Computer Simulations of the Solvent Dependence of Apolar Association Strength: Gibbs Free Energy Calculations on a Cyclophane−Pyrene Complex in Water and Chloroform

Synthesis and function of amphiphilic glucan dendrimers as nanocarriers for protein delivery

We report the combined enzymatic synthesis of five glucan dendrimers with control of molecular weight and particle size. Amphiphilic properties were introduced through dodecyl group substitution. A Tokyo-green fluorescence assay showed that amphiphilic glucan dendrimers were able to successfully deliver active β-galactosidase to cells.

Self-assembled nanogel of cholesterol-bearing xyloglucan as a drug delivery nanocarrier

Xyloglucan (XG) is a multibranched polysaccharide consisting of a main chain β-1,4-glucan with xylose and galactose side chains. In this study, cholesterol-bearing XG (CHXG) was synthesized by the reaction of XG with cholesteryl N-(6-isocyanatohexyl) carbamate. The CHXG molecules self-assembled in water to form nanogels consisting of about 100 molecules of XG, and were characterized using light scattering and transmission electron microscopy. The number of cholesteryl groups per physical cross-linking site was estimated using a fluorescence quenching method. The resulting CHXG nanogels could be complexed with molecules of low molecular weight, such as iodine and paclitaxel, making the nanogels useful as drug carriers. The CHXG nanogels could also be specifically internalized by hepatocytes via the galactose receptors on their cell surface. CHXG self-assembled nanogels may be suitable as novel drug nanocarriers with galactose-specific targetability.

Experimental Binding Energies in Supramolecular Complexes

On the basis of many literature measurements, a critical overview is given on essential noncovalent interactions in synthetic supramolecular complexes, accompanied by analyses with selected proteins. The methods, which can be applied to derive binding increments for single noncovalent interactions, start with the evaluation of consistency and additivity with a sufficiently large number of different host-guest complexes by applying linear free energy relations. Other strategies involve the use of double mutant cycles, of molecular balances, of dynamic combinatorial libraries, and of crystal structures. Promises and limitations of these strategies are discussed. Most of the analyses stem from solution studies, but a few also from gas phase. The empirically derived interactions are then presented on the basis of selected complexes with respect to ion pairing, hydrogen bonding, electrostatic contributions, halogen bonding, π-π-stacking, dispersive forces, cation-π and anion-π interactions, and contributions from the hydrophobic effect. Cooperativity in host-guest complexes as well as in self-assembly, and entropy factors are briefly highlighted. Tables with typical values for single noncovalent free energies and polarity parameters are in the Supporting Information.

Spectrofluorimetric determination of the antineoplastic agent lomustine based on the sensitizing effect of β-cyclodextrin

The effects of solvent dipolarity/polarizability and solvent-solute hydrogen bonding on the photophysical properties of the antineoplastic drug lomustine were analysed by means of the linear solvation energy relationship (LSER) concept proposed by Kamlet and Taft. The LSER method enabled the overall solvent effects to be quantitatively estimated and separated into specific and non-specific contributions. The molecular encapsulation of lomustine by β-cyclodextrin (β-CD) has been studied using fluorescence spectroscopy. The results are discussed in terms of the binding parameter and the effect of the solvent used. It was concluded that β-CD forms a 1:1 inclusional complex with lomustine in acetonitrile solution and its association constant was calculated to be 500 M(-1). In addition, and for the first time, a simple, rapid and high sensitive fluorimetric method for the determination of lomustine was developed based upon the enhancement effect produced through complex formation with β-CD. The new approach for the quantification of lomustine in the presence of β-CD was described in aqueous and organic solutions. Better limits of detection (0.31 µg ml(-1)) and quantification (1.05 µg ml(-1)) were obtained in aqueous solution with respect to those obtained in organic solvent.

The hydrophobic effect revisited--studies with supramolecular complexes imply high-energy water as a noncovalent driving force

Traditional descriptions of the hydrophobic effect on the basis of entropic arguments or the calculation of solvent-occupied surfaces must be questioned in view of new results obtained with supramolecular complexes. In these studies, it was possible to separate hydrophobic from dispersive interactions, which are strongest in aqueous systems. Even very hydrophobic alkanes associate significantly only in cavities containing water molecules with an insufficient number of possible hydrogen bonds. The replacement of high-energy water in cavities by guest molecules is the essential enthalpic driving force for complexation, as borne out by data for complexes of cyclodextrins, cyclophanes, and cucurbiturils, for which complexation enthalpies of up to -100 kJ mol(-1) were reached for encapsulated alkyl residues. Water-box simulations were used to characterize the different contributions from high-energy water and enabled the calculation of the association free enthalpies for selected cucurbituril complexes to within a 10% deviation from experimental values. Cavities in artificial receptors are more apt to show the enthalpic effect of high-energy water than those in proteins or nucleic acids, because they bear fewer or no functional groups in the inner cavity to stabilize interior water molecules.

Molecular assemblies of perylene bisimide dyes in water

Perylene bisimides are among the most valuable functional dyes and have numerous potential applications. As a result of their chemical robustness, photostability, and outstanding optical and electronic properties, these dyes have been applied as pigments, fluorescence sensors, and n-semiconductors in organic electronics and photovoltaics. Moreover, the extended quadrupolar π system of this class of dyes has facilitated the construction of numerous supramolecular architectures with fascinating photophysical properties. However, the supramolecular approach to the formation of perylene bisimide aggregates has been restricted mostly to organic media. Pleasingly, considerable progress has been made in the last few years in developing water-soluble perylene bisimides and their application in aqueous media. This Review provides an up-to-date overview on the self-assembly of perylene bisimides through π-π interactions in aqueous media. Synthetic strategies for the preparation of water-soluble perylene bisimides and the influence of water on the π-π stacking of perylene bisimides as well as the resulting applications are discussed.

Molecular tweezer and clip in aqueous solution: unexpected self-assembly, powerful host-guest complex formation, quantum chemical 1H NMR shift calculation

The newly prepared water-soluble naphthalene tweezer 2a and anthracene clip 4a (substituted both with lithium methanephosphonate groups in the central spacer unit) undergo an unexpected self-assembly in aqueous solution. The highly ordered intertwined structures of the self-assembled dimers [2a]2 and [4a]2 were elucidated by quantum chemical 1H NMR shift calculations. 2a and 4a form extremely stable host-guest complexes with N-methylnicotinamide 8 in methanol and water as well. According to the thermodynamic parameters determined by 1H NMR titration experiments at various temperatures the self-assembly of 2a and 4a and their strong binding to NMNA 8 observed in aqueous solution are enthalpy driven (DeltaH << 0); the enthalpic driving force is partially compensated by an unfavorable entropy (TDeltaS < 0). Self-assembly and the host-guest binding are therefore beautiful examples of the nonclassical hydrophobic effect.

Absolute free energy calculations by thermodynamic integration in four spatial dimensions

An optimized technique for calculating the excess chemical potential of small molecules in dense liquids and the binding affinity of molecular ligands to biomolecules is reported. In this method, a molecular species is coupled to the system of interest via a nonphysical fourth spatial dimension w through which insertion or extraction can be carried out [R. Pomes, E. Eisenmesser, C. B. Post et al., J. Chem. Phys. 111, 3387 (1999)]. Molecular simulations are used to compute the potential of mean force (PMF) acting on the solute molecule in the fourth dimension. The excess chemical potential of that molecule is obtained as the difference in the PMF between fully coupled and fully decoupled systems. The simplicity, efficiency, and generality of the method are demonstrated for the calculation of the hydration free energies of water and methanol as well as sodium, cesium, and chloride ions. A significant advantage over other methods is that the 4D-PMF approach provides a single effective and general route for decoupling all nonbonded interactions (i.e., both Lennard-Jones and Coulombic) at once for both neutral and charged solutes. Direct calculation of the mean force from thermodynamic integration is shown to be more computationally efficient than calculating the PMF from umbrella sampling. Statistical error analysis suggests a simple strategy for optimizing sampling. The detailed analysis of systematic errors arising from the truncation of Coulombic interactions in a solvent droplet of finite size leads to straightforward corrections to ionic hydration free energies.

Static and dynamic behavior of 2:1 inclusion complexes of cyclodextrins and charged porphyrins in aqueous organic media

Two heptakis(2,3,6-tri-O-methyl)-beta-cyclodextrin (TMe-beta-CD) molecules strongly include the peripheral substituents at the 5- and 15-positions of the charged meso-tetrasubstituted porphyrins, PorSub(4) [TPPS(4) (Sub = p-C(6)H(4)-SO(3)(-)), TPPOC3PS (p-C(6)H(4)-O-(CH(2))(3)-p-C(6)H(4)-SO(3)(-)), TCPP (Sub = p-C(6)H(4)-CO(2)(-)), and TPPOC3Py (p-C(6)H(4)-O-(CH(2))(3)-Py(+)Br(-)), where Py(+) = N-alkylpyridinium] in aqueous ethylene glycol. The binding constants (K(1) and K(2)) and the rate constants (k(1) and k(2)) for formation of the 1:1 and 2:1 complexes of TMe-beta-CD and PorSub(4) were determined. Both the binding constants and the rate constants for anionic TPPS(4), TCPP, and TPPOC3PS were much larger than those for cationic TPPOC3Py. The smaller k(1) and k(2) values for TPPOC3Py indicate a higher barrier for penetration of a cationic guest into the TMe-beta-CD cavity. The methyl groups at the rims and the cavity wall of the host are positively polarized due to the inductive effect of the ethereal oxygens. The positively polarized rims and interior of the host cavity should prevent the penetration of the cationic substituent of TPPOC3Py into the TMe-beta-CD cavity. The 2:1 TMe-beta-CD-PorSub(4) complexes are extraordinary stable in aqueous solutions, even in the case of cationic TPPOC3Py. Formation of both 1:1 and 2:1 complexes is promoted by negative and large enthalpy changes, suggesting a strong van der Waals interaction as the main binding force.

Computational approaches to molecular recognition

Recent advances in the computation of free energies have facilitated the understanding of host-guest and protein-ligand recognition. Rigorous perturbation methods have been assessed and expanded, and more approximate techniques have been developed that allow faster treatment of diverse systems.

A New Chelating Cyclophane and Its Complexation with Ni(2+), Cu(2+), and Zn(2+): Spectroscopic Properties and Allosterism via Ring Contraction

A condensation reaction between ethylenediaminetetraacetic dianhydride and p-xylenediamine gave a new chelating cyclophane, 3,10,21,28-tetraoxo-5,8,23,26-tetrakis(carboxymethyl)-2,5,8,11,20,23,26,29-octaaza[12.12]paracyclophane, abbreviated as (32edtaxan)H(4), which has three types of electron-donor groups, i.e., amine, carboxylate, and amide groups. The formation of the cyclophane has been confirmed by a single-crystal X-ray analysis of its Zn(2+) complex, [Zn(2)(32edtaxan)].7.5H(2)O, which crystallized in the monoclinic space group P2(1)/c with a = 19.818(1) Å, b = 13.169(1) Å, c = 18.134(1) Å, beta = 104.491(6) degrees, and Z = 4. Each cyclophane molecule coordinates two Zn(2+) ions and results in the formation of a binuclear chelate molecule. The coordination geometry around each metal ion is distorted octahedral, the donor atoms being two carboxylate oxygen atoms, two amine nitrogen atoms, and two amide oxygen atoms. The new cyclophane exhibited a well-defined fluorescence band at 290 nm with 210 nm excitation. The emission intensity was markedly increased in the Zn(2+) complex, in which the coordination of Zn(2+) ions increases the rigidity of the cyclophane leading to a high fluorescence quantum yield. When the cyclophane was coordinated to Cu(2+) ions, the molar absorptivity of a pi-pi transition band observed at 260 nm was increased by a factor of about 10. Such a large spectral change was not observed for the Zn(2+) and Ni(2+) complexes. In the Cu(2+) complex, the two phenyl rings of the cyclophane are expected to be brought closer, as a result of the coordination of deprotonated amide nitrogens to the central metal ion. This allosterism via ring contraction is responsible for the novel behavior of the absorption spectrum. The emission band of the cyclophane was weakened by coordination of copper and nickel as a result of fluorescence quenching caused by a photo-induced electron transfer.