11-Aminoundecanoic acid, Cyclodextrins (α, β) and Cucurbit[n]urils (n = 6, 7) as Building Blocks for Supramolecular Assemblies: A Thermodynamic Study (original) (raw)
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Thermochimica Acta, 2003
The complex stabilities and the thermodynamic data for the complexation of ␣-cyclodextrin and cucurbit[6]uril with some amino acids (glycine, l-alanine, l-valine, l-phenylalanine, 6-amino hexanoic acid, 8-amino octanoic acid, 11-amino undecanoic acid) and dipeptides (glycyl-glycine, glycyl-l-valine, glycyl-l-leucine and glycyl-l-phenylalanine) have been determined in aqueous solution by calorimetric titrations. The complex formation with ␣-cyclodextrin is mainly favoured by entropic contributions due to the release of water molecules from the cavity of the ligand. The values of the reaction enthalpies are small with the exception of 11-amino undecanoic acid. In case of the ligand cucurbit[6]uril, ion-dipole interactions between the protonated amino groups of the amino acids and the carbonyl groups take place. By steric reasons these interactions are lowered for native amino acids because the polar carboxylic groups are always located outside the hydrophobic cavity of cucurbit[6]uril. The complexes of both ligands with dipeptides in water are characterised by hydrophobic interactions and in case of cucurbit[6]uril by additional ion-dipole interactions.
Thermochimica Acta, 2009
Dialkyl-and diarylammonium ions are able to form complexes with ␣-cyclodextrin and cucurbit[6]uril. These amines are able to complex two guest molecules simultaneously resulting in the formation of homogeneous or heterogeneous 1:2 (ratio of dialkylammonium to ligand) complexes. The stability constants and reaction enthalpies for the formation of 1:1 complexes have been measured using potentiometric and calorimetric titrations. Differences between the values obtained by these methods can be attributed to solvent composition. Only for the 1:2 complex formation with cucurbit[6]uril, the ligands influenced each other. The polar carbonyl groups at each portal of the cucurbit[6]urils interacted simultaneously with the protonated amino group resulting in an electrostatic repulsion between both molecules. No further interactions between two complexed molecules of ␣-cyclodextrin or cucurbit[6]uril and ␣-cyclodextrin were observed. The absence of polar groups in the case of ␣-cyclodextrin led to unaffected formation of homogeneous and even heterogeneous 1:2 complexes.
Journal of Inclusion Phenomena and Macrocyclic Chemistry, 2009
In this work, molecular dynamics (MD) simulations have been conducted to study the inclusion complexes between cucurbit[7]uril (CB7) and β-cyclodextrin (β-CD) with N-methyl-4-(p-methyl benzoyl)-pyridinium methyl cation, and N-methyl-4-(p-methyl benzoyl)-pyridine in aqueous solutions to gain detailed information about the dynamics and mechanism of the inclusion complexes. The obtained MD trajectories were used to estimate the binding free energy of the studied complexes using the molecular mechanics/Poisson Bolzmann surface area (MM–PBSA) method. Results indicate preference of CB7 to bind to the cationic guest more than the neutral guest, whereas β-CD exhibits more or less the same affinity to complex with either species. Furthermore it was interesting to note that β-CD forms more stable complexes with both guests than CB7. Average structure of each complex and the distances between the center of masses of the guest and the host were also discussed.
Binding abilities of new cyclodextrin–cucurbituril supramolecular hosts
Supramolecular Chemistry, 2014
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ACS Omega
A series of aromatic Schiff bases, featuring 7diethylamino-coumarin and with five different substituents at an adjacent phenyl ring, were synthesized and characterized. With the aim of assessing the stability of these dyes in acidic medium, their hydrolysis reactions were kinetically studied in the absence and presence of the macrocycle cucurbit[7]uril (CB[7]). Our results are consistent with a model containing three different forms of substrates (un-, mono-, and diprotonated) and three parallel reaction pathways. The pK a values and the rate constants were estimated and discussed in terms of the presence of a hydroxyl group at the ortho position and electron-releasing groups on the phenyl ring of the dyes. The kinetic study in the presence of CB[7] led to two different behaviors. Promotion of the reaction by CB[7] was observed for the hydrolysis of the Schiff bases containing only one coordination site toward the macrocycle. Conversely, an inhibitor effect was observed for the hydrolysis of a Schiff base with two coordination sites toward CB[7]. The latter effect could be explained with a model as a function of a prototropic tautomeric equilibrium and the formation of a 2:1 host/guest complex, which prevents the attack of water. Therefore, the kinetic results demonstrated a supramolecular control of the macrocycle toward the reactivity and stability of 7-diethylaminocoumarin Schiff bases in acidic medium.
Journal of Inclusion Phenomena and Macrocyclic Chemistry, 1993
The functionalized cyclodextrin 6-deoxy-6-[1-(2-amino)ethylamino]-β-cyclodextrin was synthesized, and an NMR, EPR, pH-metric, and calorimetric investigation was carried out in aqueous solution in order to ascertain its behaviour towards protonation and copper(II) complex formation. The thermodynamic parameters of the ternary complex formation with alanine, phenylalanine and tryptophan enantiomeric pairs were also determined (25° C andI=0.1 mol dm−3). No thermodynamic enantioselectivity was observed in these systems, while a chiral, though poor, discrimination was observed in LEC: c.d. spectra also show enantiomeric stereoselectivity. The results of the present investigation, compared with previously reported results, suggest the occurence of acis-complex ⇆trans-complex equilibrium in such systems.
Pure and Applied Chemistry, 2004
The review surveys new data on the directed construction of supramolecular organic-inorganic compounds from macrocyclic cavitand cucurbit[6]uril (C 36 H 36 N 24 O 12 ) and mono-and polynuclear aqua complexes. Due to the presence of polarized carbonyl groups, cucurbit uril forms strong complexes with alkali, alkaline earth and rare-earth metal ions, and hydrogen-bonded supramolecular adducts with cluster and polynuclear aqua complexes of transitional metals. A wide variety of supramolecular compounds and their unique structures are described.
ACS Omega, 2022
Selective binding of amino acids, peptides, and proteins by synthetic molecules and elucidation of the geometry and dynamics of the resulting complexes and their strengths are active areas of contemporary research. In recent work, we analyzed via molecular dynamics (MD) simulations the complexes formed between cucurbit[7]uril (CB7) and three aromatic amino acids: tryptophan (W), phenylalanine (F), and tyrosine (Y). Herein, we continue this line of research by performing MD simulations lasting 100 ns to investigate the formation, stabilities, binding modes, dynamics, and specific host−guest noncovalent interactions contributing to the formation of the binary (1:1) and ternary (2:1) complexes in aqueous solution between W, F, and Y amino acids and cucurbit[8]uril (CB8). All complexes were found to be stable, with the binding in each complex dominated by one mode (except for the F−CB8 complex, which had two) characterized by encapsulation of the aromatic side chains of the amino acids within the cavity of CB8 and the exclusion of their ammonium and carboxylate groups. Using the molecular mechanics/Poisson−Boltzmann surface area method to estimate the individual contributions to the overall free energies of binding, results revealed that the key role is played by the amino acid side chains in stabilizing the complexes through their favorable van der Waals interactions with the CB8 cavity and the importance of favorable electrostatic interactions between the carbonyl portal of CB8 and the ammonium group of the amino acid. Visual analysis of structures of the ternary complexes indicated the presence of π−π stacking between the aromatic side chains of the included amino acids. The insights provided by this work may be of value for further efforts aiming to employ the recognition properties of CB8 toward amino acids in applications requiring more elaborate recognition of short peptides and proteins.