The Radical Cationic Repair Pathway of Cyclobutane Pyrimidine Dimer: The Effect of Sugar‐Phosphate Backbone

Radical cationic repair process of cis–syn thymine dimer has been investigated when (1) sugar‐phosphate backbones were substituted by hydrogen atoms, (2) phosphate group was substituted by two hydrogen atoms each on a sugar ring and (3) sugar‐phosphate backbone was taken into account. The effect of the interactions between N1 and N1′ lone pairs and the C6‐C6′ antibonding orbital are the most important evidences for the cleavage of the C6‐C6′ bond in the first step of radical cationic repair mechanism in the absence of the sugar‐phosphate backbone. The impact of the N1 and N1′ lone pairs on the C6‐C6′ bond cleavage decreases and the energy barrier of the cleavage of that bond significantly increases in the presence of the deoxynucleoside sugars and the sugar‐phosphate backbone.     

Enantioselective synthesis of apoptolidin sugars

[structure: see text] The de novo synthesis of the C9 and C27 sugar subunits (2) and (3), respectively, of the potent antitumor agent, apoptolidin, has been accomplished. A titanium tetrachloride-mediated asymmetric anti glycolate aldol addition was utilized to establish the 4' and 5' stereogenic centers of each of the three monosaccharides. Elaboration of the aldol adducts efficiently provided the three sugar units. A beta-selective glycosidation completed the construction of the C27 disaccharide.     

Chemoenzymatic syntheses of (-)-1-deoxymannojirimycin (DMJ) and its naturally occurring 6-O-alpha-L-rhamnopyranosyl glycoside

The naturally occurring sugar mimetic alkaloids 1-deoxymannojirimycin (DMJ, 1) and 6-O-alpha-L-rhamnopyranosyl-DMJ (2) have each been prepared in a completely stereoselective manner from the cis-1,2-dihydrocatechol 3, itself obtained in enantiomerically pure form by microbial oxidation of chlorobenzene.     

Hplc Method for Kinetic Study of Mutarotation of Sugars

Abstract

A high-performance liquid chromatographic (HPLC) method was established for kinetic studies of the interconversion (mutarotation) between pyranose sugar anomers in solution. At very low temperature, HPLC chromatograms of each sugar indicated the concentrations of each anomer in the state prior to the HPLC analysis. Thus, when one of the pyranose anomers obtained by recrystallization was dissolved into water and was analyzed by HPLC repeatedly, gradual changes in the chromatogrphic patterns were observed. The equilibrium concentrations of each sugar anomer in different solvents were found to vary, which was also investigated by HPLC.     

Formation of sugar radicals in RNA model systems and oligomers via excitation of guanine cation radical

In previous work, we have shown that photoexcitation of guanine cation radical (G*+) in frozen aqueous solutions of DNA and its model compounds at 143 K results in the formation of neutral sugar radicals with substantial yield. In this report, we present electron spin resonance (ESR) and theoretical (DFT) evidence regarding the formation of sugar radicals after photoexcitation of guanine cation radical (G*+) in frozen aqueous solutions of one-electron-oxidized RNA model compounds (nucleosides, nucleotides and oligomers) at 143 K. Specific sugar radicals C5'*, C3'* and C1'* were identified employing derivatives of Guo deuterated at specific sites in the sugar moiety, namely, C1'-, C2'-, C3'- and C5'-. These results suggest C2'* is not formed upon photoexcitation of G*+ in one-electron-oxidized Guo and deuterated Guo derivatives. Phosphate substitution at C5'- (i.e., in 5-GMP) hinders formation of C5'* via photoexcitation at 143 K but not at 77 K. For the RNA-oligomers studied, we observe on photoexcitation of oligomer-G*+ the formation of mainly C1'* and an unidentified radical with a ca. 28 G doublet. The hyperfine coupling constants of each of the possible sugar radicals were calculated employing the DFT B3LYP/6-31G* approach for comparison to experiment. This work shows that formation of specific neutral sugar radicals occurs via photoexcitation of guanine cation radical (G*+) in RNA systems but not by photoexcitation of its N1 deprotonated species (G(-H)*). Thus, our mechanism regarding neutral sugar formation via photoexcitation of base cation radicals in DNA appears to be valid for RNA systems as well.     

Novel synthesis of oligosaccharides linked with carbamate and urea bonds utilizing modified Curtius rearrangement

We describe a novel synthesis of various carbamate- and urea-linked disaccharides stereospecifically using sugar carboxylic acids and sugar alcohols or sugar amines by the modified Curtius rearrangement. In this reaction, the reactivity of each hydroxyl group in glucose as an acceptor has been disclosed. Furthermore, we applied this method to the synthesis of carbamate-linked oligosaccharides including a dendritic molecule.     

Existence of the Sugar–Bisulfite Adducts and Its Inhibiting Effect on Degradation of Monosaccharide in Acid System

Degradation of fermentable monosaccharides is one of the primary concerns for acid prehydrolysis of lignocellulosic biomass. Recently, in our research on degradation of pure monosaccharides in aqueous SO₂ solution by gas chromatography (GC) analysis, we found that detected yield was not actual yield of each monosaccharide due to the existence of sugar–bisulfite adducts, and a new method was developed by ourselves which led to accurate detection of recovery yield of each monosaccharide in aqueous SO₂ solution by GC analysis. By the use of this method, degradation of each monosaccharide in aqueous SO₂ was investigated and results showed that sugar–bisulfite adducts have different inhibiting effect on degradation of each monosaccharide in aqueous SO₂ because of their different stability. In addition, NMR testing also demonstrated possible existence of reaction between conjugated based HSO₃ ^? and aldehyde group of sugars in acid system.     

Structure of the fully modified left-handed cyclohexene nucleic acid sequence GTGTACAC

CeNA oligonucleotides consist of a phosphorylated backbone where the deoxyribose sugars are replaced by cyclohexene moieties. The X-ray structure determination and analysis of a fully modified octamer sequence GTGTACAC, which is the first crystal structure of a carbocyclic-based nucleic acid, is presented. This particular sequence was built with left-handed building blocks and crystallizes as a left-handed double helix. The helix can be characterized as belonging to the (mirrored) A-type family. Crystallographic data were processed up to 1.53 A, and the octamer sequence crystallizes in the space group R32. The sugar puckering is found to adopt the 3H2 half-chair conformation which mimics the C3'-endo conformation of the ribose sugar. The double helices stack on top of each other to form continuous helices, and static disorder is observed due to this end-to-end stacking.     

Single derivatives for GC-MS assay of reducing sugars and selective detection by the nitrogen-phosphorus detector (NPD)

Reduction of sugar methoximes with sodium cyanoborohydride followed by permethylation with CH₃SOCH₂^?/ICH₃ affords the corresponding deoxy(methylmethoxylamino)alditol O-methyl ethers, which are amenable to capillary gas chromatography. Derivatization proceeds under mild conditions with high yields. Only a single derivative is formed for each reducing sugar. All aldose derivatives can be separated in a single chromatographic run on glass capillaries coated with Carbowax 20 M or Superox 0.1. Good linearity was found. The introduction of the nitrogen atom in the sugar molecule makes these derivatives suitable for selective detection by the NPD. The El-mass spectra contain intense characteristics ions at m/z 74 for aldoses and at m/z 280 for reducing disaccharides, together with a (M - 15)⁺ion. These fragments are very suitable for highly sensitive GC-MS analysis by selective single ion monitoring.     

The chemical synthesis of a cyclic oligosaccharide derivative with branching

A cyclic oligosaccharide derivative was synthesized by cationic ring-opening polymerization of an anhydrodisaccharide derivative under high vacuum in dichloromethane with 20 mol% of PF₅ as initiator. Analysis of the spectral results showed that the oligomer chain is composed of only 3 glucose units connected by -1,6 linkages with a glucopyranosyl branching unit at C-4 of each sugar residue in the main chain.     

Photochemical Reactions of Imidazole-1-Sulfonates (Imidazylates)

Abstract

Imidazylates 1-3 were irradiated in methanol in the presence and in the absence of the electron donortriethylamine. In each case photochemical deprotection occurred in excellent yield to form the partially protected sugar from which the imidazylate was synthesized. Reactions in the presence of triethylamine required much shorter irradiation times.     

Determination of DNA structure in solution: enzymatic deuteration of the ribose 2' carbon

An enzymatic solution to the problem of obtaining 13C/15N-labeled nucleotides that are deuterated uniquely at the H2' ' position within the ribose ring is presented. Selective deuteration occurs with an overall yield of >80%. The deuteron at the H2' ' position allows measurement of the scalar and residual dipolar couplings for the bond vectors attached to the C2' carbon of each ribose sugar. These data allow the accurate determination of sugar conformation. Interesting DNA double helices of 2-3 turns are now within the reach of solution NMR spectroscopy. As an example, these labeled nucleotides are incorporated uniquely at positions 6-14 in a 20-bp DNA sequence containing the adenovirus major late promoter.     

Natural‐Product Sugar Biosynthesis and Enzymatic Glycodiversification

Many biologically active small‐molecule natural products produced by microorganisms derive their activities from sugar substituents. Changing the structures of these sugars can have a profound impact on the biological properties of the parent compounds. This realization has inspired attempts to derivatize the sugar moieties of these natural products through exploitation of the sugar biosynthetic machinery. This approach requires an understanding of the biosynthetic pathway of each target sugar and detailed mechanistic knowledge of the key enzymes. Scientists have begun to unravel the biosynthetic logic behind the assembly of many glycosylated natural products and have found that a core set of enzyme activities is mixed and matched to synthesize the diverse sugar structures observed in nature. Remarkably, many of these sugar biosynthetic enzymes and glycosyltransferases also exhibit relaxed substrate specificity. The promiscuity of these enzymes has prompted efforts to modify the sugar structures and alter the glycosylation patterns of natural products through metabolic pathway engineering and enzymatic glycodiversification. In applied biomedical research, these studies will enable the development of new glycosylation tools and generate novel glycoforms of secondary metabolites with useful biological activity.     

Sugar/steroid/sugar conjugates: sensitivity of lipid binding to sugar structure

[structure: see text]. Three steroids, each bearing a sugar on rings A and D, have been synthesized. Their effect on the "melting" behavior of a lipid bilayer depends on whether the sugar is glucose, galactose, or mannose. Packing constraints dictate how the lipid bilayer responds to the sugars.     

INAA and AAS of different products from sugar cane industry in Pakistan: Toxic trace elements for nutritional safety

Instrumental neutron activation analysis (INAA) have been used to determine As, Br, Hg, Sb and Se in combination with atomic absorption spectrometry (AAS) as a complementary technique for the quantification of Cd and Pb in jaggery, brown sugar, white sugar and molasses. All sugar cane products were collected from the local sugar cane industry of Pakistan. The highest concentration of these potentially toxic elements was quantified in molasses; however, molasses together with jaggery, brown sugar and white sugar contains trace amounts of all of these elements. Due to very low concentration of Cd it could only be detected in molasses. To evaluate the percentage contribution of these elements in the sugar cane products to the weekly recommended values, intakes on weekly consumption of 100 g of each item have also been calculated which follow the pattern Br>Se>Pb>Hg>As>Sb. The elevated Br contents may be attributed to the use of Br-containing chemicals for fumigation; however, these contents are well within the tolerance levels. The estimated weekly intake of all toxic elements is very low indicating that sugar cane products can be safely ingested as part of the diets.     

Electrodeless Piezoelectric Quartz Crystal Sensor for Determination of Total Urinary Reducing Sugar

A glucose-sensing system was developed in which an electrodeless piezoelectric quartz crystal was used to measure mass changes on the surface of a quartz plate during the reduction of Ag(NH₃)⁺₂ by glucose. A satisfactory correlation was obtained between the frequency shift and the glucose concentration in the range 1.0–25 mM, and the total reducing sugar in urine was determined. Treatment with 8 M nitric acid after each measurement was effective for cleaning the quartz surface, and the electrodeless piezoelectric quartz crystal sensor possessed excellent reproducibility and reusability during repeated use over 400 times. For the determination of total reducing sugar in urine (or blood), the present method can avoid the interferences occurring in a colorimetric method such as the color and turbidity of clinical specimens.     

Synthesis of new peptidic glycoclusters derived from β-alanine

The synthesis of an asymmetric glycocluster 1 has been achieved by coupling of a sugar unit with the β-alanine polypeptide, the principal chain, and combining a carbohydrate chain with the side chain causing it to branch from the N terminal. The synthesis of this side chain multivalent ligands is based on the scaffolding of some ω-amino acid (glycine, β-alanine, and GABA) derivatives. This method facilitated the synthesis of the cluster, of which the length of each unit differs.     

Synthesis of D‐Desosamine and Analogs by Rapid Assembly of 3‐Amino Sugars

D ‐Desosamine is synthesized in 4 steps from methyl vinyl ketone and sodium nitrite. The key step in this chromatography‐free synthesis is the coupling of (R)‐4‐nitro‐2‐butanol and glyoxal (trimeric form) mediated by cesium carbonate, which affords in crystalline form 3‐nitro‐3,4,6‐trideoxy‐α‐D ‐glucose, a nitro sugar stereochemically homologous to D ‐desosamine. This strategy has enabled the syntheses of an array of analogous 3‐nitro sugars. In each case the 3‐nitro sugars are obtained in pure form by crystallization.     

Analogues de la showdomycine à activité antitumorale

Antitumor showdomycin analogues A series of 3-glycosylidenesuccinimides ( 3 ) and 3-glycosylidene-1-phenyl-succinimides ( 5 ) have been prepared in good yields using a Wittig reaction. In each case, the preponderant, or even the exclusive, isomer formed was E. As expected from orbital considerations, the contribution to the conformational equilibrium of the rotamer whose H? C (γ) and H? C(δ) bonds were antiparallel was low. One of these succinimide derivatives 3a showed interesting anticancer activity, similar to that of the sugar enone C. These compounds probably act as somewhat selective alkylating agents.     

Differentiation of the Stereochemistry and Anomeric Configuration for 1-3 Linked Disaccharides Via Tandem Mass Spectrometry and <Superscript>18</Superscript>O-labeling

Collision-induced dissociation (CID) of deprotonated hexose-containing disaccharides (m/z 341) with 1–2, 1–4, and 1–6 linkages yields product ions at m/z 221, which have been identified as glycosyl-glycolaldehyde anions. From disaccharides with these linkages, CID of m/z 221 ions produces distinct fragmentation patterns that enable the stereochemistries and anomeric configurations of the non-reducing sugar units to be determined. However, only trace quantities of m/z 221 ions can be generated for 1–3 linkages in Paul or linear ion traps, preventing further CID analysis. Here we demonstrate that high intensities of m/z 221 ions can be built up in the linear ion trap (Q3) from beam-type CID of a series of 1–3 linked disaccharides conducted on a triple quadrupole/linear ion trap mass spectrometer. ¹⁸O-labeling at the carbonyl position of the reducing sugar allowed mass-discrimination of the “sidedness” of dissociation events to either side of the glycosidic linkage. Under relatively low energy beam-type CID and ion trap CID, an m/z 223 product ion containing ¹⁸O predominated. It was a structural isomer that fragmented quite differently than the glycosyl-glycolaldehydes and did not provide structural information about the non-reducing sugar. Under higher collision energy beam-type CID conditions, the formation of m/z 221 ions, which have the glycosyl-glycolaldehyde structures, were favored. Characteristic fragmentation patterns were observed for each m/z 221 ion from higher energy beam-type CID of 1–3 linked disaccharides and the stereochemistry of the non-reducing sugar, together with the anomeric configuration, were successfully identified both with and without ¹⁸O-labeling of the reducing sugar carbonyl group.