The canonical behavior of the entropic component of thermodynamic effective molarity. An attempt at unifying covalent and noncovalent cyclizations

The statistically corrected entropic component of effective molarity (EM_S*) complies with the “canonical” values expressed by the log plot of EM_S* vs. the number n of single bonds in the ring product.

Evidence for Ion-Templation During Macrocyclooligomerization of Depsipeptides

The ion-mediated Mitsunobu macrocyclooligomerization (M-MCO) reaction of hydroxy acid depsipeptides provides small collections of cyclic depsipeptides with good mass recovery. The approach can produce good yields of a single macrocycle or provide rapid access to multiple oligomeric macrocycles in good overall yield. While Lewis acidic alkali metal salts are known to play a role in the outcome of MCO reactions, it is unclear whether their effect is due to an organizational (e.g., templating) mechanism. Isothermal titration calorimetry (ITC) was used to study macrocycle-metal ion binding interactions, and this report correlates these thermodynamic measurements to the (kinetically determined) size distributions of depsipeptides formed during a Mitsunobu-based macrocyclooligomerization (MCO). Key trends have been identified in quantitative metal ion-cyclic depsipeptide binding affinity ( Ka), enthalpy of binding (Δ H), and stoichiometry of complexation across discrete series of macrocycles, and they provide the first analytical platform to rationally select a metal-ion template for a targeted size regime of cyclic oligomeric depsipeptides.

Quantitative Analysis of the Self-Assembly Process of Hexagonal PtII Macrocyclic Complexes: Effect of the Solvent and the Components

The self-assembly process of three Pt^II -linked hexagonal macrocycles consisting of dinuclear Pt^II complexes and organic ditopic ligands was investigated in polar and less polar solvents by a recently developed approach: quantitative analysis of the self-assembly process (QASAP). In polar CD₃ NO₂ , for all the three macrocycles, an ML₂ complex was the dominant intermediate during self-assembly, as a result of high positive allosteric cooperativity for the ligand exchange on the Pt^II centers of the dinuclear Pt^II complexes. On the other hand, in less polar CD₂ Cl₂ , the self-assembly process was affected by the components. For two of the three macrocycles, the chainlike oligomers that contain fewer metals and ligands than the corresponding macrocycles grew with time and the type of the chainlike intermediates formed correlated with the allostericity of the two binding sites in the organic ditopic ligands. In every case, no long oligomers containing more components than the macrocycles themselves were produced during the self-assembly even though free rotation around single bonds in the chainlike oligomers allows them to adopt various conformations that do not facilitate the cyclization. This result suggests that electrostatic and/or steric factors besides rigidity of the components make the cyclization advantageous not only thermodynamically but also kinetically.

Formation of Imidazo[1,5-a]pyridine Derivatives Due to the Action of Fe2+ on Dynamic Libraries of Imines

An imidazo[1,5-a]pyridine derivative was unexpectedly obtained through the action of Fe²⁺ on a dynamic library of imines generated in situ via condensation of benzaldehyde and 2-picolylamine. The reaction product was easily isolated as the only nitrogen-containing product eluted from the chromatographic column. A reaction mechanism is proposed, in which combined kinetic and thermodynamic effects exerted by Fe²⁺ on the various steps of the complex reaction sequence are discussed. The Fe²⁺ nature of the added metal cation was found to be pivotal for the achievement of the imidazo[1,5-a]pyridine derivative as well as its amount in the reaction mixture. When the electronic effects were evaluated, gratifying yields were obtained only in the presence of moderately electron-releasing or moderately electron-withdrawing groups on the aldehyde reactant. No traces of imidazo[1,5-a]pyridine derivatives were obtained for p-OCH₃ and p-NO₂ benzaldehyde.

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.

Orthoester exchange: a tripodal tool for dynamic covalent and systems chemistry

Reversible covalent reactions have become an important tool in supramolecular chemistry and materials science. Here we introduce the acid-catalyzed exchange of O,O,O-orthoesters to the toolbox of dynamic covalent chemistry. We demonstrate that orthoesters readily exchange with a wide range of alcohols under mild conditions and we disclose the first report of an orthoester metathesis reaction. We also show that dynamic orthoester systems give rise to pronounced metal template effects, which can best be understood by agonistic relationships in a three-dimensional network analysis. Due to the tripodal architecture of orthoesters, the exchange process described herein could find unique applications in dynamic polymers, porous materials and host-guest architectures.

Applications of dynamic combinatorial chemistry for the determination of effective molarity

A new strategy for determining thermodynamic effective molarities (EM) for macrocylisation reactions using dynamic combinatorial chemistry under dilute conditions is presented. At low concentrations, below the critical value, Dynamic Libraries (DLs) of bifunctional building blocks contain only cyclic species, so it is not possible to quantify the equilibria between linear and cyclic species. However, addition of a monofunctional chain stopper can be used to promote the formation of linear oligomers allowing measurement of EM for all cyclic species present in the DL. The effectiveness of this approach was demonstrated for DLs generated from mixtures of 1,3-diimine calix[4]arenes, linear diaminoalkanes and monoaminoalkanes. For macrocycles deriving from one bifunctional calixarene and one diamine, there is an alternating pattern of EM values with the number of methylene units in the diamine: odd numbers give significantly higher EMs than even numbers. For odd numbers of methylene units, the alkyl chain can adopt an extended all anti conformation, whereas for even numbers of methylene units, gauche conformations are required for cyclisation, and the associated strain reduces EM. The value of EM for the five-carbon linker indicates that this macrocycle is a strainless ring.

Dynamic combinatorial/covalent chemistry: a tool to read, generate and modulate the bioactivity of compounds and compound mixtures

Reversible covalent bond formation under thermodynamic control adds reactivity to self-assembled supramolecular systems, and is therefore an ideal tool to assess complexity of chemical and biological systems. Dynamic combinatorial/covalent chemistry (DCC) has been used to read structural information by selectively assembling receptors with the optimum molecular fit around a given template from a mixture of reversibly reacting building blocks. This technique allows access to efficient sensing devices and the generation of new biomolecules, such as small molecule receptor binders for drug discovery, but also larger biomimetic polymers and macromolecules with particular three-dimensional structural architectures. Adding a kinetic factor to a thermodynamically controlled equilibrium results in dynamic resolution and in self-sorting and self-replicating systems, all of which are of major importance in biological systems. Furthermore, the temporary modification of bioactive compounds by reversible combinatorial/covalent derivatisation allows control of their release and facilitates their transport across amphiphilic self-assembled systems such as artificial membranes or cell walls. The goal of this review is to give a conceptual overview of how the impact of DCC on supramolecular assemblies at different levels can allow us to understand, predict and modulate the complexity of biological systems.

Effective catalysis of imine metathesis by means of fast transiminations between aromatic-aromatic or aromatic-aliphatic amines

This paper reports on a quantitative investigation of rates of amine-imine exchange reactions of primary amines with their benzylidene derivatives in organic solvents at room temperature. Exchange reactions involving aromatic-aromatic or aromatic-aliphatic amines were in all cases fast enough to allow their use in the effective catalysis of imine metathesis in the absence of acid and metal catalysis. Transiminations based on exchange between aromatic and aliphatic amines were retarded both by electron-donating and electron-withdrawing substituents in the para-position of the benzylidene moiety. This result was interpreted as arising from a change in the rate-determining step of the two-step transimination reaction.

Copper(i)-induced amplification of a [2]catenane in a virtual dynamic library of macrocyclic alkenes

The interlocked virtual component 1 of a well-behaved dynamic library of cyclic olefins is resuscitated by means of the template effect.

Ring-Expansion Living Cationic Polymerization via Reversible Activation of a Hemiacetal Ester Bond

In this paper, we provide an effective route to cyclopolymers via the Lewis acid-assisted "ring-expansion" living cationic polymerization of vinyl ethers, directly from a simple "cyclic initiator" designed with a hemiacetal ester for dynamic and reversible initiation and propagation. The built-in hemiacetal ester, or a carboxylic acid-vinyl ether adduct, is a key to control the polymerization: as the leaving group, the activated carboxylate is well-suited for designing the ring structure, differing from monovalent halogens often employed in carbocationic initiation. The choice of a Lewis acid catalyst (SnBr₄) is equally crucial to retain the cyclic structure via the reversibly dissociable but relatively strong ester bond not only during propagation but also even after quenching. The formation of cyclic polymers was proved by irreversibly cleaving the hemiacetal ester linkage of the product via acidic hydrolysis into an open-chain structure, i.e., an increase in size exclusion chromatography (SEC) molecular weight (hydrodynamic radius), along with the clean transformation of the endocyclic hemiacetal ester into an α-carboxylic acid and ω-aldehyde terminals (by NMR). The polymerization was really "living" polymerization via ring-expansion, as demonstrated by successful monomer-addition experiments and a linear increase in molecular weight with conversion. This ring-expansion living polymerization would open a door to well-defined cyclic polymers free from terminus (end groups) and to hybrid macromolecules with combinations of cyclic and linear architectures.