Assessing the mechanical properties of a molecular spring

We report on the dramatic effect of increasing helix diameter on the hybridization of oligopyridine-dicarboxamide strands into double helices. Upon replacing a single pyridine by a 1,8-diazaanthracene unit within an oligomeric strand, a 4.7 A enlargement of the helix diameter occurs parallel to the long anthracene axis. This structure change results in a spectacular stabilization of the double helical hybrids derived from these strands (factors of over 10(7)). Detailed investigations of the hybridization process using X-ray crystallography, NMR, fluorescence measurements and molecular mechanics calculations allowed us to assign the duplex stabilization to two enthalpic effects. First, the increase in diameter results in an augmented surface, involved in intermolecular pi-pi stacking. Second, the enlarged diameter leads to a lower tilt angle of the helical strand, with respect to the helix axis, which in turn results in smaller dihedral angles at the aryl-amide linkages and thus a considerably lowered enthalpic cost of the spring-like extension of the strands during the hybridization process. These results provide novel insights into how subtle tuning of molecular components may result in considerable and rationalizable changes in double helical supramolecular architectures.     

One-pot synthesis of a polyrotaxane via selective threading of a PEI-b-PEG-b-PEI copolymer

A functional polyrotaxane of a PEI-b-PEG-b-PEI copolymer is synthesized in aqueous solution in a one-pot sequence. To obtain a polyrotaxane with PEG-block-selective inclusion complexes, the solution pH of the polypseudorotaxane is lowered to 4.4 in the presence of 9-anthraldehyde (AN), which triggers the expulsion of the alpha-cyclodextrins (alpha-CDs) from the flank PEI chains. Synthetic strategy of a block-selective polyrotaxane between a PEI-b-PEG-b-PEI copolymer and alpha-cyclodextrins.     

Preparation of alpha-cyclodextrin-terminated polyrotaxane consisting of beta-cyclodextrins and pluronic as a building block of a biodegradable network

A beta-CD-based biodegradable polyrotaxane was prepared by capping both terminals of polypseudorotaxane consisting of hydrazide-terminated PEG-block-PPG-block-PEG (Pluronic P-105) and beta-CD-succinates with mono-aldehyde alpha-CDs. By decreasing pH, the fluorescent intensity of TNS was increased with time, indicating cleavage of the terminal hydrazone bonds followed by beta-CD-succinate release. The terminal alpha-CD moieties of the polyrotaxane are useful for self-assembled formation with some guest molecules. [Diagram: see text]     

Encapsulation of small polar guests in molecular apple peels

Three aromatic oligoamides have been prepared that have alternating 1,6-diaminopyridine and 1,6-pyridinedicarboxylic acid units at the center of the sequence and two 8-amino-2-quinolinecarboxylic acid units at each extremity. The three oligomers differ in the number--3, 5, or 7-of pyridine units in the sequence. They were designed to adopt helically folded conformations in solution and in the solid state. The sequence of monomers was chosen so that the diameter of the helix is larger in the center than at each extremity, and hence they resemble helically wrapped apple peels. According to modeling studies, the pyridine units were expected to define a polar hollow within the helix that is large enough to accommodate small polar guests, whereas the quinoline units at each end of the oligomeric sequences were expected to completely cap the hollow and transform the helix cavities into a closed shell that may act as a capsule. Crystallographic studies demonstrate that the oligomers do fold into helices that define a cavity isolated from the surrounding medium in the solid state. Depending on the number of pyridine rings, one or two water molecules are bound within the capsules. The crystal structure of a capsule fragment shows that MeOH can also be hosted by the largest oligomer. Solution NMR studies confirm that binding of water also occurs in solution with the same stoichiometry as observed in the solid state. The capsules have distinct signals depending on whether they are empty, half-full, or full, and these species are in slow exchange on the NMR timescale at low temperature. Indeed, the binding and release of water molecules requires a significant conformational distortion of the helix that slows down these processes. The addition of small polar molecules such as methanol, hydrazine, hydrogen peroxide, or formic acid to the largest capsule leads to the observation of new sets of NMR signals of the capsules that were assigned to complexes with these guests. However, water appears to be the preferred guest.     

A Supramolecular Strategy for Self‐Mobile Adsorption Sites in Affinity Membrane

Disclosed here is the design of a novel supramolecular membrane with self‐mobile adsorption sites for biomolecules purification. In the 3D micropore channels of membrane matrix, the ligands are conjugated onto the cyclic compounds in polyrotaxanes for protein adsorption. During membrane filtration, the adsorption sites can rotate and/or slide along the axial chain, which results in the enhanced adsorption capacity. The excellent performance of supra­molecular membrane is related with the dynamic working manner of adsorption sites, which plays a crucial role on avoiding spatial mismatching and short‐circuit effect. The supra­molecular strategy described here has general suggestions for the “sites” involved technologies such as catalysis, adsorption, and sensors, which is of broad interest.

     

Synthesis of polyrotaxanes based on α-cyclodextrin and poly(ethylene oxide)

Inclusion complexes of poly(ethylene oxide) with α-cyclodextrin are the key compounds in the synthesis of polyrotaxanes. These complexes prepared in aqueous solutions contain free cyclodextrin, which cocrystallizes with the major reaction product. These complexes dissociate upon dissolution in DMF and DMSO to form cyclodextrin and pseudopolyrotaxanes with a low cyclodextrin content. Polyrotaxane was synthesized with the use of poly(ethylene oxide)-α,ω-bis-amine as a linear component. The end-groups of the polymer in the inclusion complex were modified by the reaction with 2,4-dinitrofluorobenzene. A procedure was developed for purification of a polyrotaxane with high cyclodextrin content. __________ Published in Russian in Izvestiya Akademii Nauk. Seriya Khimicheskaya, No. 8, pp. 1914–1918, August, 2005.     

Molecular Recognition of Zwitterions with Artificial Receptors

Many biomolecules exist as internal ion pairs or zwitterions within a biologically relevant pH range. Despite their importance, the molecular recognition of this type of systems is specially challenging due to their strong solvation in aqueous media, and their trend to form folded or self‐assembled structures by pairing of charges of different sign. In this Minireview, we will discuss the molecular recognition of zwitterions using non‐natural, synthetic receptors. This contribution does not intend to make a full in‐depth revision of the existing research in the field, but a personal overview with selected representative examples from the recent literature.     

Artificial Allosteric Receptors

Cooperative effects in the binding of two or more substrates to different binding sites of a receptor that are a result of a conformational change caused by the binding of the first substrate—also referred to as the effector—are called allosteric effects. In biological systems, allosteric regulation is a widely used mechanism to control the function of proteins and enzymes in cellular metabolism. Inspired by this a lot of efforts have been made in supramolecular chemistry to implement this concept into artificial systems to control functions as molecular recognition, signal amplification, or even reactivity and catalysis. This review gives an up‐to‐date overview over the different approaches that have been reported ever since the first examples from the late 1970s/early 1980s. It covers both homo‐ and heterotropic examples and is divided according to the nature of the effector—cationic, anionic, or neutral—effectors and systems that use combinations of those.     

Assembly of a fluorescent cyclodextrin polyrotaxane and its detection by fluorescence microscopy

A straightforward method for the assembly of fluorescent polyrotaxanes is described here. The consecutive threading of N‐(6^I‐desoxy‐β‐cyclodextrin‐6^I‐yl)‐N′‐(5‐fluoresceinyl)‐thiourea, β‐CD‐F , and α‐CD onto poly(N,N‐dimethyliminium‐hexamethylen‐N′,N′‐dimethyliminium‐decamethylene chloride), I‐6,10 , leads to a fluorescent polyrotaxane. Free β‐CD‐F could be distinguished from threaded β ‐ CD‐F by gel electrophoresis. Since the dissociation of threaded α‐CD rings is sterically hindered, the obtained polyrotaxanes are kinetically stable at 25 °C, and they did not require further stabilization by the attachment of stopper groups at the chain ends. Single polyrotaxane entities could be visualized with both fluorescence microscopy and atomic force microscopy. © 2009 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem 47: 6223–6230, 2009     

Supramolecular polymer gels formed from polyamidine and random copolymer of n-butyl acrylate and acrylic acid

We have prepared the amidinium-carboxylate salt bridge-based supramolecular polymer gels from random copolymer of n-butyl acrylate and acrylic acid and a linear polyamidine having N,N′-di-substituted acetamidine group in the main chain. The supramolecular polymer gel with equimolar amounts of carboxy and amidine groups shows a high G′ value of 1.6 MPa at 25°C. In contrast, the gel prepared from the carboxy polymer and linear polyethyleneimine instead of the polyamidine shows liquid-like fluidity with a G′ value of 0.01 MPa at 25°C. The robustness of the amidine-based supramolecular polymer gels is attributed to the high stability of the amidinium-carboxylate salt bridge. Replacing the random copolymer with carboxy-terminated telechelic poly(n-butyl acrylate) results in a significant decrease in G′ as well as |η*|, which may arise from the difference in the network structure due to the arrangement of carboxy groups.     

Cyclodextrin polyrotaxanes assembled from a molecular construction kit in aqueous solution

We describe a molecular construction kit in which amphiphilic polymers and functionalized cyclodextrins are arranged into sophisticated molecular architectures in aqueous solution without the need to perform chemical reactions. Therefore, these systems are highly biocompatible and show programmable lifetimes. The kinetic stabilities of our polyrotaxane structures are tunable using sterically demanding groups that hinder dissociation. These cyclodextrin‐based polymer systems are applicable in principle for the detection of analytes at the level of single molecules. These systems may also serve well in targeted drug delivery and gene transfection. © 2009 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem 47: 6333–6341, 2009     

Artificial ditopic Arg-Gly-Asp (RGD) receptors

Covalent fusion of two artificial recognition motifs for arginine and aspartate resulted in a new class of ditopic RGD receptor molecules, 1-4. The two binding sites for the oppositely charged amino acid residues are linked by either flexible linkers of different length (in 1-3) or a rigid aromatic spacer (in 4). These spacers are shown to be critical for the complexation efficiency of the artificial hosts. If the linkers are too flexible, as in 1-3, an undesired intramolecular self-association occurs within the host and competes with, and thereby weakens, substrate binding. The rigid aromatic linker in 4 prevents any intramolecular self-association and hence efficient RGD binding is observed, even in buffered water (association constant of K(a) approximately 3000 m(-1)). A further increase in hydrophobic contacts, as in host 16, can complement the specific Coulomb attractions, thereby leading to an even more stable complex (Ka=5000 m(-1)). The recognition events have been studied with NMR spectroscopy, UV/Vis spectroscopy, and fluorescence titrations.     

Evolution of Artificial Arginine Analogues—Fluorescent Guanidiniocarbonyl-Indoles as Efficient Oxo-Anion Binders

In this article, we present fluorescent guanidiniocarbonyl-indoles as versatile oxo-anion binders. Herein, the guanidiniocarbonyl-indole (GCI) and methoxy-guanidiniocarbonyl-indole (MGCI) were investigated as ethylamides and compared with the well-known guanidiniocarbonyl-pyrrole (GCP) concerning their photophysical properties as well as their binding behavior towards oxo-anions. Hence, a variety of anionic species, such as carboxylates, phosphonates and sulfonates, have been studied regarding their binding properties with GCP, GCI and MGCI using UV-Vis titrations, in combination with the determination of the complex stoichiometry using the Job method. The emission properties were studied in relation to the pH value using fluorescence spectroscopy as well as the determination of the photoluminescence quantum yields (PLQY). Density functional theory (DFT) calculations were undertaken to obtain a better understanding of the ground-lying electronic properties of the investigated oxo-anion binders. Additionally, X-ray diffraction of GCP and GCI was conducted. We found that GCI and MGCI efficiently bind carboxylates, phosphonates and sulfonates in buffered aqueous solution and in a similar range as GCP (K_ass ≈ 1000–18,000 M⁻¹, in bis-tris buffer, pH = 6); thus, they could be regarded as promising emissive oxo-anion binders. They also exhibit a visible fluorescence with a sufficient PLQY. Additionally, the excitation and emission wavelength of MGCI was successfully shifted closer to the visible region of the electromagnetic spectrum by introducing a methoxy-group into the core structure, which makes them interesting for biological applications.     

DNA-inspired hierarchical polymer design: electrostatics and hydrogen bonding in concert

Nucleic acids and proteins, two of nature's biopolymers, assemble into complex structures to achieve desired biological functions and inspire the design of synthetic macromolecules containing a wide variety of noncovalent interactions including electrostatics and hydrogen bonding. Researchers have incorporated DNA nucleobases into a wide variety of synthetic monomers/polymers achieving stimuli-responsive materials, supramolecular assemblies, and well-controlled macromolecules. Recently, scientists utilized both electrostatics and complementary hydrogen bonding to orthogonally functionalize a polymer backbone through supramolecular assembly. Diverse macromolecules with noncovalent interactions will create materials with properties necessary for biomedical applications.     

Effect of stoichiometry on liquid crystalline supramolecular polymers formed with complementary nucleobase pair interactions

We report herein studies on the liquid crystalline behavior of a series of supramolecular materials that contain different ratios of two complementary symmetrically-substituted alkoxy-bis(phenylethynyl)benzene AA- and BB-type monomers. One monomer has thymine units placed at either end of the rigid mesogenic core, while the other has N⁶-(4-methoxybenzoyl)-adenine units placed on the ends. Differential scanning calorimetric and polarized optical microscopy studies have been carried out on these systems. These studies show that the material's behavior is strongly dependent on its thermal history. As a result, the materials can exhibit, on heating, either a liquid crystalline phase, a crystalline phase, or the coexistence of crystalline and liquid crystalline regions. © 2006 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem 44: 5049–5059, 2006