Cucurbit[n]uril formation proceeds by step-growth cyclo-oligomerization

In contrast to the high yield formation of cucurbit[n]uril (CB[n]) from a 1:2 ratio of glycoluril to formaldehyde, the condensation of glycoluril with less than 2 equiv of formaldehyde delivers a reaction mixture that contains glycoluril oligomers (2-6) and CB[n] compounds that lack one or more methylene bridges known as nor-seco-cucurbit[n]urils (ns-CB[n]). In this paper we report the chromatographic purification of C-shaped glycoluril oligomers (dimer-hexamer), their characterization in solution, and their X-ray crystal structures. Quite interestingly, despite being acyclic glycoluril pentamer 5 and hexamer 6 retain the ability to bind to guests typical of CB[6] but are also able to expand their cavity to accommodate larger guests like cationic adamantane derivatives. We performed product resubmission experiments with glycoluril oligomers 2-6 and found preferences for the formation of specific ring sizes during CB[n] formation. A comprehensive mechanistic scheme is proposed that accounts for the observed formation of 2-6 and ns-CB[n]. Overall, the experiments establish that a step-growth cyclo-oligomerization process operates during CB[n] formation.     

Diastereoselective formation of glycoluril dimers: isomerization mechanism and implications for cucurbit[n]uril synthesis

Cucurbit[6]uril (CB[6]) is a macrocyclic compound, prepared in one pot from glycoluril and formaldehyde, whose molecular recognition properties have made it the object of intense study. Studies of the mechanism of CB[n] formation, which might provide insights that allow the tailor-made synthesis of CB[n] homologues and derivatives, have been hampered by the complex structure of CB[n]. By reducing the complexity of the reaction to the formation of S-shaped (12S-18S) and C-shaped (12C-18C) methylene bridged glycoluril dimers, we have been able to probe the fundamental steps of the mechanism of CB[n] synthesis to a level that has not been possible previously. For example, we present strong evidence that the mechanism of CB[n] synthesis proceeds via the intermediacy of both S-shaped and C-shaped dimers. The first experimental determination of the relative free energies of the S-shaped and C-shaped dimers indicates a thermodynamic preference (1.55-3.25 kcal mol(-)(1)) for the C-shaped diastereomer. This thermodynamic preference is not because of self-association, solvation, or template effects. Furthermore, labeling experiments have allowed us to elucidate the mechanism of this acid-catalyzed equilibrium between the S-shaped and C-shaped diastereomers. The equilibration is an intramolecular process that proceeds with high diastereoselectivity and retention of configuration. On the basis of the broad implications of these results for CB[n] synthesis, we suggest new synthetic strategies that may allow for the improved preparation of CB[n] (n > 8) and CB[n] derivatives from functionalized glycolurils.     

Acyclic congener of cucurbituril: synthesis and recognition properties

The cucurbit[n]uril (CB[n]) family of macrocycles occupies a prominent role in molecular recognition and self-assembly studies despite the current inability to access specific cucurbit[n]uril homologues, derivatives, and analogues by straightforward tailor-made synthetic procedures. In this paper, we explore an approach that circumvents the challenges posed by the tailor-made synthesis of macrocyclic CB[n] by preparing 1, which functions as an acyclic CB[6] congener. The o-xylylene connections to the glycoluril rings preorganize 1 into the (a,a,a,a)-1 conformation required for binding and reduce its tendency to undergo self-association. We surveyed the binding properties of 1 toward 16 amines (K(a) 相似文献   

Formation of aqua and tetraammine Cu(II) complexes inside the cavities of cucurbit[6,8]urils: A DFT forecast

Results of DFT calculations of the structure and thermodynamics of formation of aqua and tetraammine Cu(II) complexes inside CB[n] (n = 6,8) are presented in this study. Formation thermodynamics of the complexes in the cavitands was evaluated by taking into account the most probable number of water molecules inside CB[n]. In this methodology, the complexation was first considered as a substitution reaction in which the guest complex displaces partially or completely the water molecules that are located inside the cavity. The water molecules present in the cavitand were shown to play an important role in the fixation of the guest complex inside the cavity due to the hydrogen bonds with the oxygen portals. The hydration of Cu(II) ion inside CB[6] leads to the formation of an inclusion compound with the formula {[Cu(H₂O)₄]²⁺·2H₂O}@CB[6] while in CB[8] {[Cu(H₂O)₆]²⁺·4H₂O}@CB[8] is formed. For the binding of tetraammine Cu(II) complex, CB[8] was determined to be a significantly more suitable “container” than CB[6]. Both a direct embedding of this complex into the CB[8] and another mechanism in which ammonia molecules replace the water molecules in the Cu(II) aqua complex, preexisting in CB[8] were determined to be thermodynamically possible. Both these lead to the formation of the resultant inclusion compound described by the formula {[Cu(NH₃)₄(H₂O)₂]²⁺·4H₂O}@CB[8].     

Water structuring inside the cavities of cucurbit[n]urils (n = 5–8): a quantum-chemical forecast

In this work we report findings of the quantum-chemical examination of water structuring in the cavities of cucurbit[n]urils (CB[n]), n?=?5–8 obtained within the density functional theory. The thermodynamically most stable structures of inclusion compounds (H₂O)_m@CB[n] were determined for different numbers m of H₂O molecules inside the cavities. From the viewpoint of thermodynamics, the most probable numbers m of water molecules in the CB[n] homologues are the following: m?=?2 for CB[5], m?=?4 for CB[6], m?=?8 for CB[7] and m?=?10 for CB[8]. For the case of CB[6] synthesized in aqueous solution, we compared its experimental IR spectrum with that calculated quantum-chemically for the model inclusion systems (H₂O)_m@CB[6] where m ranges from 1 to 6. The best agreement between the experimental and theoretical spectra was observed for (H₂O)₄@CB[6], in complete agreement with the conclusion made based on the thermodynamic estimations. Our results are also in good agreement with other available estimates of the most probable number of water molecules in CB[n].     

Functionalized cucurbiturils and their applications

Cucurbit[n]uril (CB[n], n = 5-10), a new family of molecular hosts comprising n glycoluril units, have gained much attention in the new millennium for their exceptional molecular recognition ability. The CB homologues have brought dynamism to CB chemistry, as witnessed by the heightened interest in the field for the last several years. Compared to the chemistry of cyclodextrins and calixarenes, however, that of CB[n] has developed slowly until recently, which may be attributed mainly to their poor solubility in common solvents, and inability to functionalize these molecules. The direct functionalization method of CB[n] propelled CB chemistry to a new height as this new method not only solved the solubility problem but also opened up the gateway to the generation of tailor-made CB[n] derivatives. The functionalization of CB[n] led us to investigate numerous applications including artificial ion channels, vesicles, stationary phases in chromatography, ISEs, polymers, nanomaterials, and many others. This tutorial review describes the recent advances and challenges in the functionalization of CBs along with the applications of functionalized CBs.     

Refolding foldamers: triazene-arylene oligomers that change shape with chemical stimuli

We describe the preparation of five triazene-arylene oligomers (3, 4, 7, 8, and 11) and investigations of their folding properties in aqueous solution. These oligomers contain four 2-fold rotors and populate a conformational ensemble comprising at least 10 states. Extensive 1D and 2D NMR studies as well as X-ray crystallography establish that the presence of three members of the cucurbit[n]uril family (CB[n]), CB[10], CB[7], and CB[8], results in the selective population of the (a,a,a,a)-, (a,s,s,a)-, and (a,a,a,s)-conformers. As a result of the high affinity and highly selective binding properties of the CB[n] family, it is possible to fold a single foldamer strand (3) into the CB[8].(a,a,a,s)-3 conformer by the addition of CB[8], then unfold and refold it into the CB[7].(a,s,s,a)-3.CB[7] conformer by addition of CB[7] and 3,5-dimethylaminoadamantane (17), then unfold and refold it again into the CB[10].(a,a,a,a)-3 conformer by addition of CB[10].CB[5] and aminoadamantane (18). The transformation of CB[8].(a,a,a,s)-3 into CB[7].(a,s,s,a)-3.CB[7] proceeds through the intermediacy of CB [8].(a,a,s,a)-3.CB[7], which enhances the rate of dissociation of strand 3 from CB[8].     

Bromination of N-phenyloxypropyl-N'-ethyl-4,4'-bipyridium in cucurbit[8]uril molecular reactor

CB[n](n=6-8) is a family of synthetic macrocyclic host molecules composed of n glycoluril units, which can be employed as molecular reactor. N-phenyloxypropyl-N'-ethyl-4,4'-bipyridium (1) was designed to form a host-guest inclusion complex with CB[n](n=6-8), subsequently, the bromination reaction of 1 and its corresponding inclusion complexes was investigated in this work. In the case of 1/CB[8], the folded including mode is quite helpful to acquire 1-bormination product completely through intramolecular charge transfer (ICT), and CB[8] can provide a safe bromination environment for 1.     

Photophysical properties of aqueous solutions of a styryl dye in the presence of cucurbit[<Emphasis Type="Italic">n</Emphasis>]uril (<Emphasis Type="Italic">n</Emphasis> = 5, 6, 8)

Photophysical properties of aqueous solutions of the styryl dye 4-[(E)-2-(3,4-dimethoxyphenyl)-1-ethylpyridinium] perchlorate (1) in the presence of cucurbit[n]urils (CB[n]; n = 5, 6, 8) have been studied by fluorescent spectroscopy methods. The fluorescence intensity of a 10^–6 mol L^–1 solution of 1 increases by a factor of 12.6 upon the formation of 1 : 1 inclusion complexes with CB[6] or 1.3 in complexes with CB[8]. Upon the formation of inclusion complexes, the average lifetime of the electronically excited state of 1 increases to about 1 ns for both CB[6] and CB[8]. On the basis of fluorescence anisotropy measurements, the rotational relaxation times were estimated to be 408, 314, and 183 ps for the complexes with CB[6], CB[8], and for unbound 1, respectively. Using the fluorescence titration method developed for the case of poorly soluble cavitands, the binding constant of 1 with CB[6] was determined to be 1.1 × 10⁵ L mol^–1. The addition of CB[5] does not lead to changes in the photophysical properties of a solution of 1, indicating the absence of complexes between CB[5] and 1. It has been found on the basis of the experimental data that the fluorescence rate constant of 1 decreases about twice in the complex with CB[8], but doubles in the complex with CB[6].     

The cucurbit[n]uril family: prime components for self-sorting systems

We determined the values of Ka for a wide range of host-guest complexes of cucurbit[n]uril (CB[n]), where n = 6-8, using 1H NMR competition experiments referenced to absolute binding constants measured by UV/vis titration. We find that the larger homologues--CB[7] and CB[8]--individually maintain the size, shape, and functional group selectivity that typifies the recognition behavior of CB[6]. The cavity of CB[7] is found to effectively host trimethylsilyl groups. Remarkably, the values of Ka for the interaction of CB[7] with adamantane derivatives 22-24 exceeds 10(12) M(-1)! The high levels of selectivity observed for each CB[n] individually is also observed for the CB[n] family collectively. That is, the selectivities of CB[6], CB[7], and CB[8] toward a common guest can be remarkably large. For example, guests 1, 3, and 11 prefer CB[8] relative to CB[7] by factors greater than 10(7), 10(6), and 3000, respectively. Conversely, guests 23 and 24 prefer CB[7] relative to CB[8] by factors greater than 5100 and 990, respectively. The high levels of selectivity observed individually and collectively for the CB[n] family renders them prime components for the preparation of functional biomimetic self-sorting systems.     

Host-guest chemistry and light driven molecular lock of Ru(bpy)(3)-viologen with cucurbit[7-8]urils

Host-guest chemistry and photoinduced electron-transfer processes have been studied in the systems containing Ru(bpy)3 complex covalently linked to viologen as a guest molecule and cucurbit[n]urils (n = 7, 8) as host molecules in aqueous solution. The Ru(bpy)3-viologen complex, [Ru(2,2'-bipyridine)2(4-(4-(1'-methyl-4,4'-bipyridinediium-1-yl)butyl)-4'-methyl-2,2'-bipyridine)]Cl4 (denoted as Ru2+-MV2+, 1) was shown to form stable 1:1 inclusion complexes with cucurbit[7]uril (CB[7]) and cucurbit[8]uril (CB[8]). The binding modes are slightly different with CB[7] and CB[8]. CB[7] preferentially binds to part of the viologen residue in 1 together with the butyl chain, whereas CB[8] preferentially encloses the whole viologen residue. Photoinduced intramolecular electron transfer from the excited-state of the Ru moiety to MV2(+) which is inserted into the cavity of the CBs occurred. Long-lived charge-separated states Ru3(+)-MV(+*) were generated with the lifetimes of 280 ns with CB[7] and 2060 ns with CB[8]. This shows that CBs can slow down the charge recombination within supramolecular systems, and the difference in lifetimes seems to be due to the difference in binding modes. In the presence of a sacrificial electron donor triethanolamine, light-driven formation of a dimer of MV(+*) inside the CB[8] cavity was observed. This "locked" molecular dimer can be "unlocked" by molecular oxygen to give back the original form of the molecular dyad 1 with the MV2(+) moiety inserted in the cavity of CB[8]. The processes could be repeated several times and showed nice reversibility.     

The cucurbit[n]uril family

In 1981, the macrocyclic methylene-bridged glycoluril hexamer (CB[6]) was dubbed "cucurbituril" by Mock and co-workers because of its resemblance to the most prominent member of the cucurbitaceae family of plants--the pumpkin. In the intervening years, the fundamental binding properties of CB[6]-high affinity, highly selective, and constrictive binding interactions--have been delineated by the pioneering work of the research groups of Mock, Kim, and Buschmann, and has led to their applications in waste-water remediation, as artificial enzymes, and as molecular switches. More recently, the cucurbit[n]uril family has grown to include homologues (CB[5]-CB[10]), derivatives, congeners, and analogues whose sizes span and exceed the range available with the alpha-, beta-, and gamma-cyclodextrins. Their shapes, solubility, and chemical functionality may now be tailored by synthetic chemistry to play a central role in molecular recognition, self-assembly, and nanotechnology. This Review focuses on the synthesis, recognition properties, and applications of these unique macrocycles.     

Expanding cavitand chemistry: the preparation and characterization of [n]cavitands with n>=4

The preparation of cavitands composed of 4, 5, 6, and 7 aromatic subunits ([n]cavitands, n=4-7) is described. The simple, two-step synthetic procedure utilized readily available starting materials (2-methylresorcinol and diethoxymethane). The two cavitand products having 4 and 5 aromatic subunits exhibited highly symmetric cone conformations, while the larger cavitands (n = 6 and 7) adopt conformations of lower symmetry. 1H NMR spectroscopic studies of [6]cavitand and [7]cavitand revealed that these hosts undergo exchange between equivalent conformations at room temperature. The departure of these two cavitands from cone conformations is related to steric crowding on their Ar-O-CH2-OAr bridges and is predicted by simple molecular mechanics calculations (MM2 force field). X-ray diffraction studies on single crystals of the [4]cavitand, [5]cavitand, and [6]cavitand hosts afforded additional experimental support for these conclusions.     

Mechanism of the conversion of inverted CB[6] to CB[6

Inverted cucurbit[n]urils (iCB[n]) form as intermediates during the synthesis of cucurbit[n]urils from glycoluril and formaldehyde in HCl (85 degrees C). Product resubmission experiments establish that the diastereomeric iCB[6] and iCB[7] are kinetic products that are less stable thermodynamically than CB[6] or CB[7] (>2.8 kcal mol(-1)). When iCB[6] or iCB[7] is heated under aqueous acidic conditions, a preference for ring contraction is noted in the formation of CB[5] and CB[6], respectively. Interestingly, under anhydrous acidic conditions ring size is preserved with iCB[6] delivering CB[6] cleanly. To establish the intramolecular nature of the iCB[6] to CB[6] conversion under anhydrous, but not aqueous, acidic conditions we performed crossover experiments involving mixtures of iCB[6] and its (13)C=O labeled isotopomer (13)C(12)-iCB[6]. An unusual diastereomeric CB[6] with a M?bius geometry (13) is proposed as a mechanistic intermediate in the conversion of iCB[6] to CB[6] under anhydrous acidic conditions. The improved mechanistic understanding provided by this study suggests improved routes to CB[n]-type compounds.     

Cavity diameter and height of cyclodextrins and cucurbit[n]urils from the molecular electrostatic potential topography

Understanding the interactions of cyclodextrins (CD) and cucurbit[n]uril (CB[n]) hosts with a variety of guest molecules following their encapsulation within the cavity of these macrocycles have become increasingly important in the recent years. The electronic charge distribution and the cavity dimension are some of the key factors those govern their interactions with cations or neutral guests. In the present work the molecular electrostatic potential (MESP) topography has been utilized to obtain the ‘effective’ cavity diameter and height of CB[n] (n = 6–8) homologues and 8 conformers each of α-, β- and γ-CD. It has been shown that the shape of CD cavity be it cone- or barrel-like stems from the hydrogen bonding patterns within primary hydroxyl groups. The width of CB[7] is comparable to the β-CD conformer that possesses either O₆H–O₅′ or intraglucose O₆H–O₅ interactions. The cavity diameters of α- and γ-CD are predicted to be respectively, 1.0 and 1.5 Å larger than CB[6] and CB[8] hosts. MESP topography reveals that the cavities of CB[n] are less hydrophilic with largely hydrophilic portals as compared to CD hosts. Cremer–Pople puckering parameters were derived for all the CD conformers and CB[n]. It has been demonstrated that the clockwise and anticlockwise hydrogen bonding patterns in the lower as well as upper rims of different CD conformers are less distorted and exhibit a little deviation from the °C₃ chair conformation of α-d-glucopyranose constituting monomeric unit of CD.     

Mechanism of host-guest complexation by cucurbituril

The factors affecting host-guest complexation between the molecular container compound cucurbit[6]uril (CB6) and various guests in aqueous solution are studied, and a detailed complexation mechanism in the presence of cations is derived. The formation of the supramolecular complex is studied in detail for cyclohexylmethylammonium ion as guest. The kinetics and thermodynamics of complexation is monitored by NMR as a function of temperature, salt concentration, and cation size. The binding constants and the ingression rate constants decrease with increasing salt concentration and cation-binding constant, in agreement with a competitive binding of the ammonium site of the guest and the metal cation with the ureido carbonyl portals of CB6. Studies as a function of guest size indicate that the effective container volume of the CB6 cavity is approximately 105 A(3). It is suggested that larger guests are excluded for two reasons: a high activation barrier for ingression imposed by the tight CB6 portals and a destabilization of the complex due to steric repulsion inside. For example, in the case of the nearly spherical azoalkane homologues 2,3-diazabicyclo[2.2.1]hept-2-ene (DBH, volume ca. 96 A(3)) and 2,3-diazabicyclo[2.2.2]oct-2-ene (DBO, volume ca. 110 A(3)), the former forms the CB6 complex promptly with a sizable binding constant (1300 M(-1)), while the latter does not form a complex even after several months at optimized complexation conditions. Molecular mechanics calculations are performed for several CB6/guest complexes. A qualitative agreement is found between experimental and calculated activation energies for ingression as a function of both guest size and state of protonation. The potential role of constrictive binding by CB6 is discussed.     

A systems approach to controlling supramolecular architecture and emergent solution properties via host-guest complexation in water

The assembly behavior of aryl/alkyl imidazolium ionic liquid salts in aqueous solution has been investigated. These salts undergo self-assembly into one-dimensional stacks via hydrophobic and π-π interactions upon increasing concentration, which led to a substantial increase in the solution viscosity in water. Addition of the macrocyclic host molecules cucurbit[n]urils (CB[n]) were found to effectively alter the supramolecular assemblies, as evidenced from the dramatic increase (by CB[7]) and decrease (by CB[8]) in solution viscosity and aggregation size in water, on account of the different binding stoichiometries, 1:1 complexation with CB[7] and 2:1 complexation with CB[8]. Furthermore, the aggregate architectures were controllably modified by competitive guests for the CB[n] hosts. This complex supramolecular systems approach has tremendous implications in the fields of molecular sensor design, nonlinear viscosity modification, and controlled release of target molecules from a defined supramolecular scaffold in water.     

Probing Conformational Changes of Ubiquitin by Host–Guest Chemistry Using Electrospray Ionization Mass Spectrometry

We report mechanistic studies of structural changes of ubiquitin (Ub) by host–guest chemistry with cucurbit[6]uril (CB[6]) using electrospray ionization mass spectrometry (ESI-MS) combined with circular dichroism spectroscopy and molecular dynamics (MD) simulation. CB[6] binds selectively to lysine (Lys) residues of proteins. Low energy collision-induced dissociation (CID) of the protein-CB[6] complex reveals CB[6] binding sites. We previously reported (Anal. Chem. 2011, 83, 7916–7923) shifts in major charge states along with Ub-CB[6] complexes in the ESI-MS spectrum with addition of CB[6] to Ub from water. We also reported that CB[6] is present only at Lys₆ or Lys₁₁ in high charge state (+13) complex. In this study, we provide additional information to explain unique conformational change mechanisms of Ub by host–guest chemistry with CB[6] compared with solvent-driven conformational change of Ub. Additional CID study reveals that CB[6] is bound only to Lys₄₈ and Lys₆₃ in low charge state (+7) complex. MD simulation studies reveal that the high charge state complexes are attributed to the CB[6] bound to Lys₁₁. The complexation prohibits salt bridge formation between Lys₁₁ and Glu₃₄ and induces conformational change of Ub. This results in formation of high charge state complexes in the gas phase. Then, by utilizing stronger host–guest chemistry of CB[6] with pentamethylenediamine, refolding of Ub via detaching CB[6] from the protein is performed. Overall, this study gives an insight into the mechanism of denatured Ub ion formation via host-guest interactions with CB[6]. Furthermore, this provides a direction for designing function-controllable supramolecular system comprising proteins and synthetic host molecules.      

H3BTC‐Induced Supramolecular Assembly Based on Cucurbit[6]uril: Possible Application for Sensing Small Molecules

The compound 2[Ca(H₂O)₃ (DMF@CB[6])] · 2(BTC) · 15H₂O ( CCUT ‐ 102 , CB[6] = cucurbit[6]uril; H₃BTC = 1,3,5‐benzenetricarboxylic acid) was synthesized using the approach of organic guest‐induced formation of polymers or frameworks based on the coordination of metal ions and cucurbit[n]urils. The compound was characterized by X‐ray diffraction analysis, PXRD, IR spectroscopy, thermogravimetric and elemental analyses. According to the X‐ray diffraction data, the calcium atom is coordinated by the oxygen atoms of the CB[6] molecule, water molecules, and N ,N‐dimethylformamide (DMF). The internal cavity of CB[6] is occupied by DMF. Each H₃BTC molecule interacts the CB[6] molecules through π?π interactions between aromatic rings of H₃BTC and the rings of CB[6]. The luminescence behaviors and sensing properties of CCUT ‐ 102 in different solvents were also studied.     

Locating the cyclopentano cousins of the cucurbit[n]uril family

The synthesis of the first family of fully substituted cucurbit[n]uril is discussed, and the structural features of precursor glycolurils are highlighted in their importance to achieving higher homologues. The members of the family, where n = 5-7, have been fully characterized, and increased binding affinities have been identified for dioxane in CyP(6)Q[6] and adamantyl NH(3)(+) in CyP(7)Q[7]. A higher homologue is indicated but not conclusively identified.