrocene-functionalized dibenzo[24]crown-8 rings whereas 2 has three simple dibenzo[24]crown-8 rings interlocked with the thread component. Uniform shuttling motions of the three macrocycles in both 1 and 2 can be driven by external acid-base stimuli, which were confirmed by (1)H NMR spectroscopy. However, [4]rotaxanes 1 and 2 show distinct modes of fluorescence modulation in response to external acid-base stimuli. [4]Rotaxane 1 exhibits a remarkable fluorescence decrease in response to the addition of 1,8-diazabicyclo[5.4.0]undec-7-ene (DBU) as a base, which can displace the ferrocene-functionalized macrocycle from the dibenzylammonium station to the N-methyltriazolium station. In contrast, the fluorescence intensity of [4]rotaxane 2 showed an enhancement with the addition of DBU. Time-resolved fluorescence measurements have been performed. The different photoinduced electron-transfer processes responsible for the fluorescence changes in the two molecular systems are discussed. Topological structures of this kind have significant potential for the design and construction of large and complex assemblies with controllable functions.