Molecular recognition of anions by synthetic receptors

Influence of halogen-halogen interactions in the self-assembly of pillar[5]arene-based supramolecular polymers

Halogen-halogen interactions play a pivotal role in the formation and stability of supramolecular assemblies. Herein, we investigate the assembly dynamics and dissociation pathways of linear supramolecular polymers based on pillar[5]arene-mediated by guest halogen-halogen interactions (C-X × X-C) in both the solution and solid states. The structure of the solid-state supramolecular assembly was determined by single-crystal X-ray diffraction analysis. The binding affinities of four different 1,4-dihalobutane guests with pillar[5]arene were investigated by 1H NMR spectroscopic titration and isothermal titration calorimetry (ITC). The formation of the halogen-bonded linear supramolecular polymer in solution was demonstrated using diffusion-ordered spectroscopy (DOSY) and ITC. Our findings highlight the dependence of the dissociation process on halogen nature within the encapsulated guest, revealing that the process is entropically driven (TΔS = 27.12 kJ mol-1) and enthalpically disfavored (ΔH = 9.99 kJ mol-1). Moreover, the disassembly of supramolecular polymers promoted by N-containing compounds was investigated using 1H NMR spectroscopy and ITC, revealing that the process is driven both enthalpically (ΔH = -2.64 kJ mol-1) and entropically (TΔS = 15.70 kJ mol-1). Notably, the data suggest the formation of N⋯I bonding interactions at both ends of the inclusion guest, elucidating the intricate interplay of halogen interactions and host-guest chemistry in supramolecular polymer systems.

Mechanosynthesis of Polyureas and Studies of Their Responses to Anions

Polyureas (PUs) have already found wide practical applications, and various methods of their synthesis have been reported. In this manuscript, we wished to report the very first mechanochemical approach towards aromatic PUs via reactions between isomeric 2,2'-, 3,3'-, and 4,4'-diaminobiphenyls and triphosgene under solvent-free conditions following ball-milling. By using this synthetic approach, both PUs and azomethine-capped Pus were obtained. The fluorescence response of the above-mentioned PUs towards various anions in solutions were studied and selective fluorescence responses towards the hydroxyl and fluoride anions were observed.

Spatially Designed Supramolecular Anion Receptors Based on Pillar[5]arene Scaffolds: Synthesis and Halide Anion Binding Properties

Urea-functionalized anion receptors based on brominated functionalized pillar[5]arenes were prepared. The binding affinity toward halide anions was investigated and probed using ¹H NMR titration and isothermal titration calorimetry (ITC). The complexation behavior was affected by the structure of the receptor and the nature of the anionic guest. The synthesized receptors are highly selective toward fluoride resulting in the formation of a 1:2 host-to-guest complex. The anion receptor based on the 1,3-alternate pillar[5]arene regioisomer shows the highest affinity toward fluorine anions. No significant interactions were observed with larger bromine anions. The formation of a self-assembled supramolecular polymer driven by hydrogen bonds in solution was demonstrated by diffusion-ordered spectroscopy (DOSY), ITC, and dynamic light scattering (DLS) measurements. From ITC dilution experiments, we found that the supramolecular polymer self-assembly at higher concentrations is a spontaneous process as indicated by the positive value of Gibbs free energy (ΔG = 12.04 kJ mol^-1).

Molecular recognition by synthetic receptors: Application in field-effect transistor based chemosensing

Molecular recognition, i.e., ability of one molecule to recognize another through weak bonding interactions, is one of the bases of life. It is often implemented to sensing systems of high merits. Preferential recognition of the analyte (guest) by the receptor (host) induces changes in physicochemical properties of the sensing system. These changes are measured by using suitable signal transducers. Because of possibility of miniaturization, fast response, and high sensitivity, field-effect transistors (FETs) are more frequently being used for that purpose. A FET combined with a biological material offers the potential to overcome many challenges approached in sensing. However, low stability of biological materials under measurement conditions is a serious problem. To circumvent this problem, synthetic receptors were integrated with the gate surface of FETs to provide robust performance. In the present critical review, the approach utilized to devise chemosensors integrating synthetic receptors and FET transduction is discussed in detail. The progress in this field was summarized and important outcome was provided.

Synthesis, characterization, and atropisomerism of iron complexes containing the tetrakis(2-chloro-6-fluorophenyl)porphyrinate ligand

The synthesis of iron complexes containing the 5,10,15,20-tetrakis(2-chloro-6-fluorophenyl)porphyrin ligand is presented and the factors surrounding the observed atropisomerism are investigated.

Recognition of free tryptophan in water by synthetic pseudopeptides: fluorescence and thermodynamic studies

Pseudopeptidic receptors containing an acridine unit have been prepared and their fluorescence response to a series of amino acids was measured in water. Free amino acids, not protected either at the C or the N terminus, were used for this purpose. The prepared receptors display a selective response to tryptophan (Trp) versus the other assayed amino acids under acidic conditions. The macrocyclic nature of the receptor is important as the fluorescence quenching is higher for the macrocyclic compound than for the related open-chain receptor. Notably, under the experimental acidic conditions used, both the receptor and guest are fully protonated and positively charged; thus, the experimental results suggest the formation of supramolecular species that contain two positively charged organic molecular components in proximity stabilized through aromatic-aromatic interactions and a complex set of cation-anion-cation interactions. The selectivity towards Trp seems to be based on the existence of a strong association between the indole ring of the monocharged amino acid and the acridinium fragment of the triprotonated form of the receptor, which is established to be assisted by the interaction of the cationic moieties with hydrogen sulfate anions.

Calix[n]imidazolium as a new class of positively charged homo-calix compounds

Macrocycles based on neutral calixarenes and calixpyrroles have been extensively explored for ion binding, molecular assembly and related applications. Given that only these two types of calix compounds and their analogs are available, the introduction of new forms of widely usable calix macrocycles is an outstanding challenge. Here we report the quadruply/quintuply charged imidazole-based homo-calix compounds, calix[4/5]imidazolium. The noncovalent (C-H)⁺/π⁺-anion interactions of the imidazolium rings with anions inside and outside the cone are the stabilizing factors for crystal packing, resulting in self-assembled arrays of cone-shaped calix-imidazolium molecules. Calix[4]imidazolium senses fluoride selectively even in aqueous solutions. Calix[5]imidazolium recognizes neutral fullerenes through π⁺–π interactions and makes them soluble in water, which could be useful in fullerene chemistry. Not only derivatization and ring expansion of calix[n]imidazolium, but also their utilization in ionic liquids, carbene chemistry and nanographite/graphene exfoliation could be exploited.

Only two types of neutral homo-calix compounds, including analogues, have been reported. Chun et al. now describe a new class of positively charged calix[n]imidazolium, which is synthesized in one pot and is able to recognize anions and fullerenes in aqueous media.

Atropisomers of 5,10,15,20-tetrakis(2,6-dichloro-3-sulfamoyl-phenyl)porphyrins

The ratio, resolution and photophysical characterization of atropisomers of 5,10,15,20-tetrakis(2,6-dichloro-3-N-butylsulfamoylphenyl)porphyrin, 5,10,15,20-tetrakis(2,6-dichloro-3-(N-1-(L)-ethoxycarbonyl-2-methyl-propyl-sulfamoyl)phenyl)porphyrin and 5,10,15,20-tetrakis(2,6-dichloro-3-(N-1-(L)-methoxycarbonyl-3-methyl-butyl-sulfamoyl)phenyl)porphyrin are reported.

How Important Is Molecular Rigidity for the Complex Stability of Artificial Host–Guest Systems? A Theoretical Study on Self-Assembly of Gas-Phase Arginine

Arginine forms much less stable dimers than 2-(guanidiniocarbonyl)-1H-pyrrole-5-carboxylate although the principal binding interactions are very similar. The reasons for this difference are addressed in this work by state-of-the-art ab initio computations. The investigation shows that the extraordinary high stability of the 2-(guanidiniocarbonyl)-1H-pyrrole-5-carboxylate dimer results to about 50 % from the rigidity of its monomer. Within this study monomer and dimer conformers of arginine were calculated leading to new low lying structures which have not been reported before as well as new global minima are predicted. In these structures stacking interactions with the guanidinium moiety are especially important. For the monomer we predict the energy minimum to be the canonical form with the lowest lying zwitterionic structure being only 9 kJ mol(-1) less stable. During the course of these calculations we found that DFT did not predict the structures and their relative energy correctly in comparison to perturbation theory (MP2) and some potential reasons for the failure of DFT in these cases are discussed. Vibrational frequencies of the various structures are presented and a suitable wavenumber region for an experimental determination of the global minimum of the arginine monomer is identified. The effect of molecular rigidity on the self-assembly is probed using a local minimum of the arginine monomer which does not possess any intramolecular stabilizing effects. Our results suggest that the deliberate control of the conformational flexibility is a powerful instrument to steer the complex affinity of artificial hosts.

Conformational analysis of arginine in gas phase—A strategy for scanning the potential energy surface effectively

The determination of all possible low-lying energy conformers of flexible molecules is of fundamental interest for various applications. It necessitates a reliable conformational search that is able to detect all important minimum structures and calculates the energies on an adequate level of theory. This work presents a strategy to identify low-energy conformers using arginine as an example by means of a force-field based conformational search in combination with high-level geometry optimizations (RI-MP2/TZVPP+). The methods used for various stages in the conformational search strategy are shown and various pitfalls are discussed. We can show that electronic energies calculated on a DFT level of theory with standard exchange-correlation functionals strongly underestimate the intramolecular stabilization resulting from stacked orientations of the guanidine and carbonyl moiety of arginine due to the deficiency of DFT to describe dispersion effects. In this case by usage of electron correlation methods, low energy conformers comprising stacked arrangements that are counterintuitive become favorable.

Sequence-Dependent Binding of Dipeptides by an Artificial Receptor in Water

An artificial dipeptide receptor (1) was designed and observed to bind the deprotonated dipeptide Ac-D-Ala-D-Ala-OH in buffered water with K = 33,100 M(-1), whereas other dipeptides such as Ac-Gly-Gly-OH or Ac-D-Val-D-Val-OH were bound less efficiently, by factors of more than 10 (K < 3000 M(-1)). The efficient binding and the pronounced sequence selectivity are the result of a combination of strong electrostatic contacts and size-discriminating hydrophobic interactions. To provide such a combination, a guanidiniocarbonylpyrrole cation was attached to a novel cyclotribenzylene-substituted alanine derivative 5, to provide a hydrophobic bowl-shaped cavity just large enough to bind a methyl group but not any larger alkyl chains, thus causing the receptor to prefer alanine to valine. We describe the synthesis of 1 and the evaluation of its complexation properties in UV and fluorescence titration studies.

One-Armed Artificial Receptors for the Binding of Polar Tetrapeptides in Water: Probing the Substrate Selectivity of a Combinatorial Receptor Library

We have recently developed a new class of one-armed artificial receptors 1 for the binding of the polar tetrapeptide N-Ac-D-Glu-L-Lys-D-Ala-D-Ala-OH (EKAA) 2 in water using a combined combinatorial and statistical approach. We have now further probed the substrate selectivity of this receptor library 1 by screening a second tetrapeptide substrate (3) with the inverse sequence N-Ac-D-Ala-D-Ala-L-Lys-D-Glu-OH (AAKE). This "inverse" substrate is also efficiently bound by our receptors, with K(ass) approximately 6000 M(-1) for the best receptors, as determined both by a quantitative on-bead binding assay and by UV and fluorescence titration studies in free solution. Hence, the inverse tetrapeptide 3 is in general bound two to three times less efficiently than the "normal" peptide 2 (K(ass) approximately 17,000 M(-1)), even though the complexation mainly involves long-range electrostatic interactions and both the receptor and substrate are rather flexible. Molecular modeling and ab initio calculations have been used to rationalize the observed substrate selectivity and to analyze the various binding interactions within the complex.

Multipoint Recognition of Catecholamines by Hydrindacene-Based Receptors Accompanied by the Complexation-Induced Conformational Switching

The molecular recognition of catecholamines by hydrindacene-based receptors 1 and 2, as well as the durene-based receptor 3, and the guest-induced conformational changes are reported. These receptors selectively bind adrenaline and dopamine salts through the guests' ammonium group and 3-hydroxyl group on the aromatic ring. In the case of adrenaline, an additional hydrogen bond with a benzylic hydroxyl group is formed. In 2 % CD3CN/CDCl3, the association constants are of the order of 10(4) M(-1), which is much larger than with guests without the 3-hydroxyl groups (10(3) M(-1)). The two amide groups of receptor 1 can rotate freely around the C(aromatic)--C(amide) bond, whereas the tert-amide in 2 changes between two stable conformations at a slow enough rate to allow detection by (1)H NMR spectroscopy. In the absence of a guest molecule, the syn-conformer is less stable than the anti-conformer. On complex formation with adrenaline, the syn-conformer becomes dominant due to an intramolecular dipole-reversal effect in addition to multipoint hydrogen bonding.

A Self-Assembled Supramolecular Optical Sensor for Ni(II), Cd(II), and Cr(III)

A new chromogenic supramolecular sensor for transition metals is reported. It is based on a newly designed phenanthroline-containing molecule that self-assembles via an organometallic "clip" into a supramolecular optical sensor for metals. [reaction: see text]

Stochastic sensing of nanomolar inositol 1,4,5-trisphosphate with an engineered pore

The introduction of a ring of arginine residues near the constriction in the transmembrane beta barrel of the staphylococcal alpha-hemolysin heptamer yielded a pore that could be almost completely blocked by phosphate anions at pH 7.5. Block did not occur with other oxyanions, including nitrate, sulfate, perchlorate, and citrate. Based on this finding, additional pores were engineered with high affinities for important cell signaling molecules, such as the Ca(2+)-mobilizing second messenger inositol 1,4,5-trisphosphate (IP(3)), that contain phosphate groups. One of these engineered pores, P(RR-2), provides a ring of fourteen arginines that project into the lumen of the transmembrane barrel. Remarkably, P(RR-2) bound IP(3) with low nanomolar affinity while failing to bind another second messenger, adenosine 3', 5'-cyclic monophosphate (cAMP). The engineered alpha-hemolysin pores may be useful as components of stochastic sensors for cell signaling molecules.

Stochastic sensing of organic analytes by a pore-forming protein containing a molecular adapter

The detection of organic molecules is important in many areas, including medicine, environmental monitoring and defence. Stochastic sensing is an approach that relies on the observation of individual binding events between analyte molecules and a single receptor. Engineered transmembrane protein pores are promising sensor elements for stochastic detection, and in their simplest manifestation they produce a fluctuating binary ('on/off') response in the transmembrane electrical current. The frequency of occurrence of the fluctuations reveals the concentration of the analyte, and its identity can be deduced from the characteristic magnitude and/or duration of the fluctuations. Genetically engineered versions of the bacterial pore-forming protein alpha-haemolysin have been used to identify and quantify divalent metal ions in solution. But it is not immediately obvious how versatile binding sites for organic ligands might be obtained by engineering of the pore structure. Here we show that stochastic sensing of organic molecules can be procured from alpha-haemolysin by equipping the channel with an internal, non-covalently bound molecular 'adapter' which mediates channel blocking by the analyte. We use cyclodextrins as the adapters because these fit comfortably inside the pore and present a hydrophobic cavity suitable for binding a variety of organic analytes. Moreover, a single sensing element of this sort can be used to analyse a mixture of organic molecules with different binding characteristics. We envisage the use of other adapters, so that the pore could be 'programmed' for a range of sensing functions.

Hydrogen Bonding in Anion Recognition: A Family of Versatile, Nonpreorganized Neutral and Acyclic Receptors

The diamides and disulfonamides m-C(6)H(4)(CONHAr)(2) (Ar = Ph, 1; p-n-BuC(6)H(4), 2, 2,4,6-Me(3)C(6)H(2), 3), m-C(6)H(4)(SO(2)NHPh)(2), 4, and 2,6-C(6)H(3)N(CONHPh)(2), 5, readily synthesized on a multigram scale, bind strongly to halides and acetate in organic solvents with K(a)'s as high as 6.1 x 10(4) (NMR spectroscopy). The binding stoichiometry is 1:1 in solution for all cases except for the 4.F(-) and 4.OAc(-) complexes, where both 1:1 and 1:2 binding stoichiometries were found. The association constants in CD(2)Cl(2) ((1)H NMR) follow the trend Cl(-) > Br(-) > I(-) for all the receptors. F(-) and OAc(-) binding may be stronger or weaker than Cl(-) depending on the nature of the receptor. The presence of the pyridine nitrogen in 5 and of the more rigid amide in 1-3 and 5 vs the less rigid sulfonamide structure in 4 increases selectivity for smaller anions. The enthalpy and entropy of formation for 2.Cl(-) were DeltaH = -31 kJ/mol; DeltaS = -23 J/(mol.K) (VT-NMR). The X-ray structure of [PPh(4)](2)[1.Br][Br].CH(2)Cl(2), shows 1:1 complexation of Br(-) via two N-H.Br(-) hydrogen bonds and a syn-syn nonplanar binding conformation for 1. Solution hydrogen bonding was confirmed by FT-IR and NMR spectroscopy. The receptor conformation changes on complexation. Trends in structure/binding relationships show receptor flexibility is an important factor in anion recognition.