ortho‐(Aminomethyl)phenylboronic acids—synthesis,structure and sugar receptor activity

A series of ortho‐(aminomethyl)phenylboronic acids was synthesized and their structures were determined by single‐crystal X‐ray diffraction. The structures are stabilized by the inter‐ and intramolecular hydrogen bonds. The sugar‐binding ability of these compounds was evaluated for D ‐glucose, D ‐fructose and D ‐galactose by the competition assay with Alizarin Red S (ARS). The results indicate that the sugar binding ability and selectivity towards sugars depend on the substituents in amino group. Copyright © 2008 John Wiley & Sons, Ltd.     

Synthesis and Predetermined Supramolecular Chirality of Carbohydrate‐Functionalized Perylene Bisimide Derivatives

Eight carbohydrate‐modified perylene bisimides ( PBI‐4 lac‐2 lac , PBI‐4 lac‐2 Man , PBI‐4 lac‐2 Gal , PBI‐4 lac‐2 Mal , PBI‐4 Man‐2 Man , PBI‐4 Man‐2 lac , PBI‐4 Man‐2 Gal and PBI‐4 Man‐2 Mal ) were synthesized, and the following predetermined supramolecular chirality rule was found: perylene bisimides modified with disaccharides (D ‐lactose and D ‐maltose) at the imide position generated right‐handed chirality, and those modified with monosaccharides (D ‐mannose and D ‐galactose) generated left‐handed chirality, when D ‐lactose or D ‐mannose was substituted in the bay positions of perylene bisimides with amide bonds as the linking spacers. These results may be because of the difference in the stacking angle of the perylene bisimide backbones induced by the steric effect and the additional hydrogen bonds between the disaccharide residues. This study provides an important design rule for predetermined chiral self‐assembly of perylene bisimides.     

Antiparallel Self‐Association of a γ,α‐Hybrid Peptide: More Relevance of Weak Interactions

To learn how a preorganized peptide‐based molecular template, together with diverse weak non‐covalent interactions, leads to an effective self‐association, we investigated the conformational characteristics of a simple γ,α‐hybrid model peptide, Boc‐γ‐Abz‐Gly‐OMe. The single‐crystal X‐ray diffraction analysis revealed the existence of a fully extended β‐strand‐like structure stabilized by two non‐conventional C?H???O=C intramolecular H‐bonds. The 2D ¹H NMR ROESY experiment led us to propose that the flat topology of the urethane‐γ‐Abz‐amide moiety is predominantly preserved in a non‐polar environment. The self‐association of the energetically more favorable antiparallel β‐strand‐mimic in solid‐state engenders an unusual ‘flight of stairs’ fabricated through face‐to‐face and edge‐to‐edge Ar???Ar interactions. In conjunction with FT‐IR spectroscopic analysis in chloroform, we highlight that conformationally semi‐rigid γ‐Abz foldamer in appositely designed peptides may encourage unusual β‐strand or β‐sheet‐like self‐association and supramolecular organization stabilized via weak attractive forces.     

Sugar‐Alcohol Complexes of Palladium(II): On the Variable Rigidity of Open‐Chain Carbohydrate Ligands

The C₄, C₅, and C₆ sugar alcohols erythritol (Eryt), D ‐threitol (D ‐Thre), D ‐arabitol (D ‐Arab), ribitol (Ribt), xylitol (Xylt), dulcitol (Dulc), and D ‐mannitol (D ‐Mann) form chelate complexes upon dissolution in Pd‐en, an aqueous solution of [Pd^II(en)(OH)₂]. Stability rules are derived from the proportion of a respective species in the solution equilibrium. Crystal‐structure analysis supports the NMR spectroscopic results for a series of binuclear compounds that contain the sugar alcohols as tetraanionic polyolato ligands: [Pd₂(en)₂(ErytH_?4)]? 10H₂O, [Pd₂(en)₂(D ‐Arab1,2;3,4H_?4)]? 7H₂O, [Pd₂(en)₂(Xylt1,2;3,4H_?4)]?4H₂O, [Pd₂(en)₂(D ‐Mann1,2;3,4H_?4)]?5H₂O, and [Pd₂(en)₂(Dulc2,3;4,5H_?4)]?6H₂O. In the case of the pentitols and hexitols, the metalated tetraanions are stabilized by intramolecular hydrogen bonds. The hydrogen bonds uniformly connect an alkoxide acceptor to the hydroxy donor group located at the δ carbon atom. As a consequence of hydrogen bonding, the open‐chain carbohydrate ligands become rigid. Crystal‐structure analysis provides information on the configurational requirements for rigidity. According to these rules, the hydrogen‐bond‐supported Dulc2,3;4,5H_?4 tetraanion provides a geometrically persistent ligating pattern. Intramolecular hydrogen bonding seems to be the most‐competitive variable to metalation of a polyol. [Pd₂(tm‐2,1:3,2‐tet)(OH)₃]OH (tm‐2,1:3,2‐tet=1,3‐bis(2′‐dimethylaminoethyl)hexahydropyrimidine) is a metallizing agent that can force full metalation even in a case as intractable as that of dulcitol. Accordingly, [Pd₄(tm‐2,1:3,2‐tet)₂‐(DulcH_?6)]Cl₂?16H₂O contains the fully deprotonated hexitol as the ligand.     

Orthogonal Halogen‐Bonding‐Driven 3D Supramolecular Assembly of Right‐Handed Synthetic Helical Peptides

Peptide‐mediated self‐assembly is a prevalent method for creating highly ordered supramolecular architectures. Herein, we report the first example of orthogonal C?X???X?C/C?X???π halogen bonding and hydrogen bonding driven crystalline architectures based on synthetic helical peptides bearing hybrids of l ‐sulfono‐γ‐AApeptides and natural amino acids. The combination of halogen bonding, intra‐/intermolecular hydrogen bonding, and intermolecular hydrophobic interactions enabled novel 3D supramolecular assembly. The orthogonal halogen bonding in the supramolecular architecture exerts a novel mechanism for the self‐assembly of synthetic peptide foldamers and gives new insights into molecular recognition, supramolecular design, and rational design of biomimetic structures.     

Effect of Hydrogen Binding on Selective Recognition of Halide Anions

The interplay of molecular rigidity enforced by interior or exterior hydrogen bonding and affinity for binding halide anions is described to demonstrate the effect of intramolecular hydrogen bonding in anion recognition process. To this end pyridine‐2,6‐dicarboxamides 1 and 2 , and aromatic oligoamides 3 and 4 containing intramolecular hydrogen bonds were explored for their ability in associating with tetrabutylammonium halide (Cl^?, Br^?, and I^?). Binding constants in chloroform solution were calculated using nonlinear curve‐fitting method based on ¹H NMR titration experiments. The trimeric amide 3 , which adopts a crescent conformation as revealed by single‐crystal X‐ray diffraction analysis, strongly binds chloride anion with binding constant as high as 379 L·mol^?1. This is more than 6 times greater than the binding constant for the control receptor 2 with a backbone that is only partially rigidified. The comparative data provided supportive information for rationalizing the observed affinity difference in binding halide anions in terms of local preorganization effected by interior or exterior hydrogen bonding.     

Methyl β‐d‐fructopyranoside

In methyl β‐d ‐fructopyranoside, C₇H₁₄O₆, the thermodynamically most stable methyl glycoside of the ketose d ‐fructose, the pyranose ring is close to being an ideal ²C₅ chair. The compound forms bilayers involving a complex hydrogen‐bonding pattern of five independent hydrogen bonds. Graph‐set analysis was applied to distinguish the hydrogen‐bond patterns at unary and higher level graph sets.     

Glycosyl‐Templated Chiral Helix Stapling of Ethynylpyridine Oligomers by Alkene Metathesis between Inter‐Pitch Side Chains

Ethynylpyridine polymers and oligomers consisting of 4‐substituted pyridine rings linked by acetylene bonds at the 2‐ and 6‐positions have been investigated. Ethynylpyridine oligomers covalently linked with a glycosyl chiral template form chiral helical complexes by intramolecular hydrogen bonding, in which the chirality of the template is translated to the helix. With a view to fixation of the chiral architecture, D /L ‐galactosyl‐ and D /L ‐mannosyl‐linked ethynylpyridine oligomers have been developed with 4‐(3‐butenyloxy)pyridine units having alkene side chains. The helical structures are successfully stapled by alkene metathesis of the side chains. Subsequent removal of the chiral templates by acidolysis produces template‐free stapled oligomers. The chiral, template‐free, stapled oligomers show chiral helicity, which is resistant to polar solvents and heating.     

De Novo Left‐Handed Synthetic Peptidomimetic Foldamers

The development of peptidomimetic helical foldamers with a wide repertoire of functions is of significant interest. Herein, we report the X‐ray crystal structures of a series of homogeneous l ‐sulfono‐γ‐AA foldamers and elucidate their folding conformation at the atomic level. Single‐crystal X‐ray crystallography revealed that this class of oligomers fold into unprecedented dragon‐boat‐shaped and unexpected left‐handed helices, which are stabilized by the 14‐hydrogen‐bonding pattern present in all sequences. These l ‐sulfono‐γ‐AApeptides have a helical pitch of 5.1 Å and exactly four side chains per turn, and the side chains lie perfectly on top of each other along the helical axis. 2D NMR spectroscopy, computational simulations, and CD studies support the folding conformation in solution. Our results provide a structural basis at the atomic level for the design of novel biomimetics with a precise arrangement of functional groups in three dimensions.     

Synthesis and Thermoreversible Gelation Properties of Main‐Chain Poly(pyridine‐2,6‐dicarboxamide‐triazole)s

A series of main‐chain poly(amide‐triazole)s were prepared by copper(I)‐catalyzed alkyne–azide AABB‐type copolymerizatons between five structurally similar diacetylenes 1 – 5 with the same diazide 6 . The acetylene units in monomers 1 – 5 possessed different degrees of conformational flexibility due to the different number of intramolecular hydrogen bonds built inside the monomer architecture. Our study showed that the conformational freedom of the monomer had a profound effect on the polymerization efficiency and the thermoreversible gelation properties of the resulting copolymers. Among all five diacetylene monomers, only the one, that is, 1 ‐Py(NH)₂ which possesses the pyridine‐2,6‐dicarboxamide unit with two built‐in intramolecular H bonds could produce the corresponding poly(amide‐triazole) Poly‐(PyNH)₂ with a significantly higher degree of polymerization (DP) than other monomers with a lesser number of intramolecular H bonds. In addition, it was found that only this polymer exhibited excellent thermoreversible gelation ability in aromatic solvents. A self‐assembling model of the organogelating polymer Poly‐(PyNH)₂ was proposed based on FTIR spectroscopy, XRD, and SEM analyses, in which H bonding, π–π aromatic stacking, hydrophobic interactions, and the structural rigidity of the polymer backbone were identified as the main driving forces for the polymer self‐assembly process.     

Glycopolymeric inhibitors of β‐glucuronidase. III. Configurational effects of hydroxy groups in pendant glyco‐units in polymers upon inhibition of β‐glucuronidase

Two kinds of new glycopolymers, (P(VB‐1‐GlcaH‐co‐AAm), 9 ) and (P(VB‐1‐Glco‐co‐AAm), 10 ), were synthesized through the radical copolymerization of styrene derivatives bearing pendant D ‐glucaric and D ‐gluconic moieties, N‐(p‐vinylbenzyl)‐1‐D ‐glucaramide (VB‐1‐GlcaH, 7 ), and N‐(p‐vinylbenzyl)‐D ‐gluconamide (VB‐1‐Glco, 8 ), with acrylamide (AAm). Glycopolymer 9 bearing the pendant glucaric moiety at the first position inhibited the hydrolysis of a model compound for xenobiotics‐β‐glucuronide conjugates, p‐nitrophenyl β‐D ‐glucuronide, uncompetitively, in contrast to the competitive inhibition in the presence of the corresponding isomeric glycopolymer bearing the pendant D ‐glucaric unit at the sixth position (P(VB‐6‐GlcaH‐co‐AAm), 3 ) reported in our previous article. On the other hand, another copolymer 10 bearing the gluconic moiety was found not to inhibit the hydrolysis as well as the corresponding copolymer bearing pendant gulonic unit (P(VB‐6‐Glco‐co‐AAm), 4 ). These results indicate that the hydrolysis is influenced not only by existence of pendant carboxyl units but also by the direction on the linkage of the glyco‐units to the polymer frame. Therefore the configurational position of hydroxy groups in pendant glyco‐units in macromolecular inhibitors may be essential for the interaction with β‐glucuronidase. © 2006 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem 44: 4895–4903, 2006     

Enantiomeric separation by MEKC using dodecyl thioglycoside surfactants: Importance of an equatorially oriented hydroxy group at C‐2 position in separation of dansylated amino acids

To investigate the influence of stereogenic centers of sugar‐based surfactants for enantiomeric separation, four n‐dodecyl thioglycoside sulfates (CMC 1.5–3.6 mM) were chosen as micelle‐forming surfactants and five dansylated hydrophobic amino acids were used as test analytes. The analytes were mutually separated by these micelles exhibiting almost similar migration times independent of the used surfactant. Baseline separations of all enantiomers were achieved using both β‐D ‐glucose and β‐D ‐galactose derivates that have an equatorially oriented hydroxy group at C‐2 position. In contrast, the ability of enantioseparation was markedly decreased in the case of β‐D ‐mannose and 2‐deoxy‐β‐D ‐glucose derivatives. These results suggested that the structure of C‐2 position of the sugar unit, namely presence of an equatorially oriented hydroxy group, is highly important for the enantiomeric separation of the chosen hydrophobic dansylated amino acids.     

Native Mannose‐Dominant Extraction by Pyridine–Phenol Alternating Oligomers Having an Extremely Efficient Repeating Motif of Hydrogen‐Bonding Acceptors and Donors

Pyridine–phenol alternating oligomers in which pyridine and phenol moieties are alternatingly linked through acetylene bonds at the 2,6‐positions of the aromatic rings were designed and synthesized. The pyridine nitrogen atom and the neighboring phenolic hydroxyl group were oriented so that they do not form an intramolecular hydrogen bond but cooperatively act as hydrogen‐bonding acceptor and donor in a push–pull fashion for the hydroxyl group of saccharides. The longer oligomer strongly bound to lipophilic glycosides in 1,2‐dichloroethane, and association constants approached 10⁸ M ^?1. Moreover, the oligomer extracted native saccharides from a solid phase to apolar organic solvents up to the extent of an equal amount of the oligomer and showed mannose‐dominant extraction among naturally abundant hexoses. The oligomer bound to native saccharides even in 20 % DMSO‐containing 1,2‐dichloroethane and exhibited association constants of greater than 10 M ^?1 for D ‐mannose and D ‐glucose.     

Synthesis,Structure and Magnetic Properties of a Novel Nickel(II) Radical Heterospin Complex with Salicylaldoxime

A novel heterospin complex containing both Ni^II and nitroxide radical ligands: [Ni(salox)₂(NIT4Py)₂] ( 1 ) (salox = salicylaldoxime, NIT4Py = 2‐(4′‐pyridyl)‐4,4,5,5‐ tetramethyl‐imidazoline‐1‐oxyl‐3‐oxide) has been synthesized and structurally characterized. The structure consists of neutral Ni(salox)₂(NIT4Py)₂ moieties bridged by intermolecular hydrogen bonds, forming a one‐dimensional chain structure. Magnetic measurements show intramolecular antiferromagnetic interactions between NIT4Py and Ni²⁺ ion.     

Monitoring Backbone Hydrogen‐Bond Formation in β‐Barrel Membrane Protein Folding

β‐barrel membrane proteins are key components of the outer membrane of bacteria, mitochondria and chloroplasts. Their three‐dimensional structure is defined by a network of backbone hydrogen bonds between adjacent β‐strands. Here, we employ hydrogen–deuterium (H/D) exchange in combination with NMR spectroscopy and mass spectrometry to monitor backbone hydrogen bond formation during folding of the outer membrane protein X (OmpX) from E. coli in detergent micelles. Residue‐specific kinetics of interstrand hydrogen‐bond formation were found to be uniform in the entire β‐barrel and synchronized to formation of the tertiary structure. OmpX folding thus propagates via a long‐lived conformational ensemble state in which all backbone amide protons exchange with the solvent and engage in hydrogen bonds only transiently. Stable formation of the entire OmpX hydrogen bond network occurs downhill of the rate‐limiting transition state and thus appears cooperative on the overall folding time scale.     

Construction of Chemical‐Responsive Supramolecular Hydrogels from Guest‐Modified Cyclodextrins

A methodology for preparing supramolecular hydrogels from guest‐modified cyclodextrins (CDs) based on the host–guest and hydrogen‐bonding interactions of CDs is presented. Four types of modified CDs were synthesized to understand better the gelation mechanism. The 2D ROESY NMR spectrum of β‐CD‐AmTNB (Am=amino, TNB=trinitrobenzene) reveals that the TNB group was included in the β‐CD cavity. Pulsed field gradient NMR (PFG NMR) spectroscopy and AFM show that β‐CD‐AmTNB formed a supramolecular polymer in aqueous solution through head‐to‐tail stacking. Although β‐CD‐AmTNB did not produce a hydrogel due to insufficient growth of supramolecular polymers, β‐CD‐CiAmTNB (Ci=cinnamoyl) formed supramolecular fibrils through host–guest interactions. Hydrogen bonds between the cross‐linked fibrils resulted in the hydrogel, which displayed excellent chemical‐responsive properties. Gel‐to‐sol transitions occurred by adding 1‐adamantane carboxylic acid (AdCA) or urea. ¹H NMR and induced circular dichroism (ICD) spectra reveal that AdCA released the guest parts from the CD cavity and that urea acts as a denaturing agent to break the hydrogen bonds between CDs. The hydrogel was also destroyed by adding β‐CD, which acts as the competitive host to reduce the fibrils. Furthermore, the gel changed to a sol by adding methyl orange (MO) as a guest compound, but the gel reappeared upon addition of α‐CD, which is a stronger host for MO.     

2－脱氧－烟酰胺基－β－D－氨基葡萄糖的合成和表征

A new nicotinic acid derivative,2-deoxy-2-nicotinoylamido-β-D-glucopyranose, was synthesized with β-configuration exclusively. The structure and properties of the product were characterized by ^1H NMR, PT-IR, MS, DSC and polarimeter. The details of ^1H NMR spectrum and the mass spectrum proved that there are a great amount of hydrogen bonds in the product.     

Unusual Folding Propensity of an Unsubstituted β,γ‐Hybrid Model Peptide: Importance of the C?H⋅⋅⋅O Intramolecular Hydrogen Bond

The single‐crystal X‐ray diffraction analysis of a β,γ‐hybrid model peptide Boc‐β‐Ala‐γ‐Abu‐NH₂ revealed the existence of four crystallographically independent molecules ( A , B , C and D conformers) in the asymmetric unit. The analysis revealed that unusual β‐turn‐like folded structures predominate, wherein the conformational space of non‐proteinogenic β‐Ala and γ‐Abu residues are restricted to gauche‐gauche‐skew and skew‐gauche‐trans‐skew orientations, respectively. Interestingly, the U‐shaped conformers are seemingly stabilised by an effective unconventional C? H ??? O intramolecular hydrogen bond, encompassing a non‐covalent 14‐membered ring‐motif. Taking into account the signs of torsion angles, these conformers could be grouped into two distinct categories, A / B and C / D , establishing the incidence of non‐superimposable stereogeometrical features across a non‐chiral one‐component peptide model system, that is, “mirror‐image‐like” relationships. The natural occurrence of β‐Ala and γ‐Abu entities in various pharmacologically important molecules, coupled with their biocompatibilities, highlight how the non‐functionalised β,γ‐hybrid segment may offer unique advantages for introducing and/or manipulating a wide spectrum of biologically relevant hydrogen bonded secondary structural mimics in short synthetic peptides.