Dynamics of benzene guest inside a self-assembled cylindrical capsule: a combined solid-state 2H NMR and molecular dynamics simulation study

The reorientational dynamics of benzene-d(6) molecules hosted into the cavity of a cavitand-based, self-assembled capsule was investigated by Molecular Dynamics (MD) simulations and temperature-dependent solid-state (2)H NMR spectroscopy. MD simulations were preliminarily performed to assess the motional models of the guest molecules inside the capsules. An in-plane fast reorientation of the benzene guest around the C(6) symmetry axis (B1 motion), characterized by correlation times of the order of picoseconds, was predicted with an activation barrier ( approximately 8 kJ/mol) very similar to that found for neat benzene in the liquid state. An out-of-plane reorientation corresponding to a nutation of the C(6) symmetry axis in a cone angle of 39 degrees (B2 motion, 373 K) with an activation barrier ( approximately 39 kJ/mol) definitely larger than that of liquid benzene was also anticipated. In the temperature range 293-373 K correlation times of the order of a nanosecond have been calculated and a transition from fast to slow regime in the (2)H NMR scale has been predicted between 293 and 173 K. (2)H NMR spectroscopic analysis, carried out in the temperature range 173-373 K on the solid capsules containing the perdeuterated guest (two benzene molecules/capsule), confirmed the occurrence of the B1 and B2 motions found in slow exchange in the (2)H NMR time scale. Line shape simulation of the (2)H NMR spectral lines permitted defining a cone angle value of 39 degrees at 373 K and 35 degrees at 173 K for the nutation axis. The T(1) values measured for the (2)H nuclei of the encapsulated aromatic guest gave correlation times and energetic barrier for the in-plane motion B1 in fine agreement with theoretical calculation. The experimental correlation time for B2 as well as the corresponding energetic barrier are in the same range found for B1. A molecular mechanism for the encapsulated guest accounting for the B1 and B2 motions was also provided.     

A Regulable Internal Cavity inside a Resorcinarene-Based Hemicarcerand

Covalent organic capsules, such as carcerands and hemicarcerands, are an interesting class of molecular hosts. These container molecules have confined spaces capable of hosting small molecules, although the fact that the size of the inner cavities cannot be changed substantially limits the scope of their applications. The title covalently linked container was produced by metal-directed dimerization of a resorcinarene-based cavitand having four 2,2′-bipyridyl arms on the wide rim followed by olefin metathesis at the vertices of the resulting capsule with a second-generation Grubbs catalyst. The covalently linked bipyridyl arms permit expansion of the inner cavity by demetalation. This structural change influences the molecular recognition properties; the metal-coordinated capsule recognizes only 4,4′-diacetoxybiphenyl, whereas the metal-free counterpart can encapsulate not only 4,4′-diacetoxybiphenyl, but also 2,5-disubstituted-1,4-bis(4-acetoxyphenylethynyl)benzene, which is 9.4 Å longer than the former guest. Molecular mechanics calculations predict that the capsule expands the internal cavity to encapsulate the long guest by unfolding the folded conformation of the alkyl chains, which demonstrates the flexible and regulable nature of the cavity. Guest competition experiments show that the preferred guest can be switched by metalation and demetalation. This external-stimuli-responsive guest exchange can be utilized for the development of functional supramolecular systems controlling the uptake, transport, and release of chemicals.     

Structural alteration of hybrid supramolecular capsule induced by guest encapsulation

Heterofunctionalized C(2v) symmetrical cavitand 1 with 4-pyridylethynyl and 3-carbamoylphenyl groups in alternating arrangement was designed and synthesized. A 1:1 mixture of the cavitand 1 and a cis-coordinated palladium(II) or platinum(II) complex self-assembled into a hybrid supramolecular capsule via both metal-ligand coordination bonds and hydrogen bonds. Formation of the capsular assembly was confirmed by NMR spectroscopy and mass spectrometry. The hybrid capsule encapsulated the appropriate guest, the molecular sizes of which fit the size of the capsular cavity. Structural alteration of the hybrid capsule was induced by the guest encapsulation. A C(2h) structure for the encapsulation complex was assigned by 2D NMR spectra analysis. Thermodynamic and kinetic properties of the guest encapsulation were investigated. The kinetics of in/out guest exchange was strongly influenced by hydrogen bonding in the hybrid capsule.     

Hydrogen-bonded encapsulation complexes in protic solvents

We describe here the behavior of the hydrogen-bonded capsule 1.1 and its complexes in protic solvents. The kinetics and thermodynamics of the encapsulation process were determined through conventional (1)H NMR methods. The enthalpies and entropies of encapsulation are both positive, indicating a process that liberates solvent molecules. The rates of dissociation-association of the capsule were comparable to the rates for the in-out exchange of large guests, which suggests that guest exchange occurs by complete dissociation of the capsule in protic solvents. The stability of the hydrogen-bonded capsule 1.1 toward protic solvents depends strongly on the guests, with the best guest being dimethylstilbene 8. The results establish guidelines for the properties of capsules that could be accessed in water.     

Encapsulation of small molecules by a cavitand porphyrin self-assembled via quadruple hydrogen bonds

A new and stable quadruple hydrogen-bonded capsule, tetracarboxylcavitand.meso-tetra(2-pyridyl)porphyrin (1 x 2) has been synthesized and spectroscopically characterized. 1 x 2 can encapsulate small molecules of various size from methane to cyclopentane. The guest and host exchange rates were evaluated by EXSY.     

Social isomers in encapsulation complexes

We introduce here a new form of isomerism-social isomerism-that arises when two different guests are confined to a cylindrical host capsule. The isomerism deals with the orientationof one guest with respect to the other when they are in a container. Specifically, para-substituted toluenes coencapsulated with typical solvent molecules such as benzene, chloroform, and cyclohexane show two different isomeric arrangements that interconvert slowly on the NMR time scale. The dimensions of the capsule prevent the guests from squeezing past one another or tumbling freely.     

Silver(I) compounds consisting of [2.2]paracyclophane: reversible guest-driven solid-state transformation and incorporation behavior

Reaction of [2.2]paracyclophane with silver(I) heptafluorobutyrate (AgC3F7CO2) has isolated three novel networks: [Ag4(pcp)(C3F7CO2)4] x pyrene (1), [Ag4(pcp)(C3F7CO2)4] x phen (phen = phenanthrene) (2), and [Ag4(pcp)(C3F7CO2)4] x fluorene (3), and an intercalation compound [Ag4(pcp)(C3F7CO2)4] x 2benzene (4). All the four complexes exhibit two-dimensional (2D) sheet structures in which AgC3F7CO2 form an infinite chain and pcp acts as linkage. 1, 2, and 3 show 2D flat sheets with cavities in which guest molecules are situated, whereas 4 exhibits 2D zigzag layers between which guest benzene molecules are intercalated. Pcp shows mu-di-eta1-eta2 coordination mode in 1, mu-tetra-eta1 coordination mode in 2 and 3, and mu-tetra-eta2 coordination mode in 4. The reversible guest exchanges were observed between complex 1, 2, or 3 and intercalation compound 4. It is unprecedented for metal-organic inclusion complexes that the guest exchange occurs where the guest is the solute molecule. Furthermore, 4 can release the guest, and the original framework was completely recovered after reincorporation of benzene. It should be noted that 4 can incorporate pyrene, phen, and fluorene to give 1, 2, and 3, respectively, after desorption.     

Unusually stable molecular capsule formation of a tetraphenyleneurea cavitand

An unusually stable molecular capsule was formed by heating phenyleneurea-spanned resorcinarene cavitand with 4-methyl-N-p-tolylbenzamide. The molecular capsule behaved as a discrete molecular entity showing a cylindrical D(4d) structure and showed no guest exchange in toluene-d(8) even at 100 degrees C. [structure: see text]     

Recognition of Multiple Methyl Groups on Aromatic Rings by a Polyaromatic Cavity

The methyl group is a small substituent, usually showing relatively weak or no interactions with other functional groups and metal ions. Herein, we present the recognition of the number of methyl groups on synthetic and natural aromatic compounds (i.e., benzene and xanthine derivatives, respectively) by the 1 nm‐sized polyaromatic cavity of a coordination capsule in water. Detailed competitive encapsulation experiments as well as X‐ray crystallographic analysis revealed that multiple guest–host CH₃–polyaromatic interactions in the confined nanospace are key driving forces for the high selectivity.     

Guest exchange dynamics in an M4L6 tetrahedral host

Guest exchange in an M(4)L(6) supramolecular assembly was previously demonstrated to proceed through a nonrupture mechanism in which guests squeeze through apertures in the host structure and not through larger portals created by partial assembly dissociation. Focusing on the [Ga(4)L(6)](12-) assembly [L = 1,5-bis(2',3'-dihydroxybenzamido)naphthalene], the host-guest kinetic behavior of this supramolecular capsule is defined. Guest self-exchange rates at varied temperatures and pressures were measured to determine activation parameters, revealing negative DeltaS and positive DeltaV values [PEt(4)(+): DeltaH = 74(3) kJ mol(-1), DeltaS = -46(6) J mol(-1) K(-1), k(298) = 0.003 s(-)); NEt(4)(+): DeltaH = 69(2) kJ mol(-1), DeltaS = -52(5) J mol(-1) K(-1), k(298) = 0.009 s(-1); NMe(2)Pr(2)(+): DeltaH = 52(2) kJ mol(-1), DeltaS = -56(7) J mol(-1) K(-1), DeltaV = +13(1) cm(3) mol(-1), k(298) = 4.4 s(-1); NPr(4)(+): DeltaH = 42(1) kJ mol(-1), DeltaS = -102(4) J mol(-1) K(-1), DeltaV = +31(2) cm(3) mol(-1), k(298) = 1.4 s(-1)]. In PEt(4)(+) for NEt(4)(+) exchange reactions, egress of the initial guest (G1) is found to be rate determining, with increasing G1 and G2 (the displacing guest) concentrations inhibiting guest exchange. This inhibition is explained by the decreased flexibility of the host imparted by exterior, or exohedral, guest interactions by both the G1 and G2 guests. Blocking the exohedral host sites with high concentrations of the smaller NMe(4)(+) cation (a weak endohedral guest) enhances PEt(4)(+) for NEt(4)(+) guest exchange rates. Finally, guest displacement reactions also demonstrate the sensitivity of guest exchange to thermodynamic endohedral guest binding affinities. When the initial guest (G1) has a weaker affinity for the host, G2 concentration dependence is observed in addition to dependence on the G2 binding strength.     

Xanthenol clathrates: structure, thermal stability, guest exchange and kinetics of desolvation

A series of clathrates comprising the xanthenol host, 9-(4-methoxyphenyl)-9H-xanthen-9-ol, with a variety of aromatic guests displays similar structures in the space group P(-1). We have elucidated the structures of the inclusion compounds H x 1/2G, where H is 9-(4-methoxyphenyl)-9H-xanthen-9-ol and G is benzene, o-, m- and p-xylene. The structures are isostructural with respect to the host and display consistent (Host)-OH...O-(Host) hydrogen bonding. The guests lie on a centre of inversion and with the exception of the symmetrical guests, benzene and p-xylene, are disordered. An interesting case arises with m-xylene, which is ordered at low temperature (113 K) with both the host and guest molecules in general positions. At a higher temperature (283 K) the inclusion compound with m-xylene fits the series. We have correlated the structures with their thermal stabilities, guest exchange and kinetics of desolvation.     

Non-covalent surface modification of metal-macrocycle framework with mono-substituted benzenes

Recently, we have reported a metal-macrocycle framework (MMF) with five enantiomerically paired molecular binding pockets that exhibit site-selective guest arrangement on the nano-channel surface in soaking experiments using a variety of guest molecules. The guest inclusion is based largely on molecular exchange between solvent molecules such as CH₃CN and guest molecules on the surface. Herein, we report that the molecular arrangement on the nano-channel surface varies with size, shape and/or chemical properties of functional groups of guests, mono-substituted benzene derivatives, such as benzonitrile, acetophenone and nitrobenzene. In their inclusion complexes, polar nitrile, acetyl and nitro groups serve as molecular anchors to a macrocyclic cavity through hydrogen bonding. Notably, benzonitrile and benzenesulphonic acid bind only to one pair of enantiomeric binding pockets. Such a highly site-selective binding would enable further multi-component surface modifications in the MMF.     

Guest-enhanced kinetic stability of hydrogen-bonded dimeric capsules of tetraurea Calix

Inclusion complexes of self-assembled molecular dimers composed of two tetratolylurea calix[4]arenes show strongly different kinetic stability for different guests. In cyclohexane-d(12), half-life times for the exchange of a guest against the solvent vary from 2.9 h (chloroform) through 20 h (benzene) and 74 h (fluorobenzene) to 78 days for cyclohexane. This demonstrates that the kinetic stability of such a dimer can be strongly increased by the choice of a suitable guest.     

ITC and NMR analysis of the encapsulation of fatty acids within a water-soluble cavitand and its dimeric capsule

We report here NMR and Isothermal Titration Calorimetry studies of the binding of ionisable guests (carboxylate acids) to a deep-cavity cavitand. These studies reveal that the shortest guests favoured 1:1 complex formation, but the longer the alkyl chain the more the 2:1 host-guest capsule is favoured. For intermediate-sized guests, the equilibrium between these two states is controlled by pH; at low values the capsule containing the carboxylic acid guest is favoured, whereas as the pH is raised deprotonation of the guest favours the 1:1 complex. Interestingly, for one host–guest pair the energy required to decap the 2:1 capsular complex and form the 1:1 complex is sufficient to shift the pK_a of the guest by ~3–4 orders of magnitude (4.1–5.4 kcal mol^?1). The two largest guests examined form stable 2:1 capsules, with in both cases the guest adopting a relatively high energy J-shaped motif. Furthermore, these 2:1 complexes are sufficiently stable that at high pH guest deprotonation occurs without decapping of the capsule.     

Kinetic investigations of the process of encapsulation of small hydrocarbons into a cavitand-porphyrin

Exchange of guest molecules into capsule shaped host molecules is the most fundamental process in host-guest chemistry. Several examples of quantitative measurements of guest exchange rates have been reported. However, there have been no reports on the activation energies of these processes. A molecule known as cavitand-porphyrin (H2CP) has been reported to have a flexible host structure capable of facilitating moderate guest exchange rates suitable for kinetic measurements of the guest exchange process with 1H NMR. In this article, various kinetic and thermodynamic parameters related to the process of encapsulation of small hydrocarbons into H2CP in CDCl3 solution were determined by 2D exchange spectroscopy (EXSY): association and dissociation rate constants (k(ass) = 320 M-1 s-1, k(diss) = 1.4 s-1 for methane at 25 degrees C), the corresponding activation energies (E(a,ass) = 27 kJ.mol-1, E(a,diss) = 58 kJ.mol-1), and thermodynamic parameters for each process (DeltaG++(ass) = 59 kJ.mol-1, DeltaG++(diss) = 72 kJ.mol-1, DeltaH++(ass) = 25 kJ.mol-1, DeltaH++(diss) = 55 kJ.mol-1, DeltaS++(ass) = -113 J.K-1.mol-1, and DeltaH++(diss) = 58 J.K-1.mol-1 for methane). The thermodynamic parameters (DeltaG degrees = -13 kJ.mol-1, DeltaH degrees = -31 kJ.mol-1, DeltaS degrees = -60 J.K-1.mol-1 for methane) for this encapsulation equilibrium determined by EXSY were comparable to those for methane determined by 1D 1H NMR titration (DeltaG degrees = -11 kJ.mol-1, DeltaH degrees = -33 kJ.mol-1, DeltaS degrees = -75 J.K-1.mol-1 for methane). In addition, the structure of the methane encapsulation process was revealed by ab initio MO calculations. The activation energies for methane association/dissociation were estimated from MP2 calculations (E(a,ass) = 58.3 kJ.mol-1, E(a,diss) = 89.1 kJ.mol-1, and DeltaH degrees = -30.8 kJ.mol-1). These values are in accord with the experimentally determined values. The observed guest exchange rates and energies are compared with the corresponding values of various reported capsule-shaped hosts.     

Self-assembly dynamics of a cylindrical capsule monitored by fluorescence resonance energy transfer

The constituent cavitands of a cylindrical capsule were labeled with donor and acceptor fluorophores, and fluorescence resonance energy transfer (FRET) was employed as a tool to study the dynamics of self-assembly. When donor and acceptor dyes are present in the same capsular assembly, they are brought within 25 A of each other, a distance suitable for efficient energy transfer to occur between them. This allowed for the study of interacting species at nanomolar concentrations providing information unattainable from NMR experiments. The kinetic stability of the capsule in the presence of various guest molecules was investigated which revealed a range of more than 4 orders of magnitude in the rates of cylindrical capsule exchange. While the thermodynamic stability of the capsule generally dictates the self-assembly dynamics, it was discovered that longer rigid guests can impart a significant kinetic barrier to monomer exchange.     

EPR Studies of the Binding Properties,Guest Dynamics,and Inner‐Space Dimensions of a Water‐Soluble Resorcinarene Capsule

Nitroxide free radicals have been used to study the inner space of one of Rebek’s water‐soluble capsules. EPR and ¹H NMR spectroscopy, ESI‐MS, and DFT calculations showed a preference for the formation of 1:2 complexes. EPR titrations allowed us to determine binding constants (K_a) in the order of 10⁷ M ^?2. EPR spectral‐shape analysis provided information on the guest rotational dynamics within the capsule. The interplay between optimum hydrogen bonding upon capsule formation and steric strain for guest accommodation highlights some degree of flexibility for guest inclusion, particularly at the center of the capsule where the hydrogen bond seam can be barely distorted or slightly disturbed.     

Theoretical Study on the Conformational Conversion of 1,3-Dioxane Inside a Capsular Host

The mechanism for the conformational conversion of 1,3-dioxane guest encapsulated inside a capsular host was theoretically investigated using semiempirical PM3 method and DFT methods. The free-state process of the conformational conversion of 1,3-dioxane was also investigated to make a comparison between the two different states using the same theory. The influences of the inner phase of the capsule on the conformational conversion of guest molecule were discussed via analyzing the comparative results. It was found that the capsular host could accommodate 1,3-dioxane within its cavity by the weak attractive interactions between host and guest, and it responds to the conformational conversion of guest by the deformation of hydrogen-bonding seam at the middle of the capsule. When entrapped in the capsule, the guest molecule undergoes the conformational conversion from chair form to twist-boat form slower than that under the free condition. The deformation of the capsule is favorable to maximize the attractive interactions between host and guest.     

Molecular encapsulation in pyrogallolarene hexamers under nonequilibrium conditions

Pyrogallol[4]arene is a macrocycle with a concave surface and 12 peripheral hydroxyl groups that mediate its self-assembly to form hexamers of octahedral symmetry in the solid state, in solution, and in the gas phase. These hexamers enclose approximately 1300 ?(3) of space, which is filled with small molecules. In this study, we show that solvent-free conditions for guest entrapment in these hexamers, using molten guest molecules as solvent and allowing the capsules to assemble during cooling, results in exceptionally kinetically stable encapsulation complexes that are not formed in the presence of solvent and are not thermodynamically stable. The capsules' kinetic stabilities are strongly dependent on the size and shape of both guest and solvent molecules, with larger or nonplanar molecules with rigid geometries providing enhanced stability. The greatest observed barrier to guest exchange, ΔG(?) = 32 ± 0.7 kcal mol(-1) for encapsulated CCl(4) → encapsulated pyrene, is, to the best of our knowledge, indicative of the most powerful kinetic trap ever observed for a synthetic, hydrogen-bonded encapsulation complex. Detailed NMR studies of the structures of the assemblies and the kinetics and mechanisms for guest exchange reveal that subtle differences in guest and solvent structure can impart profound effects on the behavior of the systems. Kinetic and thermodynamic stability, capsule symmetry and structure, guest tumbling rates, susceptibility to disruption by polar solvents, and even the mechanism for equilibration-the presence or absence of supramolecular intermediates-are all greatly influenced. The strongest observed kinetic traps provide encapsulation complexes that are not at equilibrium but are nonetheless indefinitely persistent at ambient temperatures, a property that invites future applications of supramolecular chemistry in open systems where equilibrium is not possible.     

Theoretical study on conformational conversion of 1,3-dioxane inside a capsular host

The conformational conversion of 1,3-dioxane guest encapsulated inside a cylindrical capsular host was investigated with PM3 method and single point energies were evaluated by B3LYP method. When entrapped in the capsule, the guest tumbles were slower than that in the free condition. The influences of the inner phase of the capsule on the guest conformational conversion were discussed in detail.