Molecular recognition of carbohydrates with acyclic pyridine-based receptors

The recognition capabilities of acyclic pyridine-based receptors toward monosaccharides were evaluated. Aminopyridine receptors based on the 2,4,6-trimethyl- or 2,4,6-triethylbenzene frame show high beta vs alpha binding selectivity in the recognition of glucopyranosides. Amidopyridine receptors, which are sterically less hindered at nitrogen, display high efficiency and an inverse selectivity. The 2-aminopyridine group has been established as a highly effective recognition group in the binding of monosaccharides. The factors influencing the binding properties of receptors 1-15, which differ in the nature and number of binding and spacer subunits used as the buildings blocks, are discussed.     

Highly effective acyclic carbohydrate receptors consisting of aminopyridine, imidazole, and indole recognition units

Neutral imidazole/aminopyridine- and indole/aminopyridine-based receptors, 1 and 2, have been established as highly effective and selective carbohydrate receptors. These receptors effectively recognise neutral carbohydrates through multiple interactions, including neutral hydrogen bonds and CH...pi interactions between the sugar CH groups and the aromatic rings of the receptors. The design of these receptors was inspired by the binding motifs observed in the crystal structures of protein-carbohydrate complexes. The formation of very strong complexes with beta-glucopyranoside 5, beta-maltoside 8, and alpha-maltoside 9 in organic media has been characterised by 1H NMR spectroscopy and confirmed by a second, independent technique, namely fluorescence spectroscopy. The syntheses, molecular-modelling studies, binding properties of the receptors 1 and 2 toward selected mono- and disaccharides as well as comparative binding studies with receptors 3 and 4 are described.     

Synthesis and anion recognition properties of pyrrole-bearing acyclic receptors

A new series of acyclic anion receptors (1-4) based on methyl 5-(aminomethyl)-1H-pyrrole-2-carboxylate were designed and synthesized. The anion recognition properties of these receptors were examined by ¹H NMR spectroscopy and rationalized by density functional theoretical calculation. Receptor 1 displays the highest affinity and selectivity for anionic guests mainly due to the intramolecular hydrogen bonds and rigid molecular geometry.     

Molecular simulation of guanidinium-based ionic liquids

A new systematic all-atom force field was developed for cyclic guanidinium-based ionic liquids (ILs) based on the AMBER force field. Optimized molecular geometries and equilibrium bond lengths and angles were obtained by ab initio calculations, and charges were allocated to each atom center by fitting the ab initio electrostatic potential. Molecular dynamics simulations were performed for eleven kinds of ILs that are comprised of NO3(-) anions and cyclic guanidinium-based cations. Validation was carried out by comparing our simulated densities with experimental and calculated data from the literature. Transport properties such as self-diffusion coefficients, viscosities, and conductivities were calculated by molecular dynamic simulation, and their dependence on the length of the alkyl chains of cyclic guanidinium-based cations are discussed. Radial distribution functions and spatial distribution functions were investigated to depict the microscopic structures of the ILs, and the relationship between their properties and microstructures is also discussed.     

发光性受体的分子设计与分子识别

介绍了发光受体的几种典型分子识别模型。从分子识别与超分子化学的角度综述了它们在分子离子识别中的应用。对近几年发展较快的分子印迹技术及其应用进行了综述。引用文献71篇。     

Acylation of N-acetylneuraminic acid

Summary The direct acylation of N-acetylneuraminic acid takes place ambiguously and leads to two reaction products: the acylated -lactone and the acylated derivative of the pyranose form of the acid.Khimiya Prirodnykh Soedinenii, Vol. 3, No. 2, pp. 191–197, 1967     

Glycosidation of N-acetylneuraminic acid

Conclusions The synthesis of the methyl esters of 9-O-(-D-glucopyranosyl)- and 9-O-(-D-galaetopyranosyl)-N-acetylneuraminic acid is described.Translated from Izvestiya Akademii Nauk SSSR, Seriya Khimicheskaya, No. 1, pp. 215–217, January, 1968.     

Molecular recognition of biotin, barbital and tolbutamide with new synthetic receptors

We have measured, by means of NMR titrations, the binding constants for the complexes between hosts N,N′-bis(6-methylpyridin-2-yl)-1,3-benzenedicarboxamide (7) and 4-chloro-N,N′-bis(6-methylpyridin-2-yl)-2,6-pyridinedicarboxamide (8, hydrated) with biotin methyl ester (1), N,N′-dimethylurea (2), 2-imidazolidone (3), N,N′-trimethylenurea (4), barbital (5) and tolbutamide (6) as guests. Molecular Mechanics calculations (Monte Carlo Conformational Search, AMBER and OPLS force fields, MacroModel v.8.1) on the complexes formed between the foregoing guests and hosts 7 and 8, comparatively with 4-oxo-N,N′-bis(6-methylpyridin-2-yl)-1,4-dihydro-2,6-pyridinedicarboxamide (9a) have been carried out in order to determine the correlation between experimental and theoretical results and to understand the behaviour of the designed new hosts. Finally we have performed single point DFT [B3LYP/6-31G(d,p)] calculations on the optimised Molecular Mechanics geometries for the complexes between hosts 7-9 and water.     

Molecular recognition: improved binding of biotin derivatives with synthetic receptors

NMR titrations and Monte Carlo conformational searches have been used to study the molecular recognition features of five urea derivatives with two synthetic hosts. We have improved the binding constant (Kb) values for all the studied guests and measured the largest binding constant of a complex involving a biotin derivative (biotin methyl ester) bound to a synthetic host by means of several interaction points and not only through the urea moiety.     

Molecular recognition of oxoanions based on guanidinium receptors

Guanidinium is a versatile functional group with unique properties. In biological systems, hydrogen-bonding and electrostatic interactions involving the arginine side chains of proteins are critical to stabilise complexes between proteins and nucleic acids, carbohydrates or other proteins. Leading examples of artificial receptors for carboxylates, phosphates and other oxoanions, such as sulfate or nitrate are highlighted in this tutorial review, addressed to readers interested in biology, chemistry and supramolecular chemistry.     

The benzhydryl ester of N-acetylneuraminic acid

Conclusions Benzhydryl protection of the carboxy group of N-acetylneuraminic acid has been described for the first time.Translated from Izvestiya Akademii Nauk SSSR, Seriya Khimicheskaya, No. 7, pp. 1261–1262, July, 1966.     

Molecular recognition properties of acyclic cucurbiturils toward amino acids,peptides, and a protein

The binding of 1 and 2 toward 19 amino acid amides by ¹H NMR and ITC is reported. Hosts 1 and 2 bind to aromatic or hydrophobic residues by cavity inclusion leaving the cationic residues at the C=O portals. K_a values range from 10² to >10⁶ M^?1 with H-Phe-NH₂, H-Trp-NH₂, and H-Tyr-NH₂ displaying sub-micromolar K_d values. Hosts 1 and 2 bind tightly to dicationic H-Lys-NH₂ and H-Arg-NH₂ which are poor guests for CB[7]. Comparison of the affinity of 1 and 2 toward the amino acid amide, N-acetyl-amino-acid amide, and amino acid forms of Phe revealed that the removal of the NH₃⁺ to O=C and SO₃^? electrostatic interactions costs 3.8 kcal/mol whereas the introduction of an unfavourable CO₂^? to O=C and SO₃^? electrostatic interactions costs 2.1 kcal/mol. Hosts 1 and 2 bind to insulin with low micromolar affinity. Acyclic CB[n] display high affinity toward a wider range of N-terminal amino acids residues than CB[n] which suggests a broad range of applications.     

A new synthesis of N-acetylneuraminic acid

A new synthesis of N-acetylneuraminic acid (Neu5Ac; 28 ) via aldehyde 10 is described. The aldehyde 10 was obtained from N, acetyl-D -glucosamine ( 11 ; 5 steps, overall yield ca. 6%) or from D-glucono-1,5-lactone ( 17 ; 6 steps, overll yield ca 57%). Thus, on the one hand, N-acetyl-D -mannosamine ( 12 ), obtained from 11 , was transformed into the known dithioacetal 14 and hence into the (ethylthio)dihydrooxazole 16 , which was cleaved under weakly acidic conditions to the aldehyde 10 . On the other hand, the known ester 18 , obtained from 17 , was sulfonylated and further transformed via the azide 20 into the N-acetyl-D -mannonate 22 . Reduction of 22 to 23 and oxidation of 23 with ‘periodinane’ again gave 10 . The aldehyde 10 was treated with the organozinc reagent 8 obtained from tert-butyl 2-(bromomethyl)acrylate ( 2 ) to yield predominantly 24 , which was transformed (two steps) into the 2-methylidene-D -glycero-nononic acid 27 and hence into Neu5Ac (28).     

Molecular recognition. Design of new receptors for complexation and catalysis

Abstract

In recent years there has been intense activity in the design of synthetic molecules capable of enzyme-like recognition and binding of small substrates.¹ Two fundamental approaches have been taken. The first has generally involved non-directional binding forces (such as solvophobic, π-stacking and dispersion interactions) in water-soluble cyclophane frameworks.² This approach led to extremely important quantitative insights into the hydrophobic effect and the enthalpic and entropic contributions of solvent reorganization to binding.³ However, the weakly oriented nature of the binding interactions has resulted in only moderate substrate selectivity beyond the shape recognition permitted by the cavity. In nature such selectivity is a prerequisite for the chiral recognition and catalytic activity of enzymes and is achieved by hydrogen bonding and electrostatic interactions. The second major approach to artificial receptors makes use of these more directional interactions by incorporating several hydrogen bonding groups into a cleft or cavity of defined geometry.⁴ The resulting hosts form strong and selective complexes to those substrates with complementary shape and hydrogen bonding characteristics.⁵ In these cases, however, the binding free energy is solvent dependent, diminishing to zero as the polarity of the medium increases, due to the strong solvation of the hydrogen bonding sites. A central goal in contemporary molecular recognition research must be to develop receptors that effectively use directed hydrogen bonding interactions in competitive solvents. Success will probably require combining strong (possibly charged) hydrogen bonding groups with hydrophobic sites capable not only of effective apolar association with the substrate but also of protecting the polar sites from full solvation.     

The first synthesis of N-acetylneuraminic acid 1,7-lactone

N-Acetylneuraminic acid is transformed into its until now unavailable and rather unwieldy 1,7-lactone, via the manageable 2-benzyloxycarbonyl N-acetylneuraminic acid 1,7-lactone which generates the free lactone in quantitative yield by hydrogenolysis.     

Selective recognition of cyanide anion via formation of multipoint NH and phenyl CH hydrogen bonding with acyclic ruthenium bipyridine imidazole receptors in water

Five imidazole-based anion receptors A-E are designed for cyanide anion recognition via hydrogen bonding interaction in water. Only receptors A [Ru(bpy)(2)(mpipH)](ClO(4))(2) (bpy is bipyridine and mpipH is 2-(4-methylphenyl)-imidazo[4,5-f]-1,10-phenanthroline) and E [Ru(2)(bpy)(4)(mbpibH(2))](ClO(4))(4) (mbpibH(2) is 1,3-bis([1,10]-phenanthroline-[5,6-d]imidazol-2-yl)benzene) selectively recognize CN(-) from OAc(-), F(-), Cl(-), Br(-), I(-), NO(3)(-), HSO(4)(-), ClO(4)(-), H(2)PO(4)(-), HCO(3)(-), N(3)(-), and SCN(-) anions in water (without organic solvent) at physiological conditions via formation of multiple hydrogen bonding interaction with binding constants of K(A(H2O)) = 345 ± 21 and K(E(H2O)) = 878 ± 41, respectively. The detection limits of A and E toward CN(-) in water are 100 and 5 μM, respectively. Receptor E has an appropriate pK(a2)* value (8.75) of N-H proton and a C-shape cavity structure with three-point hydrogen bonding, consisting of two NH and one cooperative phenyl CH hydrogen bonds. Appropriate acidity of N-H proton and multipoint hydrogen bonding are both important in enhancing the selectivity and sensitivity toward CN(-) in water. The phenyl CH···CN(-) hydrogen bonding interaction is observed by the HMBC NMR technique for the first time, which provides an efficient approach to directly probe the binding site of the receptor toward CN(-). Moreover, CN(-) induced emission lifetime change of the receptor has been exploited in water for the first time. The energy-optimized structure of E-CN adduct is also proposed on the basis of theoretical calculations.     

Molecular recognition of carbohydrates by artificial receptors: systematic studies towards recognition motifs for carbohydrates

The synthesis and binding properties for carbohydrates of several artificial, acyclic receptors containing two or three heterocyclic recognition units covalently attached to a phenyl spacer is described. These host molecules having uncharged hydrogen-bonding sites were used in a systematic study towards the evaluation of recognition motifs for carbohydrates. A novel effective, acyclic hydrogen-bonding receptor possessing naphthyridine-amide moieties as heterocyclic recognition units has been developed.     

Bile acid based receptors for multiple metal ion recognition

A series of bile acid based receptors having triazole unit along with some additional heteroatom containing moieties as coordinating units for transition metal ion recognition has been synthesized. The UV–Vis studies revealed that these receptors show significant multiple binding affinity for Hg²⁺, Cd²⁺, Pb²⁺ and Cu²⁺ ions.