Towards Amplified Probing of Weak Intermolecular Interactions on the External Surfaces of Molecular Capsules.

We report a sensitive method for comparing weak interactions between aryl rings located on the external surfaces of equilibrating homo- and heterodimeric capsules. Two identical self-complementary resorcin[4]arene tetrabenzoate molecules and one tetramethylammonium cation form in CDCl3 hydrogen-bonded homodimeric capsules whose exteriors are decorated with four tight pairs of weakly interacting aryl rings. The pair wise mixing of six different homodimers establishes their equilibria with the corresponding heterodimeric species in which two types of aryl rings exert on each other some gentle forces. This equilibrium is significantly shifted either towards homo- or heterodimers depending on the nature and location of the substituents in the weakly interacting aryl rings. The thermodynamic favorability or disadvantage of the heterodimerization is determined by stronger or weaker aryl-aryl attractions in the hetero- or homodimeric capsules, respectively. The four-fold amplification of weak aryl-aryl interactions on the external surfaces of the equilibrating capsules is responsible for high sensitiveness of our approach.

A solution-phase parallel synthesis of alkylated guanidines from thioisocyanates and amines.

An efficient solution-phase parallel synthesis of alkylated guanidines from commercial thioisocyanates and amines is described. In the first step, a thioisocyanate reacts with one equivalent of ammonia or a primary or secondary amine to give a thiourea intermediate. The latter is S-alkylated with n-dodecyl bromide resulting in the corresponding thiouronium bromide. Finally, the reaction of the thiouronium salt with a second equivalent of ammonia or a primary amine yields an alkylated guanidine. All three synthetic steps are easily combined in a one-pot high-yielding procedure with a simple work-up. Ca. 250 guanidine derivatives with high structural and functional diversity were synthesized by the developed method. 35 representatives reported in this study were fully characterized.

Engineering crystals of dendritic molecules.

A detailed single-crystal X-ray study of conformationally flexible sulfonimide-based dendritic molecules with systematically varied molecular architectures was undertaken. Thirteen crystal structures reported in this work include 9 structures of the second-generation dendritic sulfonimides decorated with different aryl groups, 2 compounds bearing branches of both second and first generation, and 2 representatives of the first generation. Analysis of the packing patterns of 9 compounds bearing second-generation branches shows that despite their lack of strong directive functional groups there is a repeatedly reproduced intermolecular interaction mode consisting in an anchor-type packing of complementary second-generation branches of neighbouring molecules. The observed interaction tolerates a wide range of substituents in meta- and para-positions of the peripheral arylsulfonyl rings. Quantum chemical calculations of the molecule-molecule interaction energies agree at the qualitative level with the packing preferences found in the crystalline state. The calculations can therefore be used as a tool to rationalize and predict molecular structures with commensurate and non-commensurate branches for programming of different packing modes in crystal.

Drug- and lead-likeness, target class, and molecular diversity analysis of 7.9 million commercially available organic compounds provided by 29 suppliers.

A database of 7.9 million compounds commercially available from 29 suppliers in 2008-2009 was assembled and analyzed. 5.2 million structures of this database were identified to be unique and were subjected to an assessment of physical and biological properties and estimation of molecular diversity. The rules of Lipinski and Veber were applied to the molecular weight, the calculated water/n-octanol partition coefficients (Clog P), the calculated aqueous solubility (log S), the numbers of hydrogen-bond donors and acceptors, and the calculated Caco-2 membrane permeability to identify the drug-like compounds, whereas the toxicity/reactivity filters were used to remove the structures with biologically undesired functional groups. This filtering resulted in 2.0 million (39%) structures perfectly suitable for high-throughput screening of biological activity. Modified filters applied to identify lead-like structures revealed that 16% of the unique compounds could be potential leads. Assessment of the biological activities, the analysis of diversity, and the sizes of exclusive sets of compounds are presented.

Sulfonimide-Based Dendrimers: Progress in Synthesis, Characterization, and Potential Applications.

There are more than 50 families of dendrimers, and some of which, such as polyamidoamine PAMAM, are well studied, and some are just starting to attract the attention of researchers. One promising type of dendrimers is sulfonimide-based dendrimers (SBDs). To date, SBDs are used in organic synthesis as starting reagents for the convergent synthesis of higher generations dendrimers, in materials science as alternative electrolyte solutions for fuel cells, and in medicinal chemistry as potential substances for drug transfer procedures. Despite the fact that most dendrimers are amorphous substances among the SBDs, several structures are distinguished that are prone to the formation of crystalline solids with melting points in the range of 120-250 °C. Similar to those of other dendrimers, the chemical and physical properties of SBDs depend on their outer shell, which is formed by functional groups. To date, SBDs decorated with end groups such as naphthyl, nitro, methyl, and methoxy have been successfully synthesized, and each of these groups gives the dendrimers specific properties. Analysis of the structure of SBD, their synthesis methods, and applications currently available in the literature reveals that these dendrimers have not yet been fully explored.

Dendrimers with a pentaphenylene core: a photophysical study.

Novel dendrimers G2PC and G4PC consisting of a p-pentaphenylene core (PC) appended in the para position with two second-generation (G2) or two fourth-generation (G4) sulfonimide branches and two n-octyl chains, as well as a model compound of the pentaphenylene core (G0PC), are prepared. The photophysical properties (absorption, emission, and excitation spectra; fluorescence decay lifetime; and fluorescence anisotropy spectra) of the three compounds are investigated under different experimental conditions (dichloromethane solution and solid state at 293 K, dichloromethane/methanol rigid matrix at 77 K). In the absorption spectra contributions from both the branches and the core can be clearly identified. The fluorescence spectra show only the characteristic fluorescence of the pentaphenylene unit with lambda(max) around 410 nm in fluid solution and 420 nm in the solid state. In solution the fluorescence quantum yields are 0.78, 0.76, and 0.72 for G0PC, G2PC, and G4PC, respectively, and the fluorescence lifetime is about 0.7 ns in all cases. Energy transfer from the chromophoric groups of the dendrimer branches to the core does not occur. The three compounds show the same, high steady-state anisotropy value (0.35) in dilute rigid-matrix solution at 77 K. In dichloromethane at 293 K, the increasing anisotropy values along the series G0PC (0.17), G2PC (0.27), and G4PC (0.32), with increasing molecular volume of the three compounds, show that depolarization takes place by molecular rotation. In the solid state the anisotropy is very low (0.015, 0.017, and 0.035 for G0PC, G2PC, and G4PC, respectively), probably because of fast depolarization via energy migration.

Two-dimensional polymers: just a dream of synthetic chemists?

In light of the considerable impact synthetic 2D polymers are expected to have on many fundamental and applied aspects of the natural and engineering sciences, it is surprising that little research has been carried out on these intriguing macromolecules. Although numerous approaches have been reported over the last several decades, the synthesis of a one monomer unit thick, covalently bonded molecular sheet with a long-range ordered (periodic) internal structure has yet to be achieved. This Review provides an overview of these approaches and an analysis of how to synthesize 2D polymers. This analysis compares polymerizations in (initially) a homogeneous phase with those at interfaces and considers structural aspects of monomers as well as possibly preferred connection modes. It also addresses issues such as shrinkage as well as domain and crack formation, and briefly touches upon how the chances for a successful structural analysis of the final product can possibly be increased.

Synthesis of compounds presenting three and four anthracene units as potential connectors to mediate infinite lateral growth at the air/water interface.

We report the synthesis of molecular sheets based on the photochemically initiated dimerization of monomers with lateral anthracene units. The film thickness and composition were investigated by ellipsometry and X-ray photoelectron spectroscopy (XPS). The mechanical stability of the film was sufficient to span it over 45x45 microm-sized holes. Several model reactions were performed to illustrate the underlying chemistry and to assist in analysis. The reported experiments are considered first steps towards the ultimate goal of the rational synthesis of laterally "infinite", one-monomer-unit-thick molecular sheets with a long-range positional order and a periodic covalent-bonding pattern. Such sheets are referred to as 2D polymers and are considered a prime goal of chemical synthesis with intriguing applications.

Mechanisms for fluorescence depolarization in dendrimers.

We have investigated the fluorescence properties of dendrimers (Gn is the dendrimer generation number) containing four different luminophores, namely terphenyl (T), dansyl (D), stilbenyl (S), and eosin (E). In the case of T, the dendrimers contain a single p-terphenyl fluorescent unit as a core with appended sulfonimide branches of different size and n-octyl chains. In the cases of D and S, multiple fluorescent units are appended in the periphery of poly(propylene amine) dendritic structures. In the case of E, the investigated luminophore is noncovalently linked to the dendritic scaffold, but is encapsulated in cavities of a low luminescent dendrimer. Depending on the photophysical properties of the fluorescent units and the structures of the dendrimers, different mechanisms of fluorescence depolarization have been observed: (i) global rotation for GnT dendrimers; (ii) global rotation and local motions of the dansyl units at the periphery of GnD dendrimers; (iii) energy migration among stylbenyl units in G2S; and (iv) restricted motion when E is encapsulated inside a dendrimer, coupled to energy migration if the dendrimer hosts more than one eosin molecule.

Knotting and threading of molecules: chemistry and chirality of molecular knots and their assemblies.

How and why do molecules tangle or thread? Investigations of molecular knots (knotanes) may shed some light on the mechanisms of (supra)molecular templation and the folding of molecules that result in intertwining. The topological chirality of these fascinating molecules leads to new types of isomerism and paves the way to nanosized molecular motors. Their preparation and derivatization makes high demands on modern synthetic methods and analytical separation since molecular knots are formed in a more or less planned design based on metal coordination or hydrogen-bonding patterns. This Review describes the development of templation techniques for the synthesis of knotanes and their chiral resolution as well as their selective functionalization and use as building blocks in the synthesis of higher knotane assemblies. Such assemblies can possess linear, branched, or even macrocyclic structures which, on the one hand, introduce unprecedented isomeric compositions that arise from multiple topological stereogenic units and, on the other, define new types of artificial macromolecules beyond polymers and dendritic species.