Biased Helical Folding of Chiral Oligoindole Foldamers

Stimuli-responsive synthetic helical polymers

Synthetic dynamic helical polymers (supramolecular and covalent) and foldamers share the helix as a structural motif. Although the materials are different, these systems also share many structural properties, such as helix induction or conformational communication mechanisms. The introduction of stimuli responsive building blocks or monomer repeating units in these materials triggers conformational or structural changes, due to the presence/absence of the external stimulus, which are transmitted to the helix resulting in different effects, such as assymetry amplification, helix inversion or even changes in the helical scaffold (elongation, J/H helical aggregates). In this review, we show through selected examples how different stimuli (e.g., temperature, solvents, cations, anions, redox, chiral additives, pH or light) can alter the helical structures of dynamic helical polymers (covalent and supramolecular) and foldamers acting on the conformational composition or molecular structure of their components, which is also transmitted to the macromolecular helical structure.

Controlling aromatic helix dimerization in water by tuning charge repulsions

Several helically folded aromatic oligoamides were designed and synthesized. The sequences were all water-soluble thanks to the charged side chains borne by the monomers. Replacing a few, sometimes only two, charged side chains by neutral methoxy groups was shown to trigger the formation of various aggregates which could be tentatively assigned to head-to-head stacked dimers of single helices, double helical duplexes and a quadruplex, none of which would form in organic solvent with organic-soluble analogues. The nature of the aggregates was supported by concentration and solvent dependent NMR studies, 1H DOSY experiments, mass spectrometry, and X-ray crystallography or energy-minimized models, as well as analogies with earlier studies. The hydrophobic effect appears to be the main driving force for aggregation but it can be finely modulated by the presence or absence of a small number of charges to an extent that had no precedent in aromatic foldamer architectures. These results will serve as a benchmark for future foldamer design in water.

Non-Covalent Interactions Enforce Conformation in Switchable and Water-Soluble Diketopiperazine-Pyridine Foldamers

To reach their potential as mimics of the dynamic molecules present in biological systems, foldamers must be designed to display stimulus-responsive behavior. Here we report such a foldamer architecture based on alternating pyridine-diketopiperazine linkers. Epimerization is conveniently prevented through a copper-catalyzed coupling protocol. The compounds' native unswitched conformation is first discovered in the solid and solution state. The foldamers can be solubilized in DMSO and pH 9.5 buffer, retaining conformational control to a large degree. Lastly, dynamic switching is demonstrated through treatment with acid, leading to behaviour we describe as stimulus-responsive sidechain reconfiguration.

Conformational Control of ortho-Phenylenes by Terminal Amides

Control over the folding of oligomers, be it broad induction of a preferred helical handedness or subtle changes in the orientations of individual functional groups, is important for applications ranging from molecular recognition to long-range conformational communication. Here, we report a series of ortho-phenylene hexamers functionalized with achiral and chiral amides at their termini. NMR spectroscopy, taking advantage of ¹⁹F labeling, allows multiple conformers to be detected for each compound. In combination with CD spectroscopy and DFT calculations, specific geometries corresponding to each conformer have been identified and quantified. General conclusions about the effect of sterics and the amide linker on conformational behavior have been drawn, revealing some similarities to and key differences from previously reported imines. A model for twist sense control has been developed that is supported by computational models.

Engineering Chiral Induction in Centrally Functionalized o-Phenylenes

Work on foldamers, nonbiological oligomers that mimic the hierarchical structure of biomacromolecules, continues to yield new architectures of ever increasing complexity. o-Phenylenes, a class of helical aromatic foldamers, are well-suited to this area because of their structural simplicity and the straightforward characterization of their folding in solution. However, control of structure requires, by definition, control over folding handedness. Control over o-phenylene twist sense is currently lacking. While chiral induction from groups at o-phenylene termini has been demonstrated, it would be useful to instead direct twisting from internal positions to leave the ends free. Here, we explore chiral induction in a series of o-phenylenes with chiral imides at their centers. Conformational behavior has been studied by nuclear magnetic resonance and circular dichroism spectroscopies and density functional theory calculations. Chiral induction in otherwise unfunctionalized o-phenylenes is generally poor. However, strategic functionalization of the helix surface with trifluoromethyl or methyl groups allows it to better interact with the imide groups, greatly increasing diastereomeric excesses. The sense of chiral induction is consistent with computational models that suggest that it primarily arises from a steric effect.

The helical supramolecular assembly of oligopyridylamide foldamers in aqueous media can be guided by adenosine diphosphates

A metal-free and achiral tri-pyridylamide foldamer, DM 11, containing a critical naphthalimide side chain self-assembles in a left-handed helical manner in the presence of chiral adenosine phosphates, under physiological conditions. Surprisingly, a very high degree of helicity in the foldamer assemblies was observed with ADP compared to other nucleoside phosphates, including ATP.

Sharp Turns and Fluorescent Repeats: Modular Construction and Shape-Dependent Electronic Properties of π-Conjugated Chain Molecules

In search of the design rules for structural ordering of open-chain molecules, we have built a series of zig-zag shaped π-conjugated structures with ring-fused heteroaromatics as sharp turns and tolane-based linear fragments as light-emitting units. Using only a finite number of common building blocks, an efficient "double-elongation" strategy was implemented to construct a series of π-conjugated oligomers with precise length control (55-89 % yields). Our approach takes advantage of the modular nature of the bis(triazolo)benzene synthesis and the masked reactivity of the nitro group. A combination of photophysical and DFT computational studies revealed that the bis(triazolo)benzene-tolane repeat units behave as electronically decoupled light-absorbing/emitting units (λ_max,em = 408-422 nm; Φ_F = 20-25 % in THF). Such context-independent photophysical properties promise their potential applications in chemical sensing and switching.

Helical Anion Foldamers in Solution

Using anions to induce molecular structure is a rapidly growing area of dynamic and switchable supramolecular chemistry. The emphasis of this review is on helical anion foldamers in solution, and many of the beautiful complexes described herein are accentuated by their crystal structures. Anion foldamers are defined as single- or multistrand complexes-often helical-that incorporate one or more anions. The review begins by discussing foldamer structure and nomenclature and follows with discourse on the anions which are employed. Recent advances in functional foldamers that bind a single anion are examined, including: induced chirality, stimuli-responsive dynamics, fluorescence changes, organocatalysis, anion transport, and halogen bonding. The review then inspects multianion foldamers, and this section is organized by the number of strands within the foldamer-from single- to triple-strand foldamers. Finally, the review is punctuated by recent hydrogen- and halogen-bonding triple-strand anion foldamers.

Twist sense control in terminally functionalized ortho-phenylenes

Chiral groups induce opposite twist senses of o-phenylene helices depending on their positions in dynamic mixtures.

Many abiotic foldamers are based on achiral repeat units but adopt chiral geometries, especially helices. In these systems, there is no inherent preference for one handedness of the fold; however, it is well-established that the point chirality of substituents can be communicated to the helix. This capability represents a basic level of control over folding that is necessary for applications in molecular recognition and in the assembly of higher-order structures. The ortho-phenylenes are a structurally simple class of aromatic foldamers that fold into helices driven by arene–arene stacking interactions. Although their folding is now reasonably well-understood, access to o-phenylenes enriched in one twist sense has been limited to resolution, yielding conformationally dynamic samples that racemize over the course of minutes to hours. Here, we report a detailed structure–property study of chiral induction from o-phenylene termini using a combination of NMR spectroscopy, CD spectroscopy, and computational chemistry. We uncover mechanistic details of chiral induction and show that the same substituents can give effective twist sense control in opposite directions in mixtures of interconverting conformers; that is, they are “ambidextrous”. This behavior should be general and can be rationalized using a simple model based on sterics, noting that arene–arene stacking is, to a first approximation, unaffected by flipping either partner. We demonstrate control over this mechanism by showing that chiral groups can be chosen such that they both favor one orientation and provide effective chiral induction.

Linker-Directed Assembly of Twisted ortho-Phenylene-Based Macrocycles

o-Phenylene tetramers have been coassembled with linkers into macrocycles through imine condensation. Variation of linker connectivity and length allows both [1 + 1] and [2 + 2] macrocycles to be obtained, complementing (previously reported) [3 + 3] macrocycles. For the [1 + 1] macrocycles, linker length has a clear effect on o-phenylene geometry and macrocycle stability. For the [2 + 2] macrocycles, both homo- and heterochiral configurations are observed, suggesting limited communication of helix handedness in these systems.

Structural Characterization of Self-Assembled Tetra-Tryptophan Based Nanostructures: Variations on a Common Theme

Over the years, a large number of multidisciplinary investigations has unveiled that the self-assembly of short peptides and even of individual amino acids can generate a variety of different biomaterials. In this framework, we have recently reported that polyethylene glycol (PEG) conjugates of short homopeptides, containing aromatic amino acids such as phenylalanine (Phe, F) and naphthylalanine (Nal), are able to form elongated fibrillary aggregates having interesting chemical and physical properties. We here extend these analyses characterizing the self-assembling propensity of PEG₆ -W4, a PEG adduct of the tetra-tryptophan (W4) sequence. A comprehensive structural characterization of PEG₆ -W4 was obtained, both in solution and at the solid state, through the combination of spectroscopic, microscopic, X-ray scattering and computational techniques. Collectively, these studies demonstrate that this peptide is able to self-assemble in fibrillary networks characterized by a cross β-structure spine. The present findings clearly demonstrate that aromatic residues display a general propensity to induce self-aggregation phenomenon, despite the significant differences in the physicochemical properties of their side chains.

An aryl-triazole foldamer containing a 1,8-naphthalimide fluorescent motif for monitoring and enhancing the anion-induced folding

A 1,8-naphthalimide fluorescent motif was found to facilitate folding and to largely enhance halogen anion binding for an aryl-triazole foldamer.

Synthetic minimalistic tryptophan zippers as a chiroptical switch

Supramolecular helices with left and right handed chirality were designed and synthesized based on l-tryptophan that undergo helical inversion upon addition of H₂PO₄⁻.

Supramolecular chirality and symmetry breaking of fluoride complexes of achiral foldamers

Fluoride binding of achiral oligoamide foldamers produces polar and chiral crystal structures and induces exceptional symmetry breaking of the bulk sample.

Ruthenium(II) Complexes of Aryl Triazole Foldamers as Receptors for Anions

Ruthenium(II) complexes of oligo(bipyridine-phenyl triazole)s were synthesized as receptors for anions. The receptors, which are partially preorganized through metal-ligand interactions, can fold into a helical conformation to bind chloride, bromide, iodide, or nitrate anions in their inner cavities in acetone or competitive H-bonding media such as 5% water in acetone and DMSO. The short oligomer 1 can sandwich the studied anions with high affinity in acetone. Addition of 5% water to acetone results in overall decreases in the binding strength due to the binding competition from water, but does not change the basic binding mode. The highly competitive H-bonding solvent DMSO causes the receptor-anion interactions to become even weaker. However, in DMSO, the short receptor 1 is still able to bind the halide anions with moderate affinities in a 1:1 stoichiometry, whereas the longer oligomer 2 forms double-strand helices with an anion wrapped inside for all anions investigated so far.

Controlled Folding, Motional, and Constitutional Dynamic Processes of Polyheterocyclic Molecular Strands

General design principles have been developed for the control of the structural features of polyheterocyclic strands and their effector-modulated shape changes. Induced defined molecular motions permit designed enforcement of helical as well as linear molecular shapes. The ability of such molecular strands to bind metal cations allows the generation of coiling/uncoiling processes between helically folded and extended linear states. Large molecular motions are produced on coordination of metal ions, which may be made reversible by competition with an ancillary complexing agent and fueled by sequential acid/base neutralization energy. The introduction of hydrazone units into the strands confers upon them constitutional dynamics, whereby interconversion between different strand compositions is achieved through component exchange. These features have relevance for nanomechanical devices. We present a morphological and functional analysis of such systems developed in our laboratories.

Curcumin based chemosensor for selective detection of fluoride and cyanide anions in aqueous media

The conjugate N,N-dimethyl curcumin analogue fluorophore dye 1 has been synthesized and its performance as a sensor was demonstrated.

Conjugated foldamers with unusually high space-charge-limited current hole mobilities

Charge carrier mobility and its optimization play a critical role in the development of cutting-edge organic electronic and optoelectronic devices. Even though space-charge-limited current (SCLC) hole mobilities as high as 1.4 cm(2) V(-1) s(-1) have been reported for microscopically sized highly ordered liquid-crystalline conjugated small molecules, the SCLC hole mobility of device-sized thin films of conjugated polymers is still much lower, ranging from 10(-6) to 10(-3) cm(2) V(-1) s(-1). Herein, we report the synthesis, characterizations, and thin-film SCLC mobility of three discotic conjugated polymers, INDT-TT, INDT-BT, and INDT-NDT. Optical studies indicate that polymer INDT-NDT adopts a folded conformation in solutions of good or poor solvents, whereas polymer INDT-TT stays as random monomeric chains in good solvents and interchain aggregates in poor solvents. INDT-BT polymer chains, however, stay as foldamers in dilute solutions of good solvents but interchain aggregates in concentrated solutions or poor solvents. Circular dichroism spectroscopy provides clear evidence for the helical folding of INDT-NDT in solutions. Thin films spin-coated from 1,2-dichlorobenzene solutions of the polymers show SCLC hole mobility of 2.20 × 10(-6), 8.79 × 10(-5), and 2.77 × 10(-2) cm(2) V(-1) s(-1) for INDT-TT, INDT-BT, and INDT-NDT, respectively. HRTEM and powder XRD measurements show that INDT-NDT pristine thin films contain nanocrystalline domains, whereas the INDT-TT and INDT-BT films are amorphous. Thin films of INDT-NDT:PC71BM blends show increased crystallinity and further improved SCLC hole mobility up to 1.29 × 10(-1) cm(2) V(-1) s(-1), one of the highest SCLC mobility values ever recorded on solution-processed organic semiconducting thin films. The persistent folding conformation of INDT-NDT is believed to be responsible for the high crystallinity of its thin films and its high SCLC mobilities.

Ion-mediated conformational switches

Molecular switches are ubiquitous in Nature and provide the basis of many forms of transport and signalling. Single synthetic molecules that change conformation, and thus function, reversibly in a stimulus-dependent manner are of great interest not only to chemists but society in general; myriad applications exist in storage, display, sensing and medicine. Here we describe recent developments in the area of ion-mediated switching.

Novel indole based dual responsive "turn-on" chemosensor for fluoride ion detection

An efficient new dual channel chemosensor 2,3-bis((E)-(1H-indole-3-yl)methyleneamino)maleonitrile (DN) which exhibits selective sensing of F(-) ions in DMSO, was synthesized by a facile one step condensation reaction of indole-3-carboxaldehyde with diaminomaleonitrile. The probe DN was characterized by elemental analysis, (1)H, (13)C-NMR, ESI-MS and IR spectral techniques. Upon addition of F(-), DN induces remarkable changes in both absorption and fluorescence spectra on the basis of charge transfer mechanism. The receptor DN serves for highly selective, sensitive detection of F(-) without the interference of other relevant anions. The Job's plot analysis indicates the binding stoichiometry to be 1:1 (host/guest).

Lipase catalyzed desymmetrization of roof shape cis-11,12-bis(hydroxymethyl)-9,10-dihydro-9,10-ethanoanthracene

Biocatalyzed desymmetrization of roof shape meso cis-11,12-bis(hydroxymethyl)-9,10-dihydro-9,10-ethanoanthracene has been achieved.

The construction of supramolecular polymers through anion bridging: from frustrated hydrogen-bonding networks to well-ordered linear arrays

The construction of supramolecular polymers has been realized by converting random hydrogen-bonding networks into well-ordered linear hydrogen-bonding arrays through an anion-bridging strategy.

Substituent effect on the formation of helical to layered hydrogen bond networks in hydroxyl and carboxyl substituted 1-aryl-1H-1,2,3-triazoles

Interplay of twisted conformations and O–H⋯N and O–H⋯O hydrogen bond synthons on supramolecular chirality in OH and COOH substituted 1-aryl-1H-1,2,3-triazoles.

Indolocarbazole-based anion receptors and molecular switches

A number of indolocarbazole-based anion receptors were prepared and their anion-binding behaviors were characterized in solution and in the solid state. First, chain-length-dependent binding affinities of chloride ion were revealed using a series of indolocarbazoles that consisted of one to four indolocarbazole units. The binding affinities were steadily enhanced from monomer to dimer, then to trimer by Gibb’s free energy (–∆∆G) = 2.4 ± 0.1 kcal/mol, and then nearly saturated. Second, a water-soluble trimer folded to generate an internal helical cavity with six convergent NHs, wherein small halides bound in water in the order of Cl– (65 M–1) > F– (46 M–1), and Br– (19 M–1). Third, X-ray crystal structures clearly proved helical folding of a trimer in the presence of sulfate ion, in which left- and right-handed helices stacked alternatively. It was also shown that the selectivity of anion binding could be varied by the modification of the spacer groups connecting indolocarbazole units. Finally, we prepared chiral indolocabazole dimers that adopted helical structures by intramolecular hydrogen bonds and displayed complete inversion of the helical sense upon anion binding. The dimers gave characteristic optical readouts in a reversible manner according to chemical stimuli, thus functioning as chirooptical molecular switches.

meta-Substituted benzamide oligomers that complex mono-, di- and tricarboxylates: folding-induced selectivity and chirality

meta-Substituted arylamide trimer, pentamer and heptamer have been prepared from simple benzene-1,3-diamine, benzene-1,3-dicarboxylic acid, and 3-aminobenzoic acid units. 2D NOESY (1)H NMR experiments reveal that these flexible oligomers form folded conformations to complex di- and tricarboxylate anions of varying sizes and shapes in DMSO of high polarity, which is driven by multiple intermolecular N-H···O=C and C-H···O=C hydrogen-bonds between the amide and aromatic hydrogens of the oligomers and the carboxylate oxygens of the anions. Generally, tricarboxylate anions display an increased binding affinity compared with the dicarboxylate anions and the complexes formed by 1,3-benzenedicarboxylate anion are more stable than those formed by 1,2- or 1,4-benzenedicarboxylate anions. Circular dichroism experiments show that chiral glutamic acid dianion can induce the oligomers to produce chiral bias, leading to the formation of chiral supramolecular complexes.

A foldamer-based chiroptical molecular switch that displays complete inversion of the helical sense upon anion binding

Chiral indolocarbazole dimers fold into a helical conformation by virtue of intramolecular hydrogen bonds, as demonstrated by (1)H NMR and CD spectra and optical rotations. In particular, the optical properties of the dimers were found to be extremely sensitive to the nature of the solvent, depending on whether they are folded or not. The helical sense of the dimers can be reversibly switched by binding sulfate ion, which gives rise to complete inversion of the CD spectra. The binding mode and absolute stereochemistry of the sulfate complexes was unequivocally determined by single-crystal X-ray structures, which are all consistent with the CD and (1)H NMR spectra in solution.

Minimalist end groups for control of absolute helicity in salen- and salophen-based metallofoldamers

(S)-1-Methylindan end groups are effective controllers of absolute helicity in Ni-salen- and Ni-salophen-based foldamers derived from (R,R)-trans-1,2-cyclohexanediamine and 1,2-phenylenediamine, respectively. Evidence for the helicity of the described complexes was provided through X-ray crystallography and study of chiroptical properties in solution. The chiral end groups control the absolute sense of helicity for the salen complexes, even in a case where the helical bias of the end group is mismatched relative to that of the internal diamine.

Anion receptor chemistry: highlights from 2008 and 2009

This critical review covers advances in anion complexation in the year 2008 and 2009. The review discusses anion receptors that employ hydrogen bond donors (both NH and CH), electrostatic interactions, Lewis acidic centres and combinations of these three types of binding interaction to complex anions. Additionally nanotechnological approaches to anion sensing in aqueous solution, lipid bilayer transporters and recent work on the use of anions to drive conformational change are highlighted (130 references).