Molecular Dynamics Simulations of p-Sulfonatocalix[4]arene Complexes with Inorganic and Organic Cations in Water: A Structural and Thermodynamic Study

Adsorption and dynamics of linear and mono-branched hexane isomers in MIL-140 metal-organic frameworks

Recent breakthrough experiments revealed the iso-reticular Zr-MOFs, MIL-140B and MIL-140C, as promising sorbents for the separation of C6 isomers. Interestingly while the ultra-small pore MIL-140B exhibited hexane isomer sorption hierarchy according to the normal boiling point order (n-C6 > 3MP (3-methyl pentane)), an uncommon shift in the elution order was observed in the larger pore MIL-140C. It was only speculated that the flexibility of the MOFs might be the origin of this intriguing behavior. Herein, flexible force field hybrid osmotic Monte Carlo combined with molecular dynamics simulations were carried out to unravel the microscopic mechanism of the adsorption and dynamics of both C6 isomers in MIL140B and MIL140C. Thermodynamically preferred adsorption of n-C6 over 3MP was predicted for MIL-140B and to a slightly less extent for MIL-140C. Interestingly while the mobility of n-C6 was found to remain higher than that of 3MP in the whole range of loading for MIL-140B, 3MP becomes more mobile than n-C6 at saturation in MIL-140C. This suggests that this kinetics order is most probably the origin of the inversion of the elution order observed experimentally for MIL-140C. The translational and rotational dynamics of the two guests in MIL-140B and MIL-140C was further understood in-depth.

Force-Field Simulations of a Hydrated Lanreotide-Based Derivative: Hydration, Dynamics, and Numerical Evidence of Self-Assembly in Dimers

Recently, self-organization of the cyclic octapeptide lanreotide and lanreotide-based derivatives in a nanotube to from a dimer structure has been experimentally evidenced. While the nature of the interactions between both monomers has been strongly investigated no molecular details of the hydration of the monomer and the formation of the dimer have been provided. Using molecular dynamics simulations, this work focuses on the structure, hydration, and dynamics of water and an analog of lanreotide. To do so, several models of monomers based on different schemes of partial charges and electrostatic interaction calculations are considered. By comparison with the experiments, we show that the model based on the combination of the AMBER force-field, CHELPG charge calculation, Ewald sum is the most relevant. Additionally, by mapping the interfacial hydration of the lanreotide monomer we evidence a heterogeneous surface in terms of hydrophilicity involving heterogeneous hydration. Furthermore, we show a slowdown in the translational dynamics of water molecules located close to the lanreotide surface. We also provide the molecular details of the self-assembly in the dimer in terms of structure, hydration, and energy.

Anomalous dynamics of water at the octopeptide lanreotide surface

This work reports the study of water dynamics close to the cyclic octapeptide lanreotide from atomistic simulations of hydrated lanreotide, a cyclic octapeptide. Calculation of the hydrogen bonds between water molecules allows mapping of the hydrophilic regions of lanreotide. Whereas a super-diffusivity of the interfacial water molecules is established, a slowdown in rotational dynamics is observed, involving a decoupling between both processes. Acceleration in translation dynamics is connected to the hopping process between hydrophilic zones. Microscopically, this is correlated with the weakness of the interfacial hydrogen bonding network due to a hydrophobic interface at the origin of the interfacial sliding of water molecules. Heterogeneous rotational dynamics of water molecules close the lanreotide surface is evidenced and connected to heterogeneous hydration.

Molecular dynamics simulations of a hydrated mutated lanreotide, a cyclic octapeptide, were carried out to characterize its hydration state. We studied the water dynamics close to the peptide using atomistic simulations.

Thermodynamics of Supramolecular Associations with Macrocyclic Water-Soluble Hosts

The thermodynamic study of the complexation of the β-cyclodextrins and p-sulfonatocalix[n]arenes (CnS) with the 4-aminoazobenzene was reported and was carried out by molecular dynamics simulations. We determined the whole thermodynamic properties (K, Δr G°, Δr H°, and TΔr S°) using the potential of mean force (PMF) technique and more precisely the adaptive biasing force method. Depending on both the nature of the host molecule and the pH of the solution, the PMF profiles present different shapes and energy minima. Considering the complexity of these PMF profiles, we are also interested in the structural properties of these associations. Hence, we calculated hydrogen bonds, Lennard-Jones and electrostatic energies, the number of atoms of the guest molecule inserted inside the cagelike host molecule, and the number of water molecules expelled from the cavity.

Host-guest interactions between p-sulfonatocalix[4]arene and p-sulfonatothiacalix[4]arene and group IA, IIA and f-block metal cations: a DFT/SMD study

The molecular recognition in aqueous solution is extremely important because most biological processes occur in aqueous solution. Water-soluble members of the calix[n]arene family (e.g., p-sulfonato substituted) can serve as model systems for studying the nature and manner of interactions between biological receptors and small ions. The complex formation behavior of water-soluble p-sulfonatocalix[4]arene and thiacalix[4]arene and group IA, IIA and f-block metal cations has been investigated computationally by means of density functional theory computations in the gas phase and in aqueous environment. The calculated Gibbs free energy values of the complex formation reaction of these ligands with the bare metal cations suggest a spontaneous and energy-favorable process for all metal cations in the gas phase and only for Na⁺, Mg²⁺, Lu³⁺ cations in water environment. For one of the studied cations (La³⁺) a supramolecular approach with explicit solvent treatment has been applied in the study of the effect of metal hydration on the complexation process. The La³⁺ binding to the p-sulfonatocalix[4]arene host molecule (now in the metal's second coordination shell) is still exergonic as evidenced by the negative Gibbs free energy values (ΔG ¹ and ΔG ⁷⁸). The combination of implicit/explicit solvent treatment seems useful in the modeling of the p-sulfonatocalix[4]arene (and thiacalix[4]arene) complexes with metal cations and in the prediction of the thermodynamic parameters of the complex formation reactions.

Associations of Water-Soluble Macrocyclic Hosts with 4-Aminoazobenzene: Impact of pH

An investigation of the pH effect on the inclusion complexes of β-cyclodextrins and calixarenesulfonates with 4-aminoazobenzene was conducted both by experiments and molecular simulations. The whole thermodynamic characterizations of the association between hosts and 4-aminoazobenzene ( K, Δ_r G⁰, Δ_r H⁰, and TΔ_r S⁰) were determined by UV-visible spectroscopy. β-Cyclodextrin inclusion complexes are not affected by pH change unlike those obtained with calixarenes. All the studied systems were enthalpically favored. Nevertheless, the entropic behavior is different depending on the host. In order to interpret these experimental results, molecular simulations were used to calculate the number of atoms inserted into the cage-like host compounds and the number of water molecules expelled from the cavity.

Molecular binding behavior of water-soluble calix[4]arenes with asymmetric 4,4′-bipyridinium guests in aqueous solution: regioselective recognition or not?

A unique regioselective recognition of N-methyl-N′-(naphthalen-2-ylmethyl)-4,4′-bipyridinium bromide iodide using a p-sulfonatocalix[4]arene was found.

High affinity of p-sulfonatothiacalix[4]arene with phenanthroline-diium in aqueous solution

The molecular binding behavior of sulfonated calixarenes with phenanthroline-diium guests were systemically investigated. p-Sulfonatothiacalix[4]arene shows a high affinity with phenanthroline-diium guests in the order of magnitude of 105 M⁻¹.

Controlling the organization of phosphonium cations relative to p-sulfonatocalix[4]arene anions

A composite material containing supermolecules of 1,4-bis(triethylammoniomethyl)benzene and p-sulfonated calix[4]arene involves preferential binding of the ammonium moieties in the cavities of two geometrically opposed calixarenes with mono-phosphonium cations arranged in the endo-orientation with respect to the calixarene bilayers, as a multi-layered structure.

Calix[4]arene sulfonate as a template for forming fluorescent thiazole orange H-aggregates

The unexpected interaction between thiazole orange (TO) and calix[4]arene sulfonate is reported herein. H-Aggregates of TO switching on their fluorescence in solution are observed. Surprisingly, fluorescence enhancement is not linked to host-guest inclusion, but rather to calix[4]arene sulfonate serving as a template for several TO molecules.

Binding mechanisms in supramolecular complexes

Supramolecular chemistry has expanded dramatically in recent years both in terms of potential applications and in its relevance to analogous biological systems. The formation and function of supramolecular complexes occur through a multiplicity of often difficult to differentiate noncovalent forces. The aim of this Review is to describe the crucial interaction mechanisms in context, and thus classify the entire subject. In most cases, organic host-guest complexes have been selected as examples, but biologically relevant problems are also considered. An understanding and quantification of intermolecular interactions is of importance both for the rational planning of new supramolecular systems, including intelligent materials, as well as for developing new biologically active agents.

Nano-supramolecular assemblies constructed from water-soluble bis(calix[5]arenes) with porphyrins and their photoinduced electron transfer properties

Possessing 2D netlike and 1D linear morphologies, two nano-supramolecular architectures A1 and A2 are constructed by tetracationic porphyrin (G1) and dicationic porphyrin (G2), respectively, upon complexation with the novel water-soluble bis(p-sulfonatocalix[5]arenes) bridged at the lower rim (H2). Corresponding to the molecular design, the aggregation morphologies are well manipulated by the inherent binding sites of the building blocks through host-guest interactions as well as charge interactions. In comparison to the simple p-sulfonatocalix[5]arene H1 which can only form particle-type complexes C1 and C2 with porphyrin guests, H2 provides excellent pre-organized structure to construct highly complex nano-supramolecular assemblies. The exhibited electron-transfer process of the supramolecular systems is further investigated by steady-state and time-resolved fluorescence spectroscopy, electrochemical measurements, and transient absorption spectroscopy. The results obtained show that calixarenes are also effective electron donors in PET besides acting as significant building blocks, which gives them many advantages in constructing well-ordered nanomaterials with the capability of electron and energy transport.

Computational and experimental investigations of supramolecular assemblies of p-sulfonatocalix[4]arene organized by weak forces

We report the study of the supramolecular assemblies formed by the incorporation of quaternary ammonium cations such as Me4N+ or Et4N+ into host-guest assemblies with p-sulfonatocalix[4]arene in the presence of a lanthanide(III) cation in water. We use microcalorimetry to characterize the formation of these supramolecular assemblies. We obtain a molecular description of these assemblies by performing molecular dynamics simulations over a very large period of time. The structures of these supramolecular complexes have been determined and discussed through specific interaction energy contributions. By combining MD simulations and 1NMR spectroscopy, we highlight a specific behavior of the supramolecular assembly with the Me4N+.

Methodology for the Calculation of the Potential of Mean Force for a Cation–π Complex in Water

We report potential of mean force (PMF) calculations on the interaction between the p-sulfonatocalix[4]arene and a monovalent cation (Cs(+)). It has been recently shown from microcalorimetry and (133)Cs NMR experiments that the association with Cs(+) is governed by favourable cation-pi interactions and is characterized by the insertion of the cation into the cavity of the macrocycle. We show that the PMF calculation based upon a classical model is not able to reproduce both the thermodynamic properties of association and the insertion of the cation. In order to take into account the different contributions of the cation-pi interactions, we develop a new methodology consisting of changing the standard PMF by an additional contribution resulting from quantum calculations. The calculated thermodynamic properties of association are thus in line with the microcalorimetry and (133)Cs NMR experiments and the structure of the complex at the Gibbs free-energy minimum shows the insertion of the cation into the cavity of the calixarene.

Supramolecular Chemistry in Water

Supramolecular chemistry in water is a constantly growing research area because noncovalent interactions in aqueous media are important for obtaining a better understanding and control of the major processes in nature. This Review offers an overview of recent advances in the area of water-soluble synthetic receptors as well as self-assembly and molecular recognition in water, through consideration of the functionalities that are used to increase the water solubility, as well as the supramolecular interactions and approaches used for effective recognition of a guest and self-assembly in water. The special features and applications of supramolecular entities in aqueous media are also described.

Calixarenes as hosts for ammonium cations: a quantum chemical study and mass-spectrometric investigations

Host-guest complexes of tetramethylcavitand with different ammonium cations were investigated by using a quantum chemical method at the density functional level (BP86, B3 LYP). The NH4+ cation is strongly bound to the host. Increasing methyl substitution at the cation decreases its inclination towards the complex formation. The calculated data are in line with results from electrospray ionization mass spectrometry (ESI-MS) experiments. They reveal stable aggregates only for the NH4+ cation and for the primary alkylammonium cations.

Calculation of the absolute thermodynamic properties of association of host-guest systems from the intermolecular potential of mean force

The authors report calculations of the intermolecular potential of mean force (PMF) in the case of the host-guest interaction. The host-guest system is defined by a water soluble calixarene and a cation. With an organic cation such as the tetramethylammonium cation, the calixarene forms an insertion complex, whereas with the Lanthane cation, the supramolecular assembly is an outer-sphere complex. The authors apply a modified free energy perturbation method and the force constraint technique to establish the PMF profiles as a function of the separation distance between the host and guest. They use the PMF profile for the calculation of the absolute thermodynamic properties of association that they compare to the experimental values previously determined. They finish by giving some structural features of the insertion and outer-sphere complexes at the Gibbs free energy minimum.

Binding of monovalent metal cations by the p-sulfonatocalix[4]arene: experimental evidence for cation–π interactions in water

Gibbs free energies, enthalpies and entropies for the binding of Na+, K+, Rb+, Cs+, Ag+, Tl+ and NH4+ by the p-sulfonatocalix[4]arene in water are determined by microcalorimetry. Whereas no significant heat effect is detected with Na+ or Ag+, suggesting that these cations are not complexed, weak but selective binding is observed with the other cations. The whole set of thermodynamic parameters, which demonstrate that the cations bind inside the cavity of the calixarene, evidence the importance of the cation-pi interactions for these complexes in water.

MD Simulations of the Binding of Alcohols and Diols by a Calixarene in Water: Connections between Microscopic and Macroscopic Properties

We report results of molecular dynamics (MD) simulations of the complexes of p-sulfonatocalix[4]arene with linear alcohols from ethanol to heptanol in water at 25 degrees C. We show that these complexes are of the inclusion type and are governed by van der Waals interactions between the calixarene cavity and the inserted alkyl chain of the alcohol. We establish a correlation between the experimental Delta(r)H degrees values and the number of atoms inserted into the calixarene cavity. We also focus on the desolvation of the host and guest to establish the importance, at the enthalpic level, of the formation of hydrogen bond bridges between the calixarene and the alcohol molecule. The fact that methanol is not complexed by p-sulfonatocalix[4]arene is explained by calculating the cost of the desolvation of the guest upon complexation. We complete this study by modeling the complexes formed with 1,4-butanediol and 1,5-pentanediol. To explain the difference between the thermodynamic properties for the binding of 1,4-butanediol and butanol, we examine the insertion rate and the solvation of each hydroxy group. We show a specific behavior of one of the two hydroxy groups at the structural and energetic levels.