Probing carbohydrate-lectin recognition in heterogeneous environments with monodisperse cyclodextrin-based glycoclusters

A series of β-cyclodextrin (βCD)-scaffolded glycoclusters exposing heterogeneous yet perfectly controlled displays of α-mannosyl (α-Man) and β-lactosyl (β-Lact) antennas were synthesized to probe the mutual influence of varying densities of the saccharide motifs in the binding properties toward different plant lectins. Enzyme-linked lectin assay (ELLA) data indicated that the presence of β-Lact residues reinforced binding of α-Man to the mannose-specific lectin concanavalin A (Con A) even though homogeneous β-Lact clusters are not recognized at all by this lectin, supporting the existence of synergic recognition mechanisms (heterocluster effect). Conversely, the presence of α-Man motifs in the heteroglycoclusters also resulted in a binding-enhancing effect of β-Lact toward peanut agglutinin (PNA), a lectin strongly binding multivalent lactosides but having no detectable affinity for α-mannopyranosides, for certain architectural arrangements. Two-site, sandwich-type ELLA data corroborated the higher lectin clustering efficiency of heterogeneous glycoclusters compared with homogeneous displays of the putative sugar ligand with identical valency. A turbidity assay was also consistent with the previous observations. Most revealingly, the lectin cross-linking ability of heterogeneous glycoclusters was sensitive to the presence of high concentrations of the non-ligand sugar, strongly suggesting that "mismatching" saccharide motifs may modulate carbohydrate-lectin specific recognition in a lectin-dependent manner when present in highly dense displays together with the "matching" ligand, a situation frequently encountered in biological systems.     

Synthesis of a useful anomeric thioacetate of an N-acetyllactosamine derivative and its application

A novel anomeric β-thioacetate of an N-acetyllactosamine derivative was efficiently synthesized in high yield from the known 2-azido glycosyl chloride using thioacetic acid as a convenient reagent. The synthesis involved not only an S_N2 replacement of the chloride by a carbothiolate anion but also a reductive acetamidation of the azide group. Applications of the thioacetate for glycosidation were demonstrated to provide both O- and S-glycosides in high yields. Furthermore, both intermediates gave a new class of glycoclusters that included thioglycosidic linkages.     

Novel generation of selenoaldehydes through stannic chloride-induced unsymmetrical C-Se bond cleavage of bis(N,N-dimethylcarbamoylseleno)methanes

Treatment of a benzene or a CH₂Cl₂ solution of bis(N,N-dimethylcarbamoylseleno)methanes with SnCl₄ afforded β-1,3,5-triselenanes, and the key intermediates, acylselonium ions and selenoaldehydes, were successfully trapped by using allyltrimethylsilane or 2,3-dimethyl-1,3-butadiene to obtain the allylation products or the cycloadducts, respectively.     

β-Tetra-brominated meso-tetraphenylporphyrin: A conformational study and application to the Mn-porphyrin catalyzed epoxidation of olefins with tetrabutylammonium oxone

X-ray crystallographic studies have shown that the free base β-tetra-brominated meso-tetraphenylporphyrin (H₂TPPBr₄) has a slightly ruffled structure with the dihedral angles of 70.1–79.2° between the phenyl groups and the porphyrin mean plane. The N(pyrrole)–N(pyrrolenine) distance is very similar to that of the standard planar porphyrins. The decreased N–H bond length of H₂TPPBr₄ with respect to that of meso-tetraphenylporphyrin (H₂TPP) seems to be due to the weaker intramolecular hydrogen bond of the former relative to the latter caused by the electron-withdrawing effects of the β-bromine substituents. The large red shifts of the Soret and Q(0,0) bands of H₂TPPBr₄ in comparison with those of H₂TPP, in spite of the nearly planar porphyrin core of the compound, also may be explained on the basis of the electron-withdrawing effects of the bromine atoms. Oxidation of styrene, the para-substituted derivatives and cyclooctene with tetrabutylammonium oxone in the presence of catalytic amounts of β-tetra-brominated meso-tetraphenylporphyrinatomanganese(III) acetate immediately gives the epoxide as the sole product. Terminal double bonds and unconjugated ones are less reactive than the conjugated double bonds and show lower selectivities. Catalytic activity of the electron-deficient Mn(H₂TPPBr₄)OAc dramatically depends on the Co-catalytic activity of the nitrogen donors as the axial base. The best axial bases are the nitrogenous donors with mixed σ- and π-donor ability to the metal centre.     

Acidic ionic liquid [NMP]H2PO4 as dual solvent-catalyst for synthesis of β-alkoxyketones by the oxa-Michael addition reactions

Acidic ionic liquid N-methyl-2-pyrrolidonium dihydrogen phosphate [NMP]H₂PO₄ was prepared and used as efficient catalyst and reaction medium to synthesize β-alkoxyketones by the oxa-Michael addition reactions for the first time. The effect of anions and cations, amount of ionic liquid on the reaction was investigated. Various alcohols and phenols proceeded smoothly and led to corresponding β-alkoxyketones with high yields under mild reaction conditions, O-selectivity addition of aminoethanols was also achieved in this paper. Compared with traditional imidazolium ionic liquids, [NMP]H₂PO₄ gave the better results. The ionic liquid was stable and could be reused at least five times with a slight loss of activity.     

Intramolecular metal-catalyzed amination of pseudo-anomeric C-H bonds

Intramolecular metal-catalyzed amination of a pseudo-anomeric C-H bond in a C-glycoside is reported. Treatment of α,β-C-carbamoyloxymethyl- or β-C-sulfamoyloxymethyl glycosides with Rh₂(OAc)₄, PhI(OAc)₂, and MgO provided original spirooxazolidines or spirooxathiazolidines in reasonable yields. No correlation between ‘anomeric’ stereochemistry and insertion efficiency was found for the conversion of carbamate derivatives whereas amination reactions of the corresponding sulfamate esters were found to be strongly dependent on the anomeric configuration.     

4-Ketoantheraxanthin, a novel carotenoid produced by the combination of the bacterial enzyme β-carotene ketolase CrtW and endogenous carotenoid biosynthetic enzymes in higher plants

Higher plants do not ordinarily possess ketocarotenoids due to the absence of a carotenoid ketolase enzyme. We expressed genes coding for marine-bacterial enzymes β-carotene ketolase (CrtW) and β-carotene hydroxylase (CrtZ) in tobacco plants (Nicotiana tabacum) by transplastomic engineering. A novel carotenoid, 4-ketoantheraxanthin, was isolated from the leaves of the tobacco transformants. The structure of 4-ketoantheraxanthin was determined to be (3S,3′S,5′R,6′S)-5′,6′-epoxy-3,3′-dihydroxy-β,β-caroten-4-one by analysis of the MS, NMR, and CD data. This carotenoid was considered to be synthesized by a 4-ketolation reaction by CrtW of antheraxanthin that had been synthesized by the endogenous carotenoid biosynthetic enzymes present in higher plants and CrtZ. 4-Ketoantheraxanthin was also shown to have potent antioxidative activity against a ¹O₂ suppression model.     

Fluorination and chlorination of nitroalkyl groups

Heterocycles substituted with a nitromethyl (CH₂NO₂) or phenyl-nitromethyl (CHPhNO₂) group were prepared by reaction of a methyl- or phenylmethyl-substituted heterocycle, respectively, with lithium di-isopropylamide followed by quenching the intermediate carbanion with methyl nitrate. Conversion of CH₂NO₂ attached to an alkyl or aryl moiety into a dichloronitromethyl (CCl₂NO₂) group was achieved using N-chlorosuccinimide and 1,8-diazabicyclo[5.4.0]undec-7-ene (DBU) in dichloromethane. Similarly, CH₂NO₂ attached to an alkyl or aryl group was converted into difluoronitromethyl (CF₂NO₂) using either 1-chloromethyl-4-fluoro-1,4-diazoniabicyclo[2.2.2]octane bis(tetrafluoroborate) (Selectfluor™) or N-fluorobenzenesulfonimide with DBU as base and dichloromethane as solvent. Reaction of ω-nitroacetophenone with Selectfluor/DBU in dimethylformamide followed by acidification and distillation gave the parent difluoronitromethane in a useful ‘one-pot’ procedure.     

Design and synthesis of a new series of amphiphilic peptide-β-cyclodextrins as phase transfer carriers for glucosamine

A new series of amphiphilic β-cyclodextrins were designed and synthesized by grafting peptide chains on to all primary hydroxyl groups via ester bond formation. The desired amphiphilic structures have been produced from ester connection between the C-6 of β-cyclodextrin and the carboxyl group of N-acetylated resides: H₂N-Leu-COOH, H₂N-Leu-Gly-COOH, H₂N-Leu-Gly-Leu-COOH, and H₂N-Leu-Gly-Leu-Gly-COOH (3a-d). The synthetic pathway involves selective bromination of all primary hydroxyls of β-cyclodextrins and then substitution with the carboxylate moiety of the mentioned N-acetyl residues in the presence of DBU (1,8-diazabicyclo[5,4,0]undec-7-ene). The ability of the synthetic compounds for extraction and phase transfer of glucosamine, as a hydrophilic organic compound, was then studied. The results showed a considerable ability of these amphiphilic compounds for extraction and a selective tendency of 3c for phase transfer of glucosamine.     

Reactions of α-imino ketones derived from arylglyoxals with (trifluoromethyl)trimethylsilane; a new route to β-amino-α-trifluoromethyl alcohols

The reactions of α-imino ketones, derived from arylglyoxals, with (trifluoromethyl)trimethylsilane (CF₃SiMe₃) in DME solution, in the presence of catalytic amount of CsF, at room temperature, yield O-silylated β-imino alcohols in the chemoselective manner. Subsequent reduction of these products with NaBH₄ in ethanolic solution leads to the corresponding β-(N-alkyl)amino-α-trifluoromethyl alcohols in good to excellent yields. Trifluoromethylation of enantiomerically pure α-imino ketones (with Ar = Ph or p-MeOC₆H₄), bearing as a chiral auxiliary the PhCH(Me) group attached to the nitrogen atom, yields mixtures of diastereomeric products in the ratio of ca. 3:2.     

Conjugates of polyhedral boron compounds with carbohydrates 7. Hydrolytic stability of closo-ortho-carborane glycoconjugates containing from one to three β-lactosylamine and β-d-galactopyranosylamine residues; estimation of their galectin-binding efficiency with galectin RCA120

The galectin-binding efficiency (Ricinus communis agglutinin, RCA) and the degree of deboronation at 37 °C of glycoconjugates of ortho-carboranylacetic acid containing from one to three β-lactosylamine or β-d-galactopyranosylamine residues were estimated; the glycoconjugates are potential agents for boron neutron capture therapy of cancer. Over a period of 24 h, up to ～15% of glycoconjugates underwent deboronation to give glycoconjugates of nido-ortho-carborane. With Lac-β-NH(COCH₂NH)₂COCH₂-o-CCHB₁₀H₁₀ as an example, it was demonstrated that the deboronation occurs at both 60 and 5 °C. Glycoconjugates with an O-linked β-galactose as a fragment of lactosylamine bind to galectin RCA₁₂₀ much more efficiently (up to ～40 times) than do the corresponding glycoconjugates with a N-linked β-galactose residue. The glycoconjugates containing one β-lactosylamine residue bind to galectin RCA approximately two times less efficiently than does lactose; however, introduction of the second and third β-lactosylamine residues into the glycoconjugate increases the binding efficiency by a factor of five to seven due to the cluster effect.     

Characterization of milled wood lignin and ethanol organosolv lignin from miscanthus

Ethanol organosolv lignin extracted from Miscanthus × giganteus (using the following conditions: T = 190 °C, t = 60 min, sulfuric acid = 1.2% w/w, EtOH/H₂O = 0.65) and milled wood lignin from Miscanthus × giganteus were subjected to a comprehensive structural characterization by ¹³C, ³¹P NMR, FTIR, UV spectroscopies and size exclusion chromatography. The results showed that Miscanthus lignin is an H/G/S type (4%, 52%, 44% respectively) with ∼0.41 β-O-4 linkage per aromatic ring and contains coumarylate linkages (0.1/Ar). It was shown that during organosolv treatment, cleavage of β-O-4 linkages and of ester bond (acetyl and coumaryl residues) was the major mechanisms of lignin breakdown but the process did not significantly change the core of the lignin structure.     

β-d-Xylosidase from Geobacillus thermoleovorans IT-08: Biochemical Characterization and Bioinformatics of the Enzyme

The gene encoding a thermostable β-d-xylosidase (GbtXyl43B) from Geobacillus thermoleovorans IT-08 was cloned in pET30a and expressed in Escherichia coli; additionally, characterization and kinetic analysis of GbtXyl43B were carried out. The gene product was purified to apparent homogeneity showing M _r of 72 by sodium dodecyl sulfate polyacrylamide gel electrophoresis. The enzyme exhibited an optimum temperature and pH of 60 °C and 6.0, respectively. In terms of stability, GbtXyl43B was stable at 60 °C at pH 6.0 for 1 h as well as at pH 6–8 at 4 °C for 24 h. The enzyme had a catalytic efficiency (k _cat/K _M) of 0.0048?±?0.0010 s^?1 mM^?1 on p-nitrophenyl-β-d-xylopyranoside substrate. Thin layer chromatography product analysis indicated that GbtXyl43B was exoglycosidase cleaving single xylose units from the nonreducing end of xylan. The activity of GbtXyl43B on insoluble xylan was eightfold higher than on soluble xylan. Bioinformatics analysis showed that GbtXyl43B belonging to glycoside hydrolase family 43 contained carbohydrate-binding module (CBM; residues 15 to 149 forming eight antiparallel β-strands) and catalytic module (residues 157 to 604 forming five-bladed β-propeller fold with predicted catalytic residues to be Asp287 and Glu476). CBM of GbtXyl43B dominated by the Phe residues which grip the carbohydrate is proposed as a novel CBM36 subfamily.     

Design,synthesis and structural analysis of mixed α/β-peptides that adopt stable cyclic hairpin-like conformations

The strategic replacement of four α-amino acid residues of a cyclo-(ααααα)₂ peptide by β-, β²- or β³-amino acids residues provided a series of novel 2:1 α/β-mixed peptides that were designed to adopt cyclic hairpin-like structures. It was shown that conformationally stable cyclo-(αβαβα)₂ isomers can be obtained using both enantiomers of the central two basic α-amino acid residues, a known α-amino acid turn sequence and several combinations of facing β-amino acid residues with no side chain or a hydrophobic side chain having specific regio- and stereochemistry. The X-ray analysis of two derivatives provides molecular details of the intra-molecular hydrogen bonding interaction, dihedral angles of the backbone and side chain positioning of the novel cyclic hairpin-like structures. One of these isomers forms an unprecedented hexagon-shaped nano-channel assembly in the crystal structure. Well-defined cyclic hairpin-like structures as described here and derivatives that can be readily designed based on this research can be used as scaffolds onto which functional groups can be grafted in a spatially controlled manner and as β-hairpin mimics with specific biological properties.     

A Facile Stereoselective Synthesis of Ether-Linked β-D-Maltosyl- and β-D-Lactosyl-glycerolipids via Peracetylated Disaccharide α-Phosphoramidates

The reaction of 1-O-hexadecyl-2-O-methyl-sn-glycerol with 2,3,6,2′,3′,4′,6′-hepta-O-acetyl-α-lactosylphosphoramidate or α-maltosylphos-phoramidate in the presence of trimethylsilyl triflate and molecular sieves afforded 1-O-hexadecyl-2-O-methyl-3-O-(2,3,6,2′,3′,4′,6′-hepta-O-acetyl-β-lactosyl)-sn-glycerolipid or β-maltosyl-sn-glycerolipid stereoselectively in moderate yields after column chromatography. Alkaline hydrolysis of the O-peracetyl glycerolipids gave the desired β-glycolipids 1 and 2.     

High-energy collision-induced dissociation mass spectrometry of synthetic mannose-6-phosphate oligosaccharides

The high-energy collision-induced dissociation spectra of a series of linear and branched synthetic mannosyl oligosaccharides that contain 6-phosphate substituents on either or both non-reducing terminal or penultimate residues have been studied. These phosphorylated structures were designed to mimic those of naturally derived N-glycans (Man-6-PO₄) on lysosomal enzymes and to probe the minimally required binding motif for the Man-6-PO₄ receptors. When a phosphate group was present, the spectra were dominated by ions that arise from cleavages at the glycosidic bonds (single and double) with charge retention on the phosphate-containing fragments. The spectra of linear structures that bear the nonreducing terminal Man-6-phosphate residues were devoid of Y-type ions, unlike those with similar phosphorylation at the penultimate residue. The location of the phosphorylated residue was deduced from the presence or absence of unique B and Y ions. In neutral branched structures, the ions were formed by cleavage at the glycosidic bond at either one or both of the branch points and the aglycon, which was attached to the disubstituted mannosyl residue. Branched oligosaccharides that contained one or two terminal Man-6-PO₄ residues also showed double cleavages with charge retention on the phosphate-containing fragment. Our investigation shows that positive mode high energy collision-induced dissociation mass spectrometry can determine the location—terminal or penultimate—of Man-6-PO₄ residues in N-linked type oligosaccharides.     

Selective functionalization at the small rim of calix[6]arene. Synthesis of novel non-symmetrical N3, N4 and N3ArO biomimetic ligands

Eight novel calix[6]arene-based biomimetic ligands for transition metal ions have been synthesized. They display a non-symmetrical N₃, N₄ or N₃ArO binding core that mimics enzyme active sites presenting histidine and tyrosine residues. The key step for their synthesis is the mono-alkylation at the small rim of the C_3v symmetrical trimethyl ether derivative of tBu-calix[6]arene with N-Boc-2-chloroethylamine to yield a novel calix[6]arene synthon. Its combined O-alkylation with a chloromethyl aromatic amine and N-deprotection or alkylation or reductive alkylation with a salicylaldehyde derivative yielded the calix[6]arene-based ligands with mixed N/O donors.     

Synthesis and characterization of a tetraruthenium butterfly cluster containing a quadruply-bridging ligand derived from an N,N′-dipyrid-2-ylurea

The tetraruthenium cluster complex [Ru₄(μ₄-κ⁴-dmpu)(CO)₁₀], H₂dmpu = N,N′-bis(6-methylpyrid-2-yl)urea, has been prepared by treating [Ru₃(CO)₁₂] with H₂dmpu in toluene at reflux temperature. An X-ray diffraction study has determined that this cluster has a butterfly metallic skeleton hold up by a doubly-deprotonated N,N′-bis(6-methylpyrid-2-yl)urea ligand (dmpu). This ligand has the pyridine N atoms attached to the wing-tip Ru atoms and the amido N atoms spanning Ru-Ru wing-edges, in such a way that the cluster has C₂ symmetry. The donor atoms of doubly-deprotonated N,N′-dipyrid-2-ylureas seem to be appropriately arranged to hold butterfly tetranuclear clusters.     

Synthesis and spectroscopic characterization of enantiopure protected trans-4-amino-1-oxyl-2,2,6,6-tetramethyl piperidine-3-carboxylic acid (trans β-TOAC)

Enantiomerically pure (3R,4S) and (3S,4R) protected 4-amino-1-oxyl-2,2,6,6-tetramethylpiperidine-3-carboxylic acids were synthesized by reduction of the enamines resulting from the condensation of 3-carboxymethyl-1-oxyl-2,2,6,6-tetramethyl-4-piperidone with (R) or (S)-α-methylbenzylamine. While NaBH₃CN/CH₃COOH reduction gave predominantly a mixture of the two possible cis-diastereomers, the use of NaBH₄/(CH₃)₂CHCOOH resulted in a mixture of only one trans- and one cis-diastereomer. Removal of the chiral auxiliary from the separated diastereoisomers by hydrogenolysis and regeneration of the nitroxide radical gave the desired β-amino esters. The ESR spectrum of the (3R,4S)-enantiomer is also reported.     

Convenient high yield and stereoselective synthesis of O-glycopeptides using N-α-Fmoc-Tyr/Ser[β-d-Glc(OAc)4]OPfp generated in solution

Fmoc-AA-OPfp (AA=Tyr or Ser) (1 equiv) was reacted with β-d-Glc(OAc)₅ (6 equiv) in the presence of BF₃.Et₂O (6 equiv) in CH₂Cl₂ at room temperature for 2 h, and the glycosylation reaction mixture was used directly to couple to the amino group of the peptide resin without isolation and purification of the Fmoc-AA[β-d-Glc(OAc)₄]-OPfp. Moreover, the -OAc protecting groups of glucose was removed just prior to releasing the peptide from the resin using 6 mM NaOMe in 85% DMF-MeOH. The crude product obtained by TFA cleavage contained >90% of the target O-glycopeptide, and the 500 MHz ¹H NMR analysis revealed that the glycosylation reaction was nearly stereoselective (>97% β-anomer). This method is rapid and stereoselective, and can now be exploited for the routine synthesis of O-glycopeptides.