Stepwise noncovalent synthesis leading to dendrimer-based assemblies in water

We provide detailed insight into complex supramolecular assembly processes by fully characterizing a multicomponent model system using dynamic light scattering, cryogenic transmission electron microscopy, atomic force microscopy, and various NMR techniques. First, a preassembly of a host molecule (the fifth-generation urea-adamantyl poly(propylene imine) dendrimer) and 32 guest molecules (a water- and chloroform-soluble ureidoacetic acid guest) was made in chloroform. The association constant in chloroform is concealed by guest self-association and is therefore higher than 10(3) M(-1). Via the neat state the single-host complex was transferred to water, where larger dendrimer-based assemblies were formed. The core of these assemblies, consisting of multiple host molecules (on average three), is kinetically trapped upon dissolution in water, and its size is constant irrespective of the concentration. The guest molecules forming the corona of the assemblies, however, stay dynamic since they are still in rapid exchange on the NMR time scale, as they were in chloroform. A stepwise noncovalent synthesis provides a means to obtain metastable dynamic supramolecular assemblies in water, structures that cannot be formed in one step.     

Stereochemistry in the reaction of 4-methyl-1,2,4-triazoline-3,5-dione (MTAD) with beta,beta dimethyl-p-methoxystyrene. Are open biradicals the reaction intermediates?

The reaction of 4-methyl-1,2,4-triazoline-3,5-dione (MTAD) with beta,beta-dimethyl-p-methoxystyrene (1) in chloroform affords four adducts: the ene, two stereoisomeric [4 + 2]/ene diadducts, and a minor product that is probably the double Diels-Alder diadduct. In methanol, only one regioisomeric methoxy adduct is formed. The stereochemistry of the reaction was examined by specific labeling of the anti methyl group of 1 as CD(3). In chloroform, the ene adduct is formed with >97% synselectivity, while the [4 + 2]/ene diadducts are formed with 20% loss of stereochemistry at the methyl groups. In methanol, the methoxy adducts are formed with almost complete loss of stereochemistry. A mechanism involving open biradicals is inconsistent with the experimental results. It is likely that the reaction proceeds through the formation of an aziridinium imide and an open zwitterionic intermediate. The aziridinium imide leads to the formation of the ene adduct. The open zwitterion, which has sufficient lifetime to rotate around the C-C bond, leads to the formation of a [4 + 2] cycloadduct, which reacts with a second molecule of MTAD in an ene-type mode to afford two stereoisomeric [4 + 2]/ene diadducts. In methanol, solvent captures the zwitterionic intermediate and forms the methoxy adduct. The relative distribution of the products in chloroform depends on the reaction temperature. Lower temperatures favor the ene reaction (entropically favorable), whereas at higher temperatures the [4 + 2]/ene diadducts become the major products.     

Factors influencing solvent adduct formation by calixarenes in the solid state

Structural studies of seven very differently functionalised derivatives of calix[4]arene have been used to provide an analysis of the numerous factors which may influence solvent adduct formation by calixarenes. Evidence is presented that even where a solvent guest is included within the calixarene cavity, interactions solely within the cavity cannot be seen as the sole influences upon the guest position and orientation.     

Study of H-bonded assemblies of the solvates of anthracene derivatives: guest effect on the crystal symmetry and spectroscopic properties

Two solvates of title compound 1-acetyl-3-naphthyl-5-(9-anthryl)-2-pyrazoline solvate(ANNP) (1a) with chloroform (1b) and acetic acid (1c) and a single crystal of another title compound 1-acetyl-3-(4-chloro)phenyl-5-(9-anthryl)-2-pyrazoline (ACAP) (2a) and its adduct with phenol (2b) were afforded via solution growth technique. The structure of these solids were confirmed and verified by multiple techniques such as single crystal X-ray diffraction (SCXRD) analysis, PXRD, DSC/TGA and Infrared spectroscopy. Structural analysis indicates that guest inclusion results not only in stronger hydrogen bonds, but also in a larger number of favourable C–H?π interactions between ANNP/ACAP molecules. The solvates show symmetry reduction guest effect comparing with the guest free molecules of ANNP and ACAP. Moreover, characteristic changes have been observed in the Infrared bands of the solvates owing to the formation of hydrogen bonds between host–guest.     

Entropy-Driven Cooperativity in the Guest Binding of an Octaphosphonate Bis-cavitand

Uncommon entropy-driven cooperativity is reported in the guest binding of an octaphosphonate bis-cavitand. Isothermal titration calorimetry determined the thermodynamic parameters for the 1:2 host–guest binding of bis-cavitands with ammonium guests in methanol, ethanol, 2-propanol, and chloroform. Chloroform drove uncommon entropy-driven cooperative binding, whereas the alcohols resulted in enthalpy-driven noncooperative binding. ¹H NMR studies revealed that each cavity contained six water molecules in chloroform, which were liberated on guest binding. The enthalpy–entropy compensation relationship produced a large positive intrinsic entropy in chloroform, which implies that water desolvation causes a considerable entropic gain by paying an enthalpic penalty due to breaking the hydrogen-bonding networks of the water clusters.     

Computational NMR Spectra of o-Benzyne and Stable Guests and Their Hemicarceplexes

The incarceration of o-benzyne and 27 other guest molecules within hemicarcerand 1 , as reported experimentally by Warmuth, and Cram and co-workers, has been studied by density functional theory (DFT). The ¹H NMR chemical shifts, rotational mobility, and conformational preference of the guests within the supramolecular cage were determined, which showed intriguing correlations of the chemical shifts with structural parameters of the host–guest system. Furthermore, based on the computed chemical shifts reassignments of some NMR signals are proposed. This affects, in particular, the putative characterization of the volatile benzyne molecule inside a hemicarcerand, for which our CCSD(T) and KT2 results indicate that the experimentally observed signals are most likely not resulting from an isolated o-benzyne within the supramolecular host. Instead, it is shown that the guest reacted with an aromatic ring of the host, and this adduct is responsible for the experimentally observed signals.     

Excited-state optical activity of a cyclodextrin inclusion compound

The optical activity of the inclusion compound formed when fluorescein is incorporated in β-cyclodextrin has been studied by means of circularly polarized luminescence spectroscopy. The chiral host molecule is capable of inducing chirality in the achiral guest molecule upon formation of the 1:1 adduct.     

Hydrogen-bonded network and enforced supramolecular cavities in molecular crystals: An orthogonal aromatic-triad strategy. Guest binding,molecular recognition,and molecular alignment properties of a bisresorcinol derivative of anthracene in the crystalline state

Abstract

Crystallization of an orthogonal resorcinol-anthracene-resorcinol compound 1a (host) from an ester solvent such as alkyl benzoate (guest) affords a 1:2 host-guest adduct 1a·2(ester). An essential aspect of the crystal structures of ethyl, propyl, and isobutyl benzoate adducts (space group, P2₁/n) and also that of methyl benzoate adduct (C2/c) is an extensive hydrogen-bonded network of host 1a, leading to a molecular sheet composed of hydrogen-bonded polyresorcinol chains and anthracene columns. This network generates well-defined, cyclophane-like supramolecular cavities, which incorporate two alkyl benzoate molecules in a highly selective manner via a combination of essential host-guest hydrogen-bonding and what may be called the cavity-packing effect. The selectivity factor between methyl benzoate (the lowest-affinity guest) and isobutyl benzoate (the highest-affinity guest) is 1:70 under competitive conditions. The actual geometry of the cavity is somehow dependent on and hence induced-fit adjustable to the guest structures by manipulating the intramolecular (anthracene-resorcinol dihedral angle) and intermolecular conformation (tilt angle between two hydrogen-bonded resorcinol rings) of compound 1a as well as the sheet-to-sheet distance. The adducts 1a·2(guest) can also be obtained by solid-state guest-exchange or guest-binding, respectively, using a preformed adduct or guest-free apohost dipped in an appropriate guest solvent. The methyl benzoate adducts obtained in these ways exhibit the same X-ray powder diffraction pattern as the genuine single-crystal obtained by direct crystallization of host 1a from methyl benzoate. Thus, even internal supramolecular cavities maintained by the hydrogen-bonded network are readily accessible to molecules in bulk solution. In addition, they undergo an induced-fit adjustment to a guest molecule newly added by the guest-exchange or the guest-binding process, during which the crystallinity is maintained. The potential use of symmetrical and divergent multiple hydrogen-bonding sites with an orthogonal aromatic spacer (orthogonal aromatic-triad strategy) is discussed in terms of a tool to construct a new class of porous organic crystals that show novel molecular recognition, crystalline-state guest-binding, and crystalline-phase molecular alignment properties.     

Investigation of chloromethane complexes of cryptophane‐A analogue with butoxy groups using 13C NMR in the solid state and solution along with single crystal X‐ray diffraction

Host‐guest complexes between cryptophane‐A analogue with butoxy groups (cryptophane‐But) and chloromethanes (chloroform, dichloromethane) were investigated in the solid state by means of magic‐angle spinning ¹³C NMR spectroscopy. The separated local fields method with ¹³C‐¹H dipolar recoupling was used to determine the residual dipolar coupling for the guest molecules encaged in the host cavity. In the case of chloroform guest, the residual dipolar interaction was estimated to be about 19 kHz, consistent with a strongly restricted mobility of the guest in the cavity, while no residual interaction was observed for encaged dichloromethane. In order to rationalize this unexpected result, we performed single crystal X‐ray diffraction studies, which confirmed that both guest molecules indeed were present inside the cryptophane cavity, with a certain level of disorder. To improve the insight in the dynamics, we performed a ¹³C NMR spin‐lattice relaxation study for the dichloromethane guest in solution. The system was characterized by chemical exchange, which was slow on the chemical shift time scale but fast with respect to the relaxation rates. Despite these disadvantageous conditions, we demonstrated that the data could be analyzed and that the results were consistent with an isotropic reorientation of dichloromethane within the cryptophane cavity. Copyright © 2015 The Authors. Magnetic Resonance in Chemistry published by John Wiley & Sons Ltd.     

An asymmetric sigmatropic rearrangement

Catalysis of the isomerization of the symmetrical adduct 1 by (+)-camphor-10-sulfonic acid in chloroform gave (?)-2, which was enriched by fractional crystallization techniques and purified by column chromatography. Values for the optical purity of this sample were obtained both by conversion into diastereomers and by the isotopic dilution method, and were in fair agreement with one another. They corresponded to an enantiomeric excess of 1·34% in the original synthesis.In benzene as solvent the (+)-enantiomer was preferentially formed.     

胆酸和L-苯丙氨酸的固相包合作用

研究了胆酸(CA)和L-苯丙氨酸(PAA)以固相熔融法形成的固相包埋配位. 通过粉末X射线衍射图、红外光谱、粉末荧光光谱及差热分析方法, 测定了固相包埋形成的CA-PAA配合物. 同时, 用溶剂共沉淀法和机械研磨法对比了CA-PAA包埋物的形成. 结果表明, 封管固相熔融时PPA以客体形式被包合进主体CA形成的通道; 研磨法中CA部分包埋PPA; 溶剂共沉淀方法中, PPA不被主体CA包埋, 而使用的相应溶剂被CA包埋.     

Dynamics of an inclusion complex of chloroform and cryptophane-E: evidence for a strongly anisotropic van der Waals bond

The motional dynamics of a van der Waals inclusion complex of cryptophane-E and chloroform has been investigated by a combined NMR exchange and relaxation study. The kinetics of exchange of chloroform between the bulk solution and the complex was investigated by means of proton EXSY measurements. The carbon-13 relaxation of the cryptophane-E host and of the bound chloroform guest was analyzed using the Lipari-Szabo "model-free" approach. For interpretation of the carbon-13 relaxation measurements for chloroform, the chemical-exchange process of complex formation and dissociation had to be taken into account in terms of the modified Bloch equations. It was found that the complex behaves as a single molecule without any significant guest chloroform motion inside the host's cavity.     

Potassium-thiacalix[8]arene assembly: structure and guest sorption profiles

Treatment of thiacalix[8]arene (3.8H) with KH in THF, followed by recrystallization from methanol, affords an adduct of [K4(3.4H)].8MeOH as a pale yellow crystal (4), which shows highly-extensive coordination that gives rise to a zeolitic structure. An adduct of 4 gives apohost [K4(3.4H)] with the loss of methanol, which can adsorb such gaseous organic guest molecules as methanol and benzene. After binding methanol as the guest molecule, the apohost is converted back to the original structure of 4.     

The interaction of electron acceptors with bases—II The spectrum of s-trinitrobenzene in the presence of ammonia and aliphatic amines

The interaction of s-trinitrobenzene with certain aliphatic amines has been studied spectrophotometrically. It is suggested in solutions in ethanol or chloroform, an adduct is initially formed by a dative bond between the nitrogen of the amine molecule and the 2-position in s-trinitrobenzene. The initial reactions are reversed by acid, but in time further irreversible reactions occur.     

Acridinylresorcinol as a self-complementary building block of robust hydrogen-bonded 2D nets with coordinative saturation. Preservation of crystal structures upon guest alteration,guest removal,and host modification

Acridinylresorcinol host 3 (9-(3,5-dihydroxy-1-phenyl)acridine) forms such adducts as 3.(benzene), 3.(chloroform), 3.0.5(toluene), and 3.(isobutyl benzoate). Modified acridinol host 4 (9-(3,5-dihydroxy-1-phenyl)-4-hydroxyacridine) having an additional OH group on the acridine ring affords such adducts as 4.(benzene), 4.(chloroform), 4.0.5(toluene).0.5(water), 4.(methanol).(water), and 4.(ethyl acetate). In the crystals, hosts 3 and 4 form hydrogen-bonded (O-H...O-H) poly(resorcinol) chains which are linked together via interchain O-H...N hydrogen bonds to give a coordinatively saturated (O-H...O-H...N) 2D net composed of doubly hydrogen-bonded and antiparallel-stacked, self-complementary cyclic dimer 3(2) or 4(2) as a rigidified building block, the otherwise flexible O-H...O-H hydrogen bonds being thereby taken in a cyclophane-like structure. This network turns out to be remarkably well preserved among the above adducts. Guest molecules, which are disordered in many cases, are incorporated in the cavities left. The binding of small polar guests to host 4 is primarily due to hydrogen bonding to the OH group on the acridine ring. The latter therefore acts only as a polarity modifier of preserved cavities. Adduct 3.(benzene), that is, 3(2).2(benzene) readily loses one of two guest molecules bound in each cavity to give a microporous half-filled adduct 3(2).(benzene) which adsorbs 1 mol of benzene to regenerate the starting full adduct without involving a phase change, as confirmed by X-ray powder diffractions and reversible Langmuir-type adsorption/desorption isotherms. The self-complementarity strategy for designing rigid crystal structures is discussed with a particular reference to the possibility of systematic perturbation/variation approaches in crystal engineering.     

Complexation with Diol Host Compounds. Part 35: Inclusion Compounds of 1,1,6,6-Tetraphenylhexa-2,4-diyne-1,6-diol with CCl4, CHCl3, CH2Cl2 and CH3CN

Inclusion compounds were formed with 1,1,6,6-tetraphenylhexa-2,4-diyne-1,6-diol (H) and carbon tetrachloride, chloroform, dichloromethane and acetonitrile. 1 (H·1/2CCl⁴), 2 (H·1/2CHCl³) and 3 (H·1/2CH²Cl²) are true clathrates with the guest molecules situated in cages created by the host. 4 (H·2CH³CN) exhibits a different packing arrangement with the guest molecules located in channels. The crystal structures and stability of these inclusion compounds were investigated.     

Sheet structure of an L,D-dipeptide aggregate: inclusion compounds of (S)-phenylglycyl-(R)-phenylglycine with amides

A simple dipeptide, (S)-phenylglycyl-(R)-phenylglycine (S,R-1), formed inclusion compounds with a small amide such as formamide, acetamide, N,N-dimethylformamide (DMF), or N,N-dimethylacetamide. By single-crystal X-ray analysis, the inclusion compounds were shown to have a wavy layer structure. The molecules of S,R-1 are arranged in parallel via ionic pairing of the carboxyl and amino groups to construct the wavy layers. The guest molecules were accommodated in a channel cavity between the layers by means of hydrogen bonding with (+)NH(3) of S,R-1. The cavity is surrounded by the phenyl groups of S,R-1 that conformationally rotate so as to make the cavity size fit the guest amide.     

Host–guest complexes between cryptophane‐C and chloromethanes revisited

Cryptophane‐C is composed of two nonequivalent cyclotribenzylene caps, one of which contains methoxy group substituents on the phenyl rings. The two caps are connected by three OCH₂CH₂O linkers in an anti arrangement. Host–guest complexes of cryptophane‐C with dichloromethane and chloroform in solution were investigated in detail by nuclear magnetic resonance techniques and density functional theory (DFT) calculations. Variable temperature proton and carbon‐13 spectra show a variety of dynamic processes, such as guest exchange and host conformational transitions. The guest exchange was studied quantitatively by exchange spectroscopy measurements or by line‐shape analysis. The conformational preferences of the guest‐containing host were interpreted through cross‐relaxation measurements, providing evidence of the gauche+2 and gauche?2 conformations of the linkers. In addition, the mobility of the chloroform guest inside the cavity was studied by carbon‐13 relaxation experiments. Combining different types of evidence led to a detailed picture of molecular recognition, interpreted in terms of conformational selection. Copyright © 2012 John Wiley & Sons, Ltd.     

Host–guest complexation of antioxidative caffeic and ferulic acid amides with a functionalized cyclophane

Host?guest complexation has been studied by ¹H NMR on the benzyl and phenethyl amides of ferulic and caffeic acids as the guests in chloroform and acetonitrile; the counter host is a cyclophane which integrates four phenylene rings, amino and amide groups in the macrocyclic framework and bears four pendant methyl acetate ester arms. CAPE, one of the best known natural antioxidants, also has been studied for comparison. Among the guests studied, ferulic acid benzyl amide shows NMR shifts due to the formation of a host?guest complex in chloroform. The complexation occurs in two steps with the formation constants K ₁?=?[HG]/[H][G]?=?6?M^?1 and β ₂?=?[HG₂]/[H][G]²?=?87?M^?2. Two guest molecules are bound on the surface of the macrocyclic framework of a host molecule by two hydrogen bonds, NH(host amide)···O=C(guest amide) and C=O(host ester)···HO(guest phenol). The latter hydrogen bond may protect the bioactive site, i.e., phenol OH, of guest molecules captured in the complex against undesirable oxidation. This feature is observed only for ferulic acid benzyl amide in chloroform; the cyclophane ester interacts with this amide, distinctively from the other hydroxycinnamic acid derivatives.     

Spectroscopic characterization of interstrand carbinolamine cross-links formed in the 5'-CpG-3' sequence by the acrolein-derived gamma-OH-1,N2-propano-2'-deoxyguanosine DNA adduct

The interstrand N2,N2-dG DNA cross-linking chemistry of the acrolein-derived gamma-OH-1,N2-propanodeoxyguanosine (gamma-OH-PdG) adduct in the 5'-CpG-3' sequence was monitored within a dodecamer duplex by NMR spectroscopy, in situ, using a series of site-specific 13C- and 15N-edited experiments. At equilibrium 40% of the DNA was cross-linked, with the carbinolamine form of the cross-link predominating. The cross-link existed in equilibrium with the non-crosslinked N2-(3-oxo-propyl)-dG aldehyde and its geminal diol hydrate. The ratio of aldehyde/diol increased at higher temperatures. The 1,N2-dG cyclic adduct was not detected. Molecular modeling suggested that the carbinolamine linkage should be capable of maintaining Watson-Crick hydrogen bonding at both of the tandem C x G base pairs. In contrast, dehydration of the carbinolamine cross-link to an imine (Schiff base) cross-link, or cyclization of the latter to form a pyrimidopurinone cross-link, was predicted to require disruption of Watson-Crick hydrogen bonding at one or both of the tandem cross-linked C x G base pairs. When the gamma-OH-PdG adduct contained within the 5'-CpG-3' sequence was instead annealed into duplex DNA opposite T, a mixture of the 1,N2-dG cyclic adduct, the aldehyde, and the diol, but no cross-link, was observed. With this mismatched duplex, reaction with the tetrapeptide KWKK formed DNA-peptide cross-links efficiently. When annealed opposite dA, gamma-OH-PdG remained as the 1,N2-dG cyclic adduct although transient epimerization was detected by trapping with the peptide KWKK. The results provide a rationale for the stability of interstrand cross-links formed by acrolein and perhaps other alpha,beta-unsaturated aldehydes. These sequence-specific carbinolamine cross-links are anticipated to interfere with DNA replication and contribute to acrolein-mediated genotoxicity.