Rotaxanes and biofunctionalized pseudorotaxanes via thiol-maleimide click chemistry

Base-catalyzed thiol-maleimide click chemistry has been applied to the synthesis of neutral donor-acceptor [2]rotaxanes in good yield. This method is extended further to the synthesis of a glutathione-functionalized [2]pseudorotaxane, a precursor to integrated conjugates of interlocked molecules with proteins and enzymes.     

Post-assembly processing of [2]rotaxanes

The concept of using [2]rotaxanes that carry one or more surrogate stoppers which can subsequently be converted chemically into other structural units, resulting in the formation of new interlocked molecular compounds, is introduced and exemplified. Starting from simple NH2(+)-centered/crown-ether-based [2]rotaxanes, containing either one or two benzylic triphenylphosphonium stoppers, the well-known Wittig reaction has been employed to make, 1) other [2]rotaxanes, 2) higher order rotaxanes, 3) branched rotaxanes, and 4) molecular shuttles--all isolated as pure compounds, following catalytic hydrogenations of their carbon-carbon double bonds, obtained when aromatic aldehydes react with the ylides produced when the benzylic triphenylphosphonium derivatives are treated with strong base. The two starting [2]rotaxanes were characterized fully in solution and also in the solid state by X-ray crystallography. The new interlocked molecular compounds that result from carrying out post-assembly Wittig reactions on two [2]rotaxanes were characterized by (dynamic) 1H NMR spectroscopy. In the case of a molecular shuttle in which the crown ether component is dibenzo[24]-crown-8 (DB24C8), shuttling is slow on the 1H NMR timescale, even at high temperatures. However, when DB24C8 is replaced by benzometaphenylene[25]-crown-8 as the ring component in the molecular shuttle, the frequency of the shuttling is observed to be around 100 Hz in [D4]methanol at 63 degrees C.     

Construction of Crown Ether‐Stoppering [3]Rotaxanes Based on N‐Hetero Crown Ether Host

Crown ether usually plays the role of macrocyclic host in supramolecular chemistry, but here the crown ether is also utilized as the stoppers in rotaxanes. In this work, we designed and synthesized two [3]rotaxanes containing four crown ether components by using an approach of template‐directed clipping reaction, of which, two crown ether components were employed as the macrocyclic hosts to assemble the mechanically interlocked framework while another two crown ether units located on the two ends of ammonium template acting as the stoppering groups of rotaxanes. Their self‐assembling process was monitored by the ¹H NMR and one of the single crystal structures of [3]rotaxane was obtained.     

Anion Sensing by Solution‐ and Surface‐Assembled Osmium(II) Bipyridyl Rotaxanes

We report the preparation of [2]rotaxanes containing an electrochemically and optically active osmium(II) bipyridyl macrocyclic component mechanically bonded with cationic pyridinium axles. Such interlocked host systems are demonstrated to recognise and sense anionic guest species as shown by ¹H NMR, luminescence and electrochemical studies. The rotaxanes can be surface assembled on to gold electrodes through anion templation under click copper(I)‐catalysed Huisgen cycloaddition conditions to form rotaxane molecular films, which, after template removal, respond electrochemically and selectively to chloride.     

Redox-controllable amphiphilic [2]rotaxanes

With the fabrication of molecular electronic devices (MEDs) and the construction of nanoelectromechanical systems (NEMSs) as incentives, two constitutionally isomeric, redox-controllable [2]rotaxanes have been synthesized and characterized in solution. Therein, they both behave as near-perfect molecular switches, that is, to all intents and purposes, these two rotaxanes can be switched precisely by applying appropriate redox stimuli between two distinct chemomechanical states. Their dumbbell-shaped components are composed of polyether chains interrupted along their lengths by i) two pi-electron rich recognition sites-a tetrathiafulvalene (TTF) unit and a 1,5-dioxynaphthalene (DNP) moiety-with ii) a rigid terphenylene spacer placed between the two recognition sites, and then terminated by iii) a hydrophobic tetraarylmethane stopper at one end and a hydrophilic dendritic stopper at the other end of the dumbbells, thus conferring amphiphilicity upon these molecules. A template-directed protocol produces a means to introduce the tetracationic cyclophane, cyclobis(paraquat-p-phenylene) (CBPQT(4+)), which contains two pi-electron accepting bipyridinium units, mechanically interlocked around the dumbbell-shaped components. Both the TTF unit and the DNP moiety are potential stations for CBPQT(4+), since they can establish charge-transfer and hydrogen bonding interactions with the bipyridinium units of the cyclophane, thereby introducing bistability into the [2]rotaxanes. In both constitutional isomers, (1)H NMR and absorption spectroscopies, together with electrochemical investigations, reveal that the CBPQT(4+) ring is predominantly located on the TTF unit, leading to the existence of a single translational isomer (co-conformation) in both cases. In addition, a model [2]rotaxane, incorporating hydrophobic tetraarylmethane stoppers at both ends of its dumbbell-shaped component, has also been synthesized as a point of reference. Molecular synthetic approaches were used to construct convergently the dumbbell-shaped compounds by assembling progressively smaller building blocks in the shape of the rigid spacer, the TTF unit and the DNP moiety, and the hydrophobic and hydrophilic stoppers. The two amphiphilic bistable [2]rotaxanes are constitutional isomers in the sense that, in one constitution, the TTF unit is adjacent to the hydrophobic stopper, whereas in the other, it is next to the hydrophilic stopper. All three bistable [2]rotaxanes have been isolated as green solids. Electrospray and fast atom bombardment mass spectra support the gross structural assignments given to all three of these mechanically interlocked compounds. Their photophysical and electrochemical properties have been investigated in acetonitrile. The results obtained from these investigations confirm that, in all three [2]rotaxanes, i) the CBPQT(4+) cyclophane encircles the TTF unit, ii) the CBPQT(4+) cyclophane shuttles between the TTF and DNP stations upon electrochemical or chemical oxidation/reduction of the TTF unit, and iii) folded conformations are present in which the CBPQT(4+) cyclophane, while encircling the TTF unit, interacts through its pi-accepting bipyridinium exteriors with other pi-donating components of the dumbbells, especially those located within the stoppers.     

DNA Origami Rotaxanes: Tailored Synthesis and Controlled Structure Switching

Mechanically interlocked supramolecular assemblies are appealing building blocks for creating functional nanodevices. Herein, we describe the multistep assembly of large DNA origami rotaxanes that are capable of programmable structural switching. We validated the topology and structural integrity of these rotaxanes by analyzing the intermediate and final products of various assembly routes by electrophoresis and electron microscopy. We further analyzed two structure‐switching behaviors of our rotaxanes, which are both mediated by DNA hybridization. In the first mechanism, the translational motion of the macrocycle can be triggered or halted at either terminus. In the second mechanism, the macrocycle can be elongated after completion of the rotaxane assembly, giving rise to a unique structure that is otherwise difficult to access.     

Dynamic covalent approach to [2]- and [3]roxtanes by utilizing a reversible thiol-disulfide interchange reaction

A dynamic covalent approach to disulfide-containing [2]- and [3]rotaxanes is described. Symmetrical dumbbell-shaped compounds with two secondary ammonium centers and a central located disulfide bond were synthesized as components of rotaxanes. The rotaxanes were synthesized from the dumbbell-shaped compounds and dibenzo-[24]crown-8 (DB24C8) with catalysis by benzenethiol. The yields of isolated rotaxanes reached about 90 % under optimized conditions. A kinetic study on the reaction forming [2]rotaxane 2 a and [3]rotaxane 3 a suggested a plausible reaction mechanism comprising several steps, including 1) initiation, 2) [2]rotaxane formation, and 3) [3]rotaxane formation. The whole reaction was found to be reversible in the presence of thiols, and thermodynamic control over product distribution was thus possible by varying the temperature, solvent, initial ratio of substrates, and concentration. The steric bulk of the end-capping groups had almost no influence on rotaxane yields, but the structure of the thiol was crucial for reaction rates. Amines and phosphines were also effective as catalysts. The structural characterization of the rotaxanes included an X-ray crystallographic study on [3]rotaxane 3 a.     

The Effect of Incorporating Fréchet Dendrons into Rotaxanes and Molecular Shuttles Containing the 1,2‐Bis(pyridinium)ethane⊂[24]Crown‐8 Templating Motif

Fréchet‐type dendrons (G0–G3) were added as both axle stoppering units and cyclic wheel appendages in a series of [2]rotaxanes, [3]rotaxanes, and molecular shuttles that employ 1,2‐bis(pyridinium)ethane axles and 24‐membered crown ethers wheels. The addition of dendrimer wedges as stoppering units dramatically increased the solubility of simple [2]rotaxanes in nonpolar solvents. The X‐ray structure of a G1‐stoppered [2]rotaxane shows how the dendritic units affect the structure of the interlocked components. Increased solubility allows observation of how the interaction of dendritic units on separate components in interlocked molecules influences switching properties and molecular size. In a series of [2]rotaxane molecular shuttles incorporating two recognition sites, it was demonstrated that an increase in generation on either the stoppering unit or cyclic wheel could influence both the rate of shuttling and the site preference of the wheel on the axle.     

Heterobifunctional Rotaxanes for Asymmetric Catalysis

Heterobifunctional rotaxanes serve as efficient catalysts for the addition of malonates to Michael acceptors. We report a series of four different heterobifunctional rotaxanes, featuring an amine‐based thread and a chiral 1,1′‐binaphthyl‐phosphoric‐acid‐based macrocycle. High‐level DFT calculations provided mechanistic insights and enabled rational catalyst improvements, leading to interlocked catalysts that surpass their non‐interlocked counterparts in terms of reaction rates and stereoselectivities.     

Kinetic versus thermodynamic control during the formation of [2]rotaxanes by a dynamic template-directed clipping process

A template-directed dynamic clipping procedure has generated a library of nine [2]rotaxanes that have been formed from three dialkylammonium salts-acting as the dumbbell-shaped components-and three dynamic, imino bond-containing, [24]crown-8-like macrocycles-acting as the ring-shaped components-which are themselves assembled from three dialdehydes and one diamine. The rates of formation of these [2]rotaxanes differ dramatically, from minutes to days depending on the choice of dialkylammonium ion and dialdehyde, as do their thermodynamic stabilities. Generally, [2]rotaxanes formed by using 2,6-diformylpyridine as the dialdehyde component, or bis(3,5-bis(trifluoromethyl)benzyl)ammonium hexafluorophosphate as the dumbbell-shaped component, assembled the most rapidly. Those rotaxanes containing this particular electron-deficient dumbbell-shaped unit, or 2,5-diformylfuran units in the macroring, were the most stable thermodynamically. The relative thermodynamic stabilities of all nine of the [2]rotaxanes were determined by competition experiments that were monitored by (1)H NMR spectroscopy.     

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 ¹H and ¹³C 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 ¹H 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.     

Functional Rotaxanes in Catalysis

Mechanically interlocked molecules (MIMs) have gained attention in the field of catalysis due to their unique molecular properties. Central to MIMs, rotaxanes are highly promising and attractive supramolecular catalysts due to their unique three-dimensional structures and the flexibility of their subcomponents. This Minireview discusses the use of rotaxanes in organocatalysis and transition-metal catalysis.     

2]Rotaxanes containing pyridinium-phosphonium axles and 24-crown-8 ether wheels

A triethylphosphonium group attached to a pyridinium ethane moiety can be used as an axle for the self-assembly of [2]pseudorotaxanes and [2]rotaxanes. Although [2]pseudorotaxane formation is limited due to the bulk of the PR4+ group, [2]rotaxanes can be formed utilising 24-crown-8 ether, benzo-24-crown-8 ether and naphtho-24-crown-8 ether. The synthesis of these [2]rotaxanes and the X-ray structure of the [2]rotaxane containing a 24-crown-8 ether wheel are described. When the crown ether contains an aromatic group two possible conformational isomers exist; these are identified at low temperature by 1H and 31P NMR spectroscopy.     

Synthesis of Cucurbit[5]uril-Spermine-[2]Rotaxanes

Cucurbit[5]uril and decamethylcucurbit[5]uril are cyclic pentamers built from glycoluril or dimethylglycoluril respectively. Two different experimental methods have been used for the synthesis of the different [2]rotaxanes. The formed rotaxanes are characterized using ¹H-NMR spectroscopy, mass spectrometry and elemental analysis. In contrast to cucurbit[5]uril no [2]rotaxane could be obtained with decamethylcucurbit[5]uril.     

Pentafluorophenyl Esters as Exchangeable Stoppers for the Construction of Photoactive [2]Rotaxanes

Stable pillar[5]arene-containing [2]rotaxane building blocks with pentafluorophenyl ester stoppers have been efficiently prepared on a multi-gram scale. Reaction of these building blocks with various nucleophiles gave access to a wide range of [2]rotaxanes with amide, ester or thioester stoppers in good to excellent yields. The rotaxane structure is fully preserved during these chemical transformations. Actually, the addition-elimination mechanism at work during these transformations totally prevents the unthreading of the axle moiety of the mechanically interlocked system. The stopper exchange reactions were optimized both in solution and under mechanochemical solvent-free conditions. While amide formation is more efficient in solution, the solvent-free conditions are more powerful for the transesterification reactions. Starting from a fullerene-functionalized pillar[5]arene derivative, this new strategy gave easy access to a photoactive [2]rotaxane incorporating a C₆₀ moiety and two Bodipy stoppers. Despite the absence of covalent connectivity between the Bodipy and the fullerene moieties in this photoactive molecular device, efficient through-space excited state interactions have been evidenced in this rotaxane.     

Cyclodextrin‐Based Size‐Complementary [3]Rotaxanes: Selective Synthesis and Specific Dissociation

α‐Cyclodextrin (CD)‐based size‐complementary [3]rotaxanes with alkylene axles were prepared in one‐pot by end‐capping reactions with aryl isocyanates in water. The selective formation of [3]rotaxane with a head‐to‐head regularity was indicated by the X‐ray structural analyses. Thermal degradation of the [3]rotaxanes bearing appropriate end groups proceeded by stepwise dissociation to yield not only the original components but also [2]rotaxanes. From the kinetic profiles of the deslippage, it turned out that the maximum yield of [2]rotaxane was estimated to be 94 %. Thermodynamic studies and NOESY analyses of such rotaxanes revealed that [2]rotaxanes are specially stabilized, and that the dissociation capability of the [3]rotaxanes to the components can be adjusted by controlling the structure of the end groups, direction of the CD groups, and length of the alkylene axle.     

Increased Halide Recognition Strength by Enhanced Intercomponent Preorganisation in Triazolium Containing [2]Rotaxanes

Three triazolium‐based [2]rotaxanes containing different sized axle and macrocycle components were synthesised in good yields (40–57 %) through chloride anion templation. The anion recognition properties of the interlocked receptor systems were investigated using ¹H NMR titration experiments: all three rotaxanes display impressive selectivities for halide anions over the more basic oxoanion acetate. The rotaxanes incorporating shorter, more rigid axle components with aryl‐substituted triazolium groups display substantially higher anion binding affinities than those with longer, bis‐alkyl‐substituted heterocycles, which is attributed to the increased intercomponent preorganisation afforded by the smaller axle component. Computational DFT and molecular dynamics simulations composed of unconstrained and umbrella sampling simulations corroborate the experimental observations.     

Halotriazolium Axle Functionalised [2]Rotaxanes for Anion Recognition: Investigating the Effects of Halogen‐Bond Donor and Preorganisation

The anion‐templated synthesis of three novel halogen‐bonding 5‐halo‐1,2,3‐triazolium axle containing [2]rotaxanes is described, and the effects of altering the nature of the halogen‐bond donor atom together with the degree of inter‐component preorganisation on the anion‐recognition properties of the interlocked host investigated. The ability of the bromotriazolium motif to direct the halide‐anion‐templated assembly of interpenetrated [2]pseudorotaxanes was studied initially; bromide was found to be the most effective template. As a consequence, bromide anion templation was used to synthesise the first bromotriazolium axle containing [2]rotaxane, the anion‐binding properties of which, determined by ¹H NMR spectroscopic titration experiments, revealed enhanced bromide and iodide recognition relative to a hydrogen‐bonding protic triazolium rotaxane analogue. Two halogen‐bonding [2]rotaxanes with bromo‐ and iodotriazolium motifs integrated into shortened axles designed to increase inter‐component preorganisation were also synthesised. Anion ¹H NMR spectroscopic titration experiments demonstrated that these rotaxanes were able to bind halide anions even more strongly, with the iodotriazolium axle integrated rotaxane capable of recognising halides in aqueous solvent media. Importantly, these observations suggest that a halogen‐bonding interlocked host binding domain, in combination with increased inter‐component preorganisation, are requisite design features for a potent anion receptor.     

A Simple and Highly Effective Ligand System for the Copper(I)‐Mediated Assembly of Rotaxanes

A [2]rotaxane was produced through the assembly of a picolinaldehyde, an amine, and a bipyridine macrocycle around a Cu^I template by imine bond formation in close‐to‐quantitative yield. An analogous [3]rotaxane is obtained in excellent yield by replacing the amine with a diamine, thus showing the suitability of the system for the construction of higher order interlocked structures. The rotaxanes are formed within a few minutes simply through mixing the components in solution at room temperature and they can be isolated through removal of the solvent or precipitation.     

Amphiphilic Bistable Rotaxanes

Two molecular shuttles/switches—a slow one and a fast one—in the shape of amphiphilic, bistable [2]rotaxanes have been synthesized and characterized. Both [2]rotaxanes contain a hydrophobic, tetraarylmethane and a hydrophilic, dendritic stopper. They are comprised of two π‐electron‐rich stations—a monopyrrolotetrathiafulvalene unit and a 1,5‐dioxynaphthalene moiety—which can act as recognition sites for the tetracationic cyclophane, cyclobis(paraquat‐p‐phenylene), to reside around. In addition, a model [2]rotaxane, incorporating only a monopyrrolotetrathiafulvalene unit in the rod section of the amphiphilic dumbbell component and cyclobis(paraquat‐p‐phenylene) as the ring component, has been investigated. The dumbbell‐shaped components were constructed using conventional synthetic methodologies to assemble 1) the hydrophobic, tetraarylmethane stopper and 2) the hydrophilic, dendritic stopper. Next, 3) the hydrophobic stopper was fused to the 1,5‐dioxynaphthalene moiety and/or the monopyrrolotetrathiafulvalene unit by appropriate alkylations, followed by 4) attachment of the hydrophilic stopper, once again by alkylation to give the dumbbell‐shaped compounds. Finally, 5) the [2]rotaxanes were self‐assembled by using the dumbbells as templates for the formation of the encircling cyclobis(paraquat‐p‐phenylene) tetracations. The two [2]rotaxanes differ in their arrangement of the π‐electron‐rich units, one in which the SMe group of the monopyrrolotetrathiafulvalene unit points toward the 1,5‐dioxynaphthalene moiety ( 2 ?4 PF₆) and another in which it points away from the 1,5‐dioxynaphthalene moiety ( 3 ?4 PF₆). This seemingly small difference in the orientation of the monopyrrolotetrathiafulvalene unit leads to profound changes in the physical properties of these rotaxanes. The bistable [2]rotaxanes were both isolated as brown solids. ¹H NMR and UV‐visible spectroscopy, and electrochemical investigations, reveal the presence of both possible translational isomers at ambient temperature. As a consequence of the existence of both possible translational isomers in these bistable [2]rotaxanes, they exhibit a complex electrochemical behavior, which is further complicated by the presence of folded conformations wherein the monopyrrolotetrathiafulvalene unit is involved in an “alongside” interaction with the tetracationic cyclophane. In the molecular shuttle/switch 2 ?4 PF₆ a “knob”, in the shape of the SMe group, is situated between the monopyrrolotetrathiafulvalene and the 1,5‐dioxynaphthalene recognition sites, making it possible to isolate both translational isomers ( 2 ?4 PF₆?GREEN and 2 ?4 PF₆?RED) and to investigate the kinetics of the shuttling of the cyclobis(paraquat‐p‐phenylene) tetracation between the two recognition sites. The shuttling processes, which are accompanied by clearly detectable color changes, can be followed by ¹H NMR and UV‐visible spectroscopy, allowing the rate constants and energies of activation for the translation of the cyclobis(paraquat‐p‐phenylene) tetracations between the two recognition sites to be determined. In the molecular shuttle/switch 3 ?4 PF₆, there is no “knob” situated between the 1,5‐dioxynaphthalene and the monopyrrolotetrathiafulvalene recognition sites, resulting in a considerably faster shuttling of the cyclobis(paraquat‐p‐phenylene) tetracation between these two sites, making the separation of the two possible translational isomers of 3 ?4 PF₆ impractical. However, the shuttling of the cyclobis(paraquat‐p‐phenylene) tetracation can be followed by dynamic ¹H NMR spectroscopy. At low temperatures, the major translational isomer is 3 ?4 PF₆?RED, while 3 ?4 PF₆?GREEN is the major isomer at higher temperature. In the bistable [2]rotaxanes shuttling of the cyclobis(paraquat‐p‐phenylene) tetracations can be driven by electrochemical oxidation of the monopyrrolotetrathiafulvalene unit. In complexes in which one of the two dumbbell stoppers is missing, electrochemical oxidation causes dethreading.