Synthesis of 1,4-Anhydro-2-deoxy-D-ribitol Derivatives from Thymidine

Abstract

1,2-Dideoxyribose 5-O-succinate, a component of solid support employed in the synthesis of ribozymes, was synthesized from thymidine. The key step was elimination of nucleobase from 2 to afford glycal 3. A number of catalysts for this reaction were tested, resulting in improved and scaleable synthesis. Hydrogenation of the resulting glycal afforded 1,2-dideoxyribose derivative 4 in a high yield.     

Synthesis of methyl alpha-L-vancosaminide

The synthesis of methyl alpha-L-vancosaminide from di-O-acetyl-L-rhamnal is described. The allylic alcohol methyl 2,3,6-trideoxy-3-C-methyl-alpha-L-threo-hex-2-enopyranoside was prepared from the glycal, 1,5-anhydro-1,2,6-trideoxy-3-C-methyl-L-ribo-hex-1-enitol, and converted to its N,N-dimethylisourea derivative. The cis amino alcohol functionality in vancosamine was introduced by the electrophilic cyclization of the isourea, followed by hydrolysis of the resulting oxazoline.     

A common sugar as model for many-sided natural product modification. From D-fructose via Dtagatose to 2-C-chlorodifluoro-methylated D-arabinopyranos-5-ulose derivatives

Starting with 3,4-O- [(R)-2,2,2-trichloroethylidene]-1,2-O-isopropylidene- beta-D- tagatopyranose 2 obtained from 1,2-O-isopropylidene-beta-D-fructopyranose 1 by a non-classical one-step acetalization with chloral/DC~, the fluoroalkylated glyeosyl donors 15 and 17 were synthesised in 3~4 steps. By this sequence, one stereogenic center was inverted, one new chiral center was introduced, and one stereogenic center, for the time being eliminated, was later re-introduced. The glycals 11 and 12, key intermediates of the synthesis sequence, were accessible from triflate precursors (e. g., 10) by treatment with DBU. Corresponding halogeno-(6,7), tosyl-(5, 8), or mesyl-(9) precursors were unsuitable. The stereaselective introduction of a chlorodifluoromethyl group was realised by dithionite-mediated CF2C1Br-addition to the glycal double bond. Subsequently, either the chlorodifluoromethylated glyeosyl bromide (13) or the corresponding pyraneses (14 and 16) were isolated. The latter were still acetylated to the 1-O-acetyl derivatives 15 and 17, respectively. An x-ray analysis is given for the 5-O-tosylate 8.     

Unexpected formation of glycals upon attempted C-alkylation of protected glycosylacetylenes

Treatment of 3,7-anhydro-4,5,6,8-tetra-O-benzyl-1,2-dideoxy-D-glycero-D-galacto-oct-1 -ynitol (beta-D-mannosyl acetylene, 1) with 5 equivalents of n-butyllithium at either 0 or -78 degrees C resulted in the elimination of benzyl alcohol to yield 3,7-anhydro-5,6,8-tri-O-benzyl-1,2,4-trideoxy-D-arabino-oct-3-en-1-yn itol (glycal acetylene, 3) as the major product. Additional studies showed that 3 is also produced from two isomers of 1 with alpha-D-mannosyl and beta-D-glucosyl stereochemistry, but in lower yields. Furthermore, substrates in which the acetylene moiety is replaced by either a methyl or phenyl group do not produce a glycal product under these conditions. Finally, treatment of 1 with phenyllithium provides 3 in low yield. Deuterium labeling studies suggest that the reaction proceeds through an E2, rather than an E1cB, mechanism.     

Reactions of phenyl and ethyl 2-O-sulfonyl-1-thio-α-d-manno- and β-d-glucopyranosides with thionucleophiles

Persubstituted derivatives of phenyl and ethyl 2-O-sulfonyl-1-thio-α-d-manno- and β-d-glucopyranosides were synthesized and reacted either with PhSNa or with MeSNa. The phenyl-1-thio compounds afforded the dithio-1,2-cis-axial/equatorial-α-d-glucopyranosides or dithio-1,2-cis-equatorial/axial-β-d-mannopyranosides by means of S_N2 type of reactions. Starting from the ethyl-1-thio derivatives intramolecular 1,2-thio-migration took place predominantly. In the case of mannosides both nucleophilic reagents facilitate the formation of 1-SPh- or 1-SEt glycals by elimination. The formation of unsubstituted glycal could also be observed from the ethyl-1-thio derivatives, especially by using PhSNa as a nucleophile. The 1,2-dithio-glycosides are glycosyl donors affording 1,2-trans-2-thio-glycosides.     

A short, efficient synthesis of 2'-deoxypseudoisocytidine based on Heck-chemistry

A novel synthesis of 2'-deoxypseudoisocytidine as well as of its phosphoramidite building block for oligonucleotide synthesis is presented. The synthesis is based on Heck-coupling between N-protected pseudoisocytosine and a silyl protected furanoid glycal. With this procedure the corresponding phosphoramidite building block is obtained in 5 steps and an overall yield of 28%.     

A Short,Efficient Synthesis of 2′-Deoxypseudoisocytidine Based on Heck-Chemistry

Abstract

A novel synthesis of 2′-deoxypseudoisocytidine as well as of its phosphoramidite building block for oligonucleotide synthesis is presented. The synthesis is based on Heck-coupling between N-protected pseudoisocytosine and a silyl protected furanoid glycal. With this procedure the corresponding phosphoramidite building block is obtained in 5 steps and an overall yield of 28%.     

Synthesis of a phenyl beta-avobioside derivative of the disaccharide component of avoparcins.

The synthesis of the phenyl beta-glycoside of avobiose, a disaccharide fragment present in the antibiotic avoparcin, is reported. It is based on glycosylation of phenyl 3,4,6-tri-O-benzyl-beta-D-glucopyranoside with 2,3,6-trideoxy-4-O-p-nitrobenzoyl-3-trifluoroacetamido-L-ribo-hex- 1-enitol, a fully protected glycal of L-ristosamine, in the presence of trimethylsilyl triflate.     

Mannosyltransfer reactions in rabbit liver microsomes

Rabbit liver microsomes catalyzed mannosyltransfer from GDP-[14C]mannose to free $\text{D}$-mannose resulting in the synthesis of α-1,2-, α-1,3-, and α-1,6-mannosyl-mannose. Whereas formation of α-1,2-mannosyl-mannose was stimulated by the addition of manganese chloride or nickel chloride and was inhibited by EDTA, synthesis of α-1,3-mannosyl-mannose was unaffected by manganese or EDTA and was inhibited by nickel. Formation of α-1,6-mannosyl-mannose appeared to be stimulated by manganese and inhibited by nickel. These results suggest that three different mannosyltransferases were involved in the synthesis of mannosyl-mannose glycosidic linkages in rabbit liver.     

Synthesis of the trisaccharide portion of soyasaponin beta g: evaluation of a new glucuronic acid acceptor

The synthesis of the trisaccharide portion of soyasaponin beta g was successfully achieved using a new glucuronic acid acceptor: methyl 1-O-allyl-3,4-di-O-methoxymethyl-beta-D-glucuronate (9). This compound and methyl 1-O-allyl-3,4-di-O-tert-butyldimethylsilyl-beta-D-glucuronate (8) were both prepared from glucuronolactone via a glycal intermediate. The former compound 9 was successfully coupled to ethyl 2-O-benzoyl-3,4,6-tri-O-benzyl-1-thio-beta-D-galactopyranoside (13) in excellent yield. Synthesis of the protected trisaccharide was then completed by the addition of a suitably protected rhamnose derivative to the disaccharide portion. The reactivity of the glucuronic acid derivative 9 was also explored with trichloroacetimidate and fluoride donors.     

Synthesis of 1,2-diacyloxypropyl-3-(1′,2′-diacyl-sn-glycero)-phosphonate

The total synthesis of 1,2-diacyloxypropyl-3-(1′,2′-diacyl-sn-glycero)phosphonate is described. The 1,2-dipalmitoyloxypropyl phosphonic acid was prepared by an Arbusov reaction of 1,2-diacylglycerol bromohydrin with trimethyl phosphite; the final product was obtained by a coupling reaction involving the diacyloxypropyl-3-phosphonic acid and 1,2-dipalmitoyl-sn-glycerol, catalysed by tri-isopropylbenzene sulfonyl chloride. The resulting synthetic product was characterised by elemental analysis, phosphono-phosphorus determinations and IR spectroscopy.     

Preparation of various C-2 branched carbohydrates using intramolecular radical reactions

A new and efficient method for the facile synthesis of C-2 branched carbohydrates has been developed using an intramolecular radical cyclization fragmentation reaction. The desired C-2 branched glucopyranosides were isolated in 40-84% yield. Additionally, an unexpected furanoside was obtained from a tributyltin iodide-promoted rearrangement of the radical intermediate. The C-2 formyl glycal was also isolated in good yield using tris(trimethylsilyl)silane (TTMSS) as the reducing agent. This method was extended to synthesize a beta C-2 branched glucopyranoside, a C-2 branched galactoside and a C-2 cyano glucopyranoside.     

Stereodivergent synthesis of diastereoisomeric carba analogs of glycal-derived vinyl epoxides: a new access to carbasugars

A convenient method for the stereoselective synthesis of diasteroisomeric vinyl epoxides (-)-2α and (-)-2β, the carba analogs of D-galactal and D-allal-derived vinyl epoxides 1α and 1β, has been elaborated starting from tri-O-acetyl-D-glucal. The key step of this synthesis is an application of the known Claisen thermal rearrangement of a glucal derivative, the vinyl allyl ether (+)-3b, which allows to switch the glycal structure into the corresponding carba analog scaffold. Epoxides (-)-2α and (-)-2β derive from the same synthetic intermediate, the trans diol (+)-5.     

Chemical mechanism and specificity of the C5-mannuronan epimerase reaction

C5-mannuronan epimerase catalyzes the formation of alpha-L-guluronate residues from beta-D-mannuronate residues in the synthesis of the linear polysaccharide alginate. The reaction requires the abstraction of a proton from C5 of the residue undergoing epimerization followed by re-protonation on the opposite face. Rapid-mixing chemical quench experiments were conducted to determine the nature of the intermediate formed upon proton abstraction in the reaction catalyzed by the enzyme from Pseudomonas aeruginosa. Colorimetric and HPLC analysis of quenched samples indicated that shortened oligosaccharides containing an unsaturated sugar residue form as transient intermediates in the epimerization reaction. This suggests that the carbanion is stabilized by glycal formation, concomitant with cleavage of the glycosidic bond between the residue undergoing epimerization and the adjacent residue. The time dependence of glycal formation suggested that slow steps flank the chemical steps in the catalytic cycle. Solvent isotope effects on V and V/K were unity, consistent with a catalytic cycle in which chemistry is not rate-limiting. The specificity of the epimerase with regard to neighboring residues was examined, and it was determined that the enzyme showed no bias for mannuronate residues adjacent to guluronates versus those adjacent to mannuronates. Proton abstraction and sugar epimerization were irreversible. Existing guluronate residues already present in the polysaccharide were not converted to mannuronates, nor was incorporation of solvent deuterium into existing mannuronates observed.     

Lyase activity of nucleoside 2-deoxyribosyltransferase: transient generation of ribal and its use in the synthesis of 2'-deoxynucleosides

In the absence of acceptors nucleoside 2-deoxyribosyltransferase catalyzes the slow hydrolysis of 2'-deoxynucleosides. During this hydrolytic reaction, D-ribal (1,4-anhydro-2-deoxy-D-erythro-pent-1-enitol), a glycal of ribose hitherto encountered only as a reagent in organic synthesis, is generated spontaneously, disappearing later as 2'-deoxynucleoside hydrolysis approaches completion. Nucleoside 2-deoxyribosyltransferase is found to catalyze the hydration of D-ribal in the absence of nucleic acid bases and the synthesis of deoxyribonucleosides from ribal in their presence, affording a new method for the preparation of 2'-deoxyribonucleosides. The stereochemistry of nucleoside formation from ribal supports the intervention of deoxyribosyl-enzyme intermediate. The equilibrium constant for the covalent hydration of ribal is found to be approximately 65.     

Stereochemistry of D-galactal and D-galacto-octenitol hydration by coffee bean alpha-galactosidase: insight into catalytic functioning of the enzyme.

Green coffee bean alpha-galactosidase was found to catalyze the hydration of D-galactal and (Z)-3,7-anhydro-1,2-dideoxy-D-galacto-oct-2-enitol (D-galacto-octenitol), each a known substrate for beta-galactosidase. The hydration of D-galactal by the alpha-galactosidase in D2O yielded 2-deoxy-2(S)-D-[2-2H]galactose; the hydration of D-[2-2H]galacto-octenitol in H2O yielded 1,2-dideoxy-2(R)-D-[2-2H]galactooct-3-ulose. Thus, the enzyme protonated each substrate from beneath the plane of the ring, as assumed for alpha-D-galactosides. These results provide an unequivocal assignment of the orientation of an acidic catalytic group to the alpha-galactosidase reaction center. In addition, they reveal a pattern of glycal/exocyclic enitol/glycoside protonation by the enzyme that differs from the pattern reported for beta-galactosidase and from that reported for alpha-glucosidases. Further findings show that D-galacto-octenitol is hydrated by the coffee bean alpha-galactosidase to form the alpha-anomer of 1,2-dideoxy-D-galactooctulose and by Escherichia coli beta-galactosidase to form the beta-anomer. That each enzyme converts this enolic substrate to a product whose de novo anomeric configuration matches that formed from its D-galactosidic substrates provides new evidence for the role of protein structure in controlling the steric outcome of reactions catalyzed by these and other glycosylases. The findings are discussed in light of the concept that catalysis by glycosidases involves a "plastic" protonation phase and a "conserved" product configuration phase.     

Synthesis of bis(diacyloxypropyl) phosphinate

The total synthesis of bis(diacyloxypropyl)phosphinate is described. The required 1,2-dipalmitoyloxypropyl phosphonic acid dimethyl ester was prepared by an Arbusov reaction (Arbusov, J. Russ. Phys. Chem. Soc., 38 (1906) 687–718) of 1,2-dipalmitoylglycerol bromohydrin and trimethyl phosphite; the final product was obtained by heating 1,2-dipalmitoyloxypropyl phosphonic acid dimethyl ester with 1,2-diacylglycerol bromohydrin to 175°C for 72 h. The resulting synthetic product was characterised by elemental analysis, phosphonophosphorus determinations and IR spectroscopy.     

One-pot-synthesis of α-linked deoxy sugar trisaccharides

Various α-linked 2,6-dideoxy-ribo-trisaccharides, models for part of the antibiotic kijanimicin, were synthesised by the N-iodosuccinimide method employing different pathways. The efficiency of a sequential synthesis suffered from side reactions of the axial HO-3, which are typical of digitoxosides. These problems did not arise in a straightforward polymerisation, performed as a one-pot-procedure. It afforded the trisaccharide directly from the monosaccharide precursor in 30% yield. A combination of the oligomerisation pathway and the sequential synthesis led to trisaccharides with different protecting group patterns. In these reactions different glycal and alcohol components were used and allowed to define the optimal partners in a sequential synthesis: the two components should ideally be of comparable reactivity.     

1,2-di-O-acetyl-5-O-benzoyl-3-deoxy-L-erythro-pentofuran ose, a convenient precursor for the stereospecific synthesis of nucleoside analogues with the unnatural beta-L-configuration

The title compound 1,2-di-O-acetyl-5-O-benzoyl-3-deoxy-L-erythro-pentofuranose (5), a useful precursor for the stereospecific synthesis of beta-L-nucleoside analogues as potential antiviral agents, has been synthesised by a multi-step reaction sequence from L-xylose with a 38% overall yield. The preparation involved conversion of L-xylose to 1,2-O-isopropylidene-alpha-L-xylofuranose which, upon selective 5-O-benzoylation and subsequent radical deoxygenation, provided the protected 3-deoxy sugar derivative. Finally, cleavage of the acetonide group gave the resulting 5-O-benzoyl-3-deoxy-L-erythro-pentose which was acetylated to afford crystalline alpha,beta-5.     

The synthesis and biological evaluation of novel bridging nucleoside analogues.

Novel bridging nucleoside analogues were prepared by cycloaddition reactions between pyranose glycals and barbiturate-derived, reactive thionoimides in modest yields. In all of the reactions conducted, the major cycloadducts obtained were the bottom faced adducts resulting from endo addition to the glycal. The adducts were stable to a variety of acidic reaction conditions and several of the compounds showed moderate activities against HIV-1 in primary human lymphocytes. One compound displayed anti-herpes simplex virus type-1 activity in Vero cells. Cytotoxicity measurements were also obtained.