Solubility enhancement and QSPR correlations for polycyclic aromatic hydrocarbons complexation with α, β, and γ cyclodextrins

Through batch equilibrium experiments, hydroxypropyl substituted α, β, and γ cyclodextrin (CDs) were shown to greatly increase the apparent solubility of eight common polycyclic aromatic hydrocarbons (PAHs) in aqueous solutions. Equations based on the volume fraction of solution composed of water and CDs have been developed to determine guest phase distribution. Based on these equations, the results of this and similar studies for CD showed that a log–log relationship exists between the fraction of CD occupied with a guest organic compound and the aqueous solubility of those guests (rsq 0.980). Analysis of potential quantitative structure property relationship (QSPR) found strong correlations between structural properties of the guests (e.g. aqueous solubility, octanol/water partitioning coefficient, molar volume, molecular surface area, and polarizability) and water/CD partitioning coefficients, phase distribution of the PAH between water and CD phases, and the fraction of CD molecules occupied with a guest PAH. Noteworthy among these, is the inverse relationship between the log of the fraction of CD molecules occupied under saturated conditions and the ratio of the molar volume of the PAH to the volume of the CD cavities (rsq for α, β, and γ: 0.887–0.892). Comparisons of the three CDs shows that while the size of the guest compound reduces its propensity to enter into the CD cavity, the effect of the guest size is lessened as the width of the CD ring increases. Development of these QSPR correlations provides a means to predict and evaluate guest/CD interactions for homologous series of compounds.     

Review: fluorescent cyclodextrins for molecule sensing

Cyclodextrins (CDs), which are spectroscopically inert, were converted into fluorescent CDs by modification with one or two fluorophores. Many fluorescent CDs changed the fluorescent intensities upon addition of guest compounds, causing the locational change of the fluorophore mostly from inside to outside of the CD cavities. On this basis, the fluorescent CDs were used as fluorescent chemosensors for molecule recognition. Modified CDs bearing two naphthalene or pyrene moieties exhibit intramolecular excimer emission and their guest-responsive excimer intensity variations were used for molecule sensing. Fluorescent CDs bearing a dansyl moiety decreased the fluorescence intensity upon guest addition, reflecting the environmental change around the fluorophore from the hydrophobic interior of the CD cavities to bulk water solution. Modified CDs bearing a p-N,N-dimethylaminobenzoyl (DMAB) moiety exhibit dual emissions from nonpolar planar (NP) and twisted intramolecular charge transfer (TICT) excited states, and the TICT emission intensity was useful for sensing molecules. A biotin-bound DMAB system was also constructed, and the presence of the protein (avidin) was found to enhance the NP fluorescence. This avidin-bound DMAB system showed higher sensitivities and stronger binding ability for guest species than the system without avidin.     

Study of the retention of aroma components by cyclodextrins by static headspace gas chromatography

The process of encapsulation is widely employed in the flavour industry to protect volatile and/or labile flavouring materials during storage. A variety of commercial practices are currently followed, but those involving the formation of flavour/cyclodextrin (CD) molecular inclusion complexes afford some of the greatest potential for increased product shelf life. The determination of the stability of inclusion complexes is of critical importance to take advantage of the complexation potential of CDs. Hence, we investigated the interactions between five CDs and thirteen aroma components. Relevant for, the retention of these compounds in presence of different CDs has been determined. The stability constants of the inclusion compounds have been calculated by static headspace gas chromatography in aqueous solution at 30 °C. The results indicate the formation of 1:1 inclusion complex for all the studied compounds. The binding between CDs and the aroma compounds depends on both hydrophobicity of the guest molecule and their geometric accommodation into the CD cavity. The results show that β-CDs are the most versatile CDs for the inclusion of the studied molecules.     

A comparative study of inclusion complexes of flunarizine with alpha (α-CD) and beta-cyclodextrin (β-CD)

A detailed NMR (¹H, COSY, and ROESY) spectroscopic study of complexation of Flunarazine (FL) with α- and β-CD was carried out. ¹H NMR titration studies confirmed the formation of FL/α-CD and FL/β-CD complexes as evidenced by chemical shift variations of the proton resonances of both the CDs and FL. The stoichiometry of the complexes was determined to be 1:2 (FL/α-CD) and 1:1 (FL/β-CD) and overall binding constants were also calculated. It was confirmed with the help of ROESY spectral data that only one of the F-substituted aromatic ring and phenyl ring penetrate the α-CD cavity while both F-substituted aromatic rings as well as phenyl ring penetrates the β-CD cavity during complexation. The binding modes of FL/CD cavity interactions derived from ROESY experimental data show that the resulting complex of FL with β-CD possesses better induced fit interaction as compared to α-CD, which is responsible for the enhanced molecular stability with β-CD in comparison to α-CD. The mode of penetration of guest into the CD cavity and structures of the complexes has been established.     

Non-covalent columnar cyclodextrin-based structures

Examples of the formation of ordered ensembles of α-, β-, and γ-cyclodextrins (CDs) molecules with a columnar packing of macrocycles are reported. These ensembles are formed by (1) the supramolecular dissociation of polymer inclusion complexes under the action of organic solvents that are selective with respect to a polymer guest and (2) the fixation of columnar CD aggregates self-organized in aqueous solutions at high temperatures upon the precipitation from water into organic solvents. Specific features of the organization of cyclodextrins in the thus-synthesized structures are studied by X-ray diffraction. Preliminarily oriented polymer inclusion complexes based on corresponding CDs are used as a model with the columnar arrangement of macrocycles.     

Inclusion complexes of cyclodextrins with hydrophobic ionic liquids

Two imidazolium-based hexafluorophosphate ionic liquids (ILs), 1-butyl-3-methylimidazolium hexafluorophosphate and 1-dodecyl-3-methylimidazolium hexafluorophosphate, were used to form inclusion complexes (ICs) with α- and β-cyclodextrins (CDs). Formation of the ICs of each CD with each IL was confirmed by the appearance of a characteristic peak in the UV region. Characterisation of the ICs by NMR and FT-IR spectroscopy provided information about the interactions between the host and guest molecules and the structure of the ICs. Temperature-dependent particle size analysis by dynamic light scattering suggested that the size of the host and the guest governs their stability.     

Protein detection by nanopores equipped with aptamers

Protein nanopores have been used as stochastic sensors for the detection of analytes that range from small molecules to proteins. In this approach, individual analyte molecules modulate the ionic current flowing through a single nanopore. Here, a new type of stochastic sensor based on an αHL pore modified with an aptamer is described. The aptamer is bound to the pore by hybridization to an oligonucleotide that is attached covalently through a disulfide bond to a single cysteine residue near a mouth of the pore. We show that the binding of thrombin to a 15-mer DNA aptamer, which forms a cation-stabilized quadruplex, alters the ionic current through the pore. The approach allows the quantification of nanomolar concentrations of thrombin, and provides association and dissociation rate constants and equilibrium dissociation constants for thrombin·aptamer interactions. Aptamer-based nanopores have the potential to be integrated into arrays for the parallel detection of multiple analytes.     

Investigation on the inclusions of PCB52 with cyclodextrins by performing DFT calculations and molecular dynamics simulations

The effective enrichment and identification of lowly concentrated polychlorinated biphenyls (PCBs) in the environment is attracting enormous research attention due to human health concerns. Cyclodextrins (CDs) are known to be capable of forming inclusion complexes with a variety of organic molecules. The purpose of this study is to provide theoretical evidence of whether CDs as host molecules can include the guest molecules PCBs to form stable host-guest inclusion complexes, and if so, whether the general infrared and Raman techniques are suitable for the direction of CD-modified PCBs. Focusing on a representative PCB molecule, 2,2',5,5'-tetrachlorobiphenyl (PCB52), we carried out density functional theory calculations and molecular dynamics (MD) simulations on its complexes with α-, β-, and γ-CDs with different host-guest stoichiometry ratios, including 1:1, 1:2, 2:1, and 2:2. On the basis of both the optimized geometries and calculated energy changes raised from encapsulating the guest molecule into the cavities of CDs, the CDs are believed to be suitable hosts for accommodating PCB52 guest molecules. The stability of inclusion complexes depends on both the type of CD and host-guest stoichiometry ratio. MD simulations give a clear picture of the scene on how the PCB52 molecule enters the cavity of β-CD. The vibrational analyses on the 1:1 complexes of CDs provide information for the spectral characterization of the inclusion complexes: Raman spectroscopy can deliver the characteristic bands of PCB52, whereas IR spectroscopy cannot uniquely assign them, implying that Raman spectroscopy is a useful technique for the identification of CD-modified PCBs. The present theoretical results are expected to provide guidance for the relevant experimental research.     

β-Cyclodextrin and folic acid host–guest interaction binding parameters determined by Taylor dispersion analysis and affinity capillary electrophoresis

The thermodynamic properties of molecular recognition in host–guest inclusion complexes can be studied by Taylor dispersion analysis (TDA). Host–guest inclusion complexes have modest size, and it is possible to get convergent results fast, achieving greater certainty for the obtained thermodynamic properties. Cyclodextrins (CDs) and their derivatives can be used as drug carriers that can boost stability, solubility, and bioavailability of physiologically active substances. A simple and effective approach for assessing the binding properties of CD complexes that are critical in the early stages of drug and formulation development is needed to fully understand the process of CD and guest molecules’ complex formation. In this work, TDA was successfully used to rapidly determine interaction parameters, including binding constant and stoichiometry, between β-CD and folic acid (FA) along with the diffusivities of the free FA and its complex with β-CD. Additionally, the FA diffusion coefficient obtained by TDA was compared to the results previously obtained by nuclear magnetic resonance. Affinity capillary electrophoresis (ACE) was also used to compare the binding constants obtained by different methods. The results showed that the binding constants obtained by ACE were somewhat lower than those obtained by the two TDA procedures.     

Synthesis and characterization of poly(ethylene glycol) based β-cyclodextrin polymers

A series of novel water soluble β-cyclodextrin (βCD) polymers has been synthesized from functionalized poly(ethylene glycol) (PEG). The chemical composition of the polymers has been characterized by ¹H NMR and the βCD content is found to be between 48 and 33% (w/w). The molecular weight has been determined by Size Exclusion Chromatography (SEC) and depends on the ratio between βCD and PEG, varying from 2.1 × 10⁴ to 8.6 × 10⁴ g mol^?1. The physico chemical properties have been characterized by differential scanning calorimetry (DSC), viscometry and isothermal titration calorimetry (ITC). ITC shows that the polymers have association constants comparable to βCD with different guest molecules, indicating a good accessibility of the CDs.     

生物医用类环糊精/聚合物(准)聚轮烷

环糊精及其衍生物具有“内疏水、外亲水”的特殊分子结构,可与许多客体分子包结形成包合物。利用环糊精与聚合物的包结作用构建稳定、结构可控并具有广泛应用前景的生物医用材料是材料及医学界研究的焦点之一。本文介绍了环糊精基(准)聚轮烷的概念及其组装驱动力,同时围绕由环糊精和聚合物组装形成的(准)聚轮烷在生物医用方面的研究包括药物载体(如超分子凝胶、超分子胶束、超分子纳米囊泡、药物键合(准)聚轮烷、刺激响应型(准)聚轮烷等)、基因载体、多重识别与靶向、形状记忆材料及其它相关领域工作进展作一概述。     

The binding behavior of cyclodextrins toward a nitroxide spin probe in the presence of different alcohols as studied by EPR

Stability constants, rates of association and dissociation, and thermodynamic and activation parameters for the formation of inclusion complexes between the radical guest, N-benzyl- tert-butyl- d 9-nitroxide and beta- or 2,6- O-dimethyl-beta-cyclodextrin (CDs), have been determined by EPR spectroscopy in water in the presence of 14 different alcohols, differing in size and lipophilicity. In all cases, it was found that addition of alcohol, depending on its structure and concentration, causes a reduction of the stability of the paramagnetic complex. Global analysis of EPR data allowed us to explain the CDs binding behavior: we discarded the formation of a ternary complex, where alcohol and radical guest are coincluded into CD cavity, while data were found more consistent with the formation of a binary complex alcohol:CD competing with the monitored complex nitroxide:CD. Both kinetic and thermodynamic analysis of the experimental results have revealed that the presence of alcohols affects to a larger extent the dissociation rather then the association of radical probe and CD and that the former process is of greater importance in determining the stability of the complex, this confirming the reliability of the competition model proposed. This competition has been used for the indirect determination of the stability constants of complexes between CD and examined alcohols. By using a similar approach, we showed EPR spectroscopy can be considered a rapid and accurate technique to investigate the CDs binding behavior toward different nonradical guest.     

Encapsulation of ciprofloxacin,sparfloxacin, and ofloxacin drugs with α- and β-cyclodextrins: spectral and molecular modelling studies

Inclusion complexation of ciprofloxacin (CIP), sparfloxacin (SPA), and ofloxacin (OFL) drugs with α-CD and β-CD was studied by UV-visible, fluorescence, time-resolved fluorescence, Fourier transform infrared spectroscopy (FTIR), hydrogen nuclear magnetic resonance (¹HNMR), scanning electron microscopy (SEM), and molecular modelling techniques. Changes in the absorbance and fluorescence intensities and fluorescence lifetime of the drugs in the cyclodextrin (CD) solutions suggest the formation of inclusion complexes. Carbonyl stretching frequency moved to higher wave numbers and broadening of the N–H stretching band indicated the formation of inclusion complex. Cyclohexane ring protons of the drugs show remarkable upfield or downfield shift in the ¹HNMR spectrum, indicating that the cyclohexane part of the guest molecule is entrapped inside CD cavities. SEM images of CIP/CD, SPA/CD, and OFL/CD complexes have a crystal structure with different morphology from the isolated CIP, SPA, OFL, and CDs. Investigations of the energetic, thermodynamic, and electronic properties of parametric model number 3 computational calculations confirmed the stability of the inclusion complex.     

Molecular recognition in cyclodextrin complexes of amino acid derivatives. 2. A new perturbation: the room-temperature crystallographic structure determination for the N-acetyl-p-methoxy-L-phenylalanine methyl ester/beta-cyclodextrin complex

Cyclodextrins (CDs) are cyclic oligosaccharides that encapsulate various small organic molecules, forming inclusion complexes. Because CD complexes are held together purely by noncovalent interactions, they function as excellent models for the study of chiral and molecular recognition mechanisms. Recently, room-temperature crystallographic studies of both the 2:2 N-acetyl-L-phenylalanine methyl ester/beta-CD and 2:2 N-acetyl-L-phenylalanine amide/beta-CD complexes were reported. The effect of changes in carboxyl backbone functional group on molecular recognition by the host CD molecule was examined for the nearly isomorphous supramolecular complexes. A new perturbation of the system is now examined, specifically perturbation of the aromatic side chain. We report a room-temperature crystal structure determination for the 2:2 N-acetyl-p-methoxy-L-phenylalanine methyl ester/beta-CD inclusion complex. The complex crystallizes isomorphously with the two previously reported examples in space group P1; the asymmetric unit consists of a hydrated head-to-head host dimer with two included guest molecules. The crystal packing provides both a nonconstraining extended hydrophobic pocket and an adjacent hydrophilic region, where hydrogen-bonding interactions can potentially occur with primary hydroxyl groups of neighboring CD molecules and waters of hydration. The rigid host molecules show no sign of conformational disorder, and water of hydration molecules exhibit the same type of disorder observed for the other two complexes, with a few significant differences in locations of water molecules in the hydrophilic region near guest molecules. There is evidence for modest disorder in the guest region of an electron density map. In comparing this system with the two previously reported complexes of phenylalanine derivatives, it is found that the packing of the guest molecules inside the torus of the CD changes upon substitution of a methoxy group at the para position of the aromatic phenyl ring. Backbone hydrogen-bonding interactions for the guest molecules with the CD primary hydroxyls and waters also change. This structure determination is a new and revealing addition to a small but growing database of amino acid and peptidomimetic interactions with carbohydrates.     

Review of the quantitative structure–activity relationship modelling methods on estimation of formation constants of macrocyclic compounds with different guest molecules

There is an increasing interest in the use of quantitative structure–activity relationship (QSAR) approaches as a progressive tool in modelling and prediction of many physicochemical properties in host–guest interactions of macrocyclic complexes. A review is presented on the QSAR modelling of macrocyclic compounds formation constants, which focus on two most interesting macrocycles, e.g. crown ethers and cyclodextrins (CDs), with different guest molecules. The review starts with a short overview on experimental methods of stability constant measurement, followed by a short explanation of the QSAR methodologies. In the next section, we focus on and discuss QSAR techniques that used to predict the stability (binding) constants or free energy complexation of some most interesting macrocyclic compounds, e.g. CDs and crown ethers, with different guest molecules including anionic, cationic and neutral molecules.     

Atom-atom potential analysis of the complexing characteristics of cyclodextrins (host) with benzene and p-dihalobenzenes (guest)

Abstract

Intermolecular interaction and modelling calculations on the complexes of α-, β- and γ-cyclodextrins (host) with benzene and p-dihalobenzenes (guest) were performed. The complex formation mechanism between the host and guest molecules was evaluated from three-dimensional potential maps generated by the atom-atom potential method, and the molecular packing of the complexed compounds was visualized by a space-fill representation. Stable inclusion complexes only form when both the host and guest molecules experience a significant decrease in the complexing potential. The host and guest molecules have a maximum molecular surface contact at the minimum potential, which depends on both the cavity size and the molecular volumes of the guest molecules. The calculated interaction energies can be correlated to the association constants of complex formation determined from experiment. The molecular dynamics of the guest molecules are also discussed.     

Molecular recognition in cyclodextrin complexes of amino acid derivatives. 1. Crystallographic studies of beta-cyclodextrin complexes with N-acetyl-L-phenylalanine methyl ester and N-acetyl-L-phenylalanine amide pseudopeptides

Cyclodextrins (CDs) are widely utilized in studies of chiral and molecular recognition. By changing the functionality of the guest molecule, the effect of such changes on recognition by the host CD molecule can be examined. We report crystal structure determinations for two nearly isomorphous complexes of phenylalanine derivatives: beta-CD/N-acetyl-L-phenylalanine methyl ester and beta-CD/N-acetyl-L-phenylalanine amide. The complexes crystallize as hydrated head-to-head host dimers with two included guest molecules in space group P1. The crystal packing is such that it presents a nonconstraining hydrophobic pocket adjacent to a hydrophilic region, where potential hydrogen-bonding interactions with hydroxyl groups of neighboring cyclodextrin molecules and waters of hydration can occur. The two host molecules display very similar conformations; only a few of the primary hydroxyl groups are conformationally disordered. There are a number of changes in the location of water of hydration molecules, some of which are the result of different hydrogen-bonding interactions. For the different guest molecules, similar modes of penetration are observed in the CD torus; however, there is a 0.985-A shift in the position of the guest molecules in the host torus, which takes place without changing the hydrophobic interactions displayed by the phenyl side chains. This observation and the thermal motion of the guest molecules in the ester complex are taken as evidence that complex binding forces are weak. The pseudopeptides experience a significant degree of flexibility in the crystalline environment provided by CD dimers. Conformational differences of the pseudopeptide backbones and the presence of disordered water molecules in the host-guest interface provide examples of different hydrogen-bonding schemes of similar potential energy. The crystal system presents an opportunity to establish a database of molecular interactions for small peptides and peptide analogues with waters of hydration and functional groups in nonconstraining binding environments.     

Host–guest complexation of omeprazole, pantoprazole and rabeprazole sodium salts with cyclodextrins: an NMR study on solution structures and enantiodiscrimination power

The application of different cyclodextrins (CDs) as NMR chiral solvating agents (CSAs) for the sodium salts of the proton-pump inhibitors omeprazole, pantoprazole (sesquihydrate) and rabeprazole was investigated. It was proved that the formation of diastereomeric host–guest complexes in D₂O solution between the CDs and those substrates permitted the direct ¹H NMR discrimination of the enantiomers of the sodium salts of these compounds without the need of previous working-up. Rotating frame nuclear overhauser effect spectroscopy (ROESY) was used to ascertain the solution geometries of the host–guest complexes. The results suggested a preferential binding of the benzimidazole moiety of the guest molecules within the macrocyclic cavity of α-CD, whereas the higher dimensions of β- and γ-CD also permitted the inclusion of the highly substituted pyridine moieties. Moreover, the solution stoichiometries and the binding constants of the complexes formed with pantoprazole at room temperature were determined by ¹H and ¹⁹F NMR titration. Diffusion-filtered Spectroscopy was applied to obtain clean spectra without the interference of the HOD signal.     

Characterization of cyclodextrin-modified infrared chemical sensors: Part I. Modeling the mechanisms of interaction

To explore the properties of cyclodextrins (CDs) as an optical sensing phase, the behavior of immobilized CD in interaction with analytes was studied in this work. CDs having different cavity sizes were immobilized onto the surface of infrared (IR) internal reflection-sensing element (IRE) to kinetically monitor the behavior of CD in interaction with analytes. Several aromatic compounds having various molecular sizes and functional groups were used to characterize the interaction mechanism. A two-layer modification method was proposed in this work, which utilized a thin hydrophobic film (polyvinyl benzyl chloride) to stick on the IRE and to covalently bond to the CDs through an ethylene diamine linker. The synthesized CD phases exhibited high stability in aqueous solution. To analyze the behavior during the formation of complexes between the guest molecules and the CD phases, we modeled the interaction behavior and treated the kinetic data with the theoretical equations developed in this work. The results indicate that the behavior of the interaction between guest molecules and CDs was explained by considering the formation of two types of complexes: adsorbed complexes and inclusion complexes. The formation of the inclusion complexes was relatively fast, the time required to reach equilibrium could be shorter than a few minutes. The adsorbed complexes were also observed, but their rate of formation was relatively slow; equilibrium could be reached at times greater than 60 min. Based on the signals observed under equilibrium conditions, the concentration of inclusion complexes was approximately three times than that of the adsorbed complexes.     

A joint QM/MD study on α-, β- and γ-cyclodextrins in selective complexation with cathinone

In this article, density functional theory (DFT) calculations and 30 ns molecular dynamic (MD) simulations were performed to investigate the ability of α-, β- and γ-cyclodextrins (CDs) to form selective complexes with cathinone. DFT calculations in the gas phase, water, chloroform and methanol reveal that the solvents, reduce the stability of the complexes. Optimized structures confirm that α-CD cannot encapsulate cathinone, completely, while other CDs showed an opposite behavior. DFT calculations indicate that cathinone has the most stable complex with γ-CD in comparison to the α- and β-CDs. Natural bond orbital and quantum theory of atoms in molecules analyses reveal that the electrostatic interactions between cathinone and CDs are the driving force of the complex formation. MD simulations confirm that different solvents play an important role in the stability of the cathinone complexes and the obtained MD results are in good agreement with the DFT calculations.