Sulfur Isosteres of Orotidine

Abstract

The preparation of 6 substituted pyrimidine nucleosides has received limited attention and undoubtedly reflects the difficulty in synthesizing nucleosides of this type. Condensation of & substituted pyrimidines with suitable sugar derivatives leads to the formation of mixtures of N3 and N1 nucleosides where the N3 isomer usually predominates₁. This is exemplified by the direct ribosylation of the silyl derivative of 6-methyl-thiouracil, which furnished only the N3 ribonucleoside². Ueda and coworkers' adcfessed this problem with moderate success. When 5′- O-acetyl-2′,3′-O-isopropylidine5bromouridine c1) was reacted with cyan- ide ion, a Michael-type addition occurred at C6 with concomitant dehycfo- brominatim to give the corresponding Gcyanowidine in quantitative yield. Treatment of 1(Scheme 1) with benzyl mercaptan, however furnished a 1:1 mixture of the C6 and C5 isomers 2 and 3 grespectively⁴. Attempts to alter the course of this reaction so that 2 predominated met with little success. It is worth mentioning that in ouFhands when this reaction was scaled-up, 3 predominated (2:3=1:4). Also the use of other sulfur nucleophiles, such as SEt, afforded only the C5-substituted derivative³. Thus, a new synthetic approach was sought which would furnish only the desired C6-substituted isomer and in reasonable yield.     

On the conformational dependence of the proton chemical shifts in nucleosides and nucleotides. II. Proton shifts in the ribose ring of purine nucleosides as a function of the torsion angle about the glycosyl bond

The variations of the ring current, the local diamagnetic susceptibility anisotropy and the polarization contributions to the chemical shift of the non exchangeable protons of the ribose ring of purine nucleosides are computed as a function of the torsion angle about the glycosyl bond, χ_CN. The results show that the ring current effect is relatively more important in the purines than in the pyrimidines. In addition, N₃ of purines has a local magnetic anisotropy effect similar to the one of the carbonyl group C₂O₂ of pyrimidine nucleosides. The experimental differences between the chemical shift of the ribose protons of purine nucleosides and of 8 substituted derivatives are discussed in relation to the theoretical variations.     

STEREOSELECTIVE SYNTHESIS OF NOVEL THIOISO DIDEOXY NUCLEOSIDES WITH EXOCYCLIC METHYLENE AS POTENTIAL ANTIVIRAL AGENTS

Novel thioiso pyrimidine and purine nucleosides substituted with exocyclic methylene have been synthesized, starting from D-xylose. Cyclization of the dimesylate to the 4-thiosugar 6a proceeded in pure S_N2 reaction in the presence of allylic functional group.     

Stabilities and 1H NMR studies of (diethylenetriamine)Pd(II) and (1,1,4,7,7-pentamethyldien)Pd(II) with nucleosides and related ligands

Plots of stability constant logarithms versus pK_a for dienPd²⁺ binding to a variety of nitrogen heterocycles yield straight lines, all of 0.67 slope. Points for binding at pyridine like purine N1 and pyrimidine N3 nitrogens in nucleosides and 5′-mononucleotides fall on a single straight line. The base line for binding at imidazole like purine N7 nitrogens is 0.8 log units stronger than for N1 binding. N7 binding to purine bases with a 6-oxo group is enhanced by 1.6 log units above the N7 base line. The presence of a 5′-phosphate group enhances N7 binding (but not N1 binding) by 0.5–0.7 log units. Weaker binding occurs with pmdienPd²⁺ and the straight line slopes are 0.79. The N7 base line rises 1.2 log units above the N1 line. Presence of the 6-oxo group enhances pmdien binding by 2.3 units ruling out a significant coordinated dien hydrogen bond to the 6-oxo group. There is no enhancement of pmdienPd²⁺ binding to N7 due to the 5′-phosphate of nucleotides. This result suggests that the 0.5–0.7 log unit enhancement for dienPd²⁺ is due to a hydrogen bond from coordinated dien to the phosphate. Due to the terminal methyl groups, rotation of pyrimidines, benzimidazole, and purines is restricted in pmdienPd²⁺ complexes and two rotamers are evident in proton magnetic resonance spectra. With benzimidazole and purine nucleosides and 5′-nucleotides there is an approximately 2:1 mole ratio of the two rotamers. Nuclear Overhauser effect experiments and chemical shift analysis permit identification of all peaks for pmdien methyl groups and aromatic ring protons.     

FUNCTIONALIZATION OF PYRIMIDINE AND PURINE NUCLEOSIDES AT C4 AND C6: C-NUCLEOPHILIC SUBSTITUTION OF THEIR C4- AND C6-(1,2,4-TRIAZOL-1-YL) DERIVATIVES

A study of C-nucleophilic substitution at the C4-position on pyrimidine and C6-position on 2′-deoxyguanosine to produce novel nucleosides is presented with the spectroscopic properties of their respective substitution products. C4-(1,2,4-triazol-1-yl) pyrimidine nucleosides 1 were treated with nitroalkanes, malononitrile, acetylacetone, ethyl nitroacetate, acetoacetate and cyanoacetate at 100°C in dioxane in the presence of DBU resulting in the production of novel nucleosides 2–11. To explore the application of this methodology to purine chemistry, this approach was used to produce novel analogs from 2′-deoxyguanosine. We found that the triazolo derivative 12 undergoes C-nucleophilic substitution with nitromethane, malononitrile, acetylacetone, ethyl nitroacetate and cyanoacetate in the presence of potassium carbonate (K₂CO₃) in DMF at 100°C to give novel nucleosides 13–7.     

New light on tautomerism of purines and pyrimidines and its biological and genetic implications

The tautomerism of the natural 1-substituted pyrimidines and 9-substituted purines found in nucleic acids has been re-examined in the light of new experimental data on various nitrogen heterocycles in solution, in the gas phase and, in part, in low-temperature inert matrices. The results are compared with those obtained by quantum chemical calculations, including improved versions of the latter. Examples are presented of natural nucleosides which exhibit appreciable tautomerism in solution,e.g. formycins A and B, isoguanosine, but are not found in DNA. Illustrations are given of synthetic promutagenic nucleosides with pronounced tautomerism in solution relevant to their role in mutagenesis, such as the N⁴-hydroxy-and N⁴-methoxy cytidines. The amino-imino tautomeric equilibria of the promutagenic N⁶-hydroxy-and N⁶ -methoxy-adenosines are highly dependent on the solvent medium, the proportion of the imino species varying from 10% in CCl₄ to 90% in aqueous medium. The type of base pairing of these is dependent on the conformation of the exocyclic hydroxy or methoxy groups. At the monomer level, addition of a potentially complementary base leads to a shift in the tautomeric equilibrium in favour of the species which pairs with this base. Biological and genetical implications of the foregoing are described.     

A Convenient Synthesis of D-Psicofuranosyl Nucleosides1

Abstract

As part of our studies on the synthesis of conformationally restricted nucleosides of types 1 and 2, where X = CH₂, O or S, we required access to differentially substituted D-psicofuranosyl nucleosides such as 3. As shown in the table, we have developed a convenient approach to such compounds that depends on the direct condensation of the 1,2:3,4-di-O-isopropylidene-β-D-psicofuranose derivative 4 with an appropriate silylated purine or pyrimidine base.² Although the α and β anomers of 3 are formed in a 1:1 ratio, the yields of the β anomers are generally comparable with earlier condensation methods that use psicofuranosyl- halide², 2-benzoates⁴ or 2-nitro derivative⁵. However, the present method has the advantage that the starting sugar 4 is more readily accessible. The precursor 6′-alcohol can be prepared in very large amounts from D-fructose using the method of Prisbe et al.⁴     

Regulation of pyrimidine biosynthesis by purine and pyrimidine nucleosides in slices of rat tissue

Evidence of the primary sites for the regulation of de novo pyrimidine biosynthesis by purine and pyrimidine nucleosides has been obtained in tissue slices through measurements of the incorporation of radiolabeled precursors into an intermediate and end product of the pathway. Both purine and pyrimidine nucleosides inhibited the incorporation of [¹⁴C]-NaHCO₃ into orotic acid and uridine nucleotides, and the inhibition was found to be reversible upon transferring the tissue slices to a medium lacking nucleoside. The ammonia-stimulated incorporation of [¹⁴C]NaHCO₃ into orotic acid, which is unique to liver slices, was sensitive to inhibition by pyrimidine nucleosides at physiological levels of ammonia, but this regulatory mechanism was lost at toxic levels of ammonia. Adenosine, but not uridine, was found to have the additional effects of inhibiting the conversion of [¹⁴C]orotic acid to UMP and depleting the tissue slices of PRPP. Since PRPP is required as an activator of the first enzyme of the de novo pathway, CPSase II, and a substrate of the fifth enzyme, OPRTase, these results indicate that adenosine inhibits the incorporation of [¹⁴C]NaHCO₃ into orotic acid and the incorporation of [¹⁴C]orotic acid into UMP by depriving CPSase II and OPRTase, respectively, of PRPP. Uridine or its metabolites, on the other hand, appear to control the de novo biosynthesis of pyrimidines through end product inhibition of an early enzyme, most likely CPSase II. We found no evidence of end product inhibition of the conversion of orotic acid to UMP in tissue slices.     

Dicarbonylrhodium(I) complexes of 8-azaadenine bases with N1 or N3 as metal binding sites

Reaction of [Rh(CO)₂Cl]₂ with the bases 8-aza-9-methyladenine (MAAd) and 8-aza-9-benzyladenine (BAAd) yields the complexes [RhCl(CO)₂(MAAd)] (1) and [RhCl(CO)₂(BAAd)] (2), which were characterized by their IR and ¹H NMR spectra and by X-ray structural analyses. Whereas N1 of the pyrimidine ring is coordinated by rhodium in 1, N3 is the chosen position for 2 (purine numbering scheme). This finding is in accordance with MNDO calculations which indicate that N1 and N3 of the pyrimidine ring should complete as metal binding sites in N9-substituted 8-azaadenines. The rhodium(I) coordination plane is twisted with respect to the base ring system to dihedral angles of respectively 62.6° and 68.4° in 1 and 2. The relevance of the present findings for the biological properties of 8-azaadenine nucleosides is discussed.     

Formation of l-Butyl-5-hydroxy-methylpyrrole-2-carboxaldehyde in the Maillard Reaction between Lactose and n-Butylamine

A new mutant Shm^r-001-1 has been isolated by treating showdomycin-resistant mutant Shm^r-001 cells with N-methyl-N′-nitro-N-nitrosoguanidine. This mutant was resistant to high level of showdomycin, and took up practically no showdomycin and little pyrimidine nucleosides, and it showed different ability to take up purine nucleosides. Strains Shm^r-001–1, Shm^r-001, and K–12 (wild type) were compared: in susceptibility to showdomycin, in ability to take up the antibiotic and various nucleosides, on effects of other nucleosides on entry of particular nucleosides, and on kinetics of the entry of nucleosides and showdomycin. From these experiments, at least three different nucleoside transport systems were observed in Escherichia coli K–12 cells: the first system was common to adenine nucleosides, pyrimidine nucleosides, and showdomycin; the second system was common to adenine nucleosides, guanine nucleosides, inosine, pyrimidine nucleosides, and showdomycin; and the third system was common to adenine nucleosides, guanine nucleosides, and inosine. The first system was not observable in Shm^r-001 cells. In Shm^r-001–1 cells both the first and the second systems were no longer detectable but the third system was found to be active.     

4′- C -Methyl-β-D-ribofuranosyl Purine and Pyrimidine Nucleosides Revisited

Abstract

In order to evaluate their antiviral properties, a series of 4′-C-methyl-β-D-ribofuranosyl purine and pyrimidine nucleosides has been prepared. Unfortunately, none of these 4′-branched nucleosides showed any antiviral activity or cytotoxcity when tested against HIV, HBV, and Yellow Fever virus.     

CRYSTAL STRUCTURE OF 1,3,5-TRIMETHYL-N4-HYDROXYCYTOSINE,AND ITS RELEVANCE TO THE MECHANISM OF HYDROXYLAMINE MUTAGENESIS

Abstract

1,3,5-Trimethyl-N⁴-hydroxycytosine, an analogue of the promutagenic N⁴-hydroxycytosine and 5-methyl-N⁴-hydroxycytosine nucleosides, crystallizes in the monoclinic space group P 2₁/n with cell dimensions at ?147°C: a = 7.1481(7), b = 9.2565(5), c = 13.3086(12) Å, β = 97.90(2)°, V = 872.24(13) ų, ρ_c = 1.426 Mg m^?3, Z = 4, F(000) = 401.39, μ = 0.91 mm^?1, λ(Cu) = 1.54056 Å, 20(max) = 139.3°. The crystal structure has been solved by X-ray difraction and refined to R = 3.7 % for 1457 reflections. Notwithstandin the steric hindrance imposed by methyl groups at both N(3) and C(5), the exocyclic N⁴-OH group is located essentially in the plane of the ring, giving rise to an “overcrowded” molecule, like that of 1,5,N⁴,N⁴-tetramethylcytosine. The conformational parameters have also been compared with those of a number of related and previously reported N(1)-substituted cytosines. In the present compound the N⁴-OH rotamer is in the anti conformation relative to the ring N(3), hence similar to that of one of the rotamers in N(1)-substituted N⁴-hydroxycytosine, which permits normal Watson-Crick base pairing of the latter, relevant to the mechanism of hydroxylamine mutagenesis.     

Synthesis of Some 2′,3′-Dideoxy-3′-C-Fluoromethyl and 3′-C-Azidomethyl Nucleosides

Abstract

The synthesis of 3′-C-fluoromethyl and 3′-C-azidomethyl nucleosides is reported. The 3′-C-fluoromethyl furanoside 4 was synthesized via fluoride ion induced displacement of the corresponding trifluoromethanesulfonate. The 3′-C-hydroxymethyl furanoside 3 was converted to the corresponding 3′-C-azidomethyl furanoside 6 using triphenylphosphine-carbon tetrabromide-lithium azide. The 3′-C-fluoromethyl furanoside derivative 5 and the 3′-C-azidomethyl furanoside derivative 7 were subsequently condensed with silylated purine and pyrimidine bases. Deblocking and separation of the anomers by chromatography afforded the α- and β-nucleoside analogues. The nucleosides were tested for inhibition of HIV multiplication in vitro and were found to be inactive in the assay.     

A Functional Screening of Adenosine Analogues at the Adenosine A2B Receptor: A Search for Potent Agonists

Abstract

Various adenosine analogues were tested at the adenosine A_2B receptor. Agonist potencies were determined by measuring the cyclic AMP production in Chinese Hamster Ovary cells expressing human A_2B receptors. 5′-.N-Substituted carboxamidoadenosines were most potent. 5′-N-Ethylcarboxamidoadenosine (NECA) was most active with an ECso value of 3.1 μM. Other ribose modified derivatives displayed low to negligible activity. Potency was reduced by substitution on the exocyclic amino function (N⁶) of the purine ring system. The most active N⁶-substituted derivative N⁶-methyl-NECA was 5 fold less potent than NECA. C8-and most C2-substituted analogues were virtually inactive. 1-Deaza-analogues had a reduced potency, 3-and 7-deazaanalogues were not active.     

Synthesis of Bridged Pyrimidine Nucleosides and Triazo [4, 3-c] Pyrimidine Nucleoside Analogues

Abstract

The synthesis and the spectral characterization of a number of N⁴-N⁴ bridged pyrimidine nucleosides and triazo [4, 3-c] pyrimidine nucleoside analogues are reported.     

Conformationally Restricted 2-Substituted Wyosine Derivatives. 1H, 13C,and 15N NMR Study

Abstract

It was found by ¹H, ¹³C and ¹⁵N NMR study that substitution of 4,9-dihydro-4, 6-dimethyl-9-oxo-3-(2′,3′,5′-tri-O-acetyl-β-D-ribofuranosyl) imidazo [1,2-a]purine (wyosine triacetate, 1) at C2 position with electronegative groups CH₃O and C₆H₅CH₂O results in a noticeable electron distribution disturbance in the “left-hand” imidazole ring and a significant increase in the North conformer population of the sugar moiety.     

Anticytokinin activity of 4-substituted triazolo[4,5-d]pyrimidines and 4-substituted pyrazolo[3,4-d]pyrimidines

The synthesis and physiological activity of some novel 4-substituted triazolo[4,5-d]pyrimidines and 4-substituted pyrazolo[3,4-d]pyrimidines are described. Most of the compounds possessed high anticytokinin activity towards purine (benzyladenine) and phenylurea (4-PU-30) type cytokinins. 1-Benzyl-4-ethoxycarbonylpiperazinyl-1H-1,2,3-triazolo[4,5-d]pyrimidine almost completely removed cytokinin stimulated effects—betacyanin synthesis in Amaranthus caudatus cotyledons; growth of radish cotyledons and retention of chlorophyll in leaf explants. Some chemical structurephysiological activity relationships have been established.     

Molecular Modeling of Host-Guest Inclusion Compounds: Calculations and Practical Application to Chemical Sensors

Human CNT3 encodes the concentrative nucleoside transport N3 system. Previous expression studies in oocytes showed that the K_m values for nucleosides of the cloned hCNT3 were 7- to 25-fold lower than the endogenous N3 transporter in HL60 cells. Therefore, in the present study we re-examined the kinetic properties of the cloned hCNT3 using mammalian cell expression systems by transient expression in Cos7L cells and stably expression in nucleoside transporter deficient PK15NTD cells. We demonstrated that hCNT3 is a Na-dependent, broadly-selective nucleoside transporter with affinities (<11 M) for nucleosides closely resembling the endogenous N3 transporter. Pharmacological studies showed that phloridzin is a mixed-type inhibitor of hCNT3 (K_i=15 M), and the dideoxyuridine analogs are poor substrates. By epitope-tagging, we further demonstrated that hCNT3 is N-glycosylated as PNGase F and Endo H deglycosylated hCNT3 from 67 kDa to 58 kDa. Searching the human genome database, we identified the genomic organization of hCNT3. This gene contains 19 exons and its exon-intron boundaries within the coding sequence exactly match with those of hCNT1 and hCNT2 with one additional exon in the N-terminus. Our data suggest that hCNT3 gene is evolutionarily conserved with hCNT1 and hCNT2. Physiologically, hCNT3 is a glycoprotein, which transports purine and pyrimidine nucleosides in a Na-dependent manner with high affinities.     

SYNTHESIS AND BIOLOGICAL ACTIVITY OF 4-SUBSTITUTED 1-[1-(2-HYDROXYETHOXY)- METHYL-1,2,3-TRIAZOL-(4 & 5)-YLMETHYL]-1H-PYRAZOLO[3,4-d]PYRIMIDINES

The chemical synthesis of some 4-substituted 1-[1-(2-hydroxyethoxy)methyl-1,2,3-triazol-(4 and 5)-ylmethyl]-1H-pyrazolo[3,4-d]pyrimidines 12a,b, 13a,b and 14–23 as acyclic nucleosides is described. Treatment of (2-acetoxyethoxy)methylbromide with sodium azide afforded (2-acetoxyethoxy)methylazide 9. The heterocycles 6a,b were alkylated, separately, with propargyl bromide to obtain, regioselectively, 4-(methyl and benzyl)thio-1-(prop-2-ynyl)-1H-pyrazolo[3,4-d]pyrimidines 7a,b. These N₁-alkylated products were condensed with compound 9 via a 1,3-dipolar cycloaddition reaction to obtain, after separation and deprotection, 1,4 and 1,5-regioisomers 12a,b and 13a,b. The deprotected acyclic nucleosides 12a and 13a served as precursors for the preparation of 4-amino (14 and 15), 4-methylamino (16 and 17), 4-benzylamino (18 and 19), 4-methoxy (20 and 21) and 4-hydroxy (22 and 23) analogues. Compounds 7a,b and all deprotected acyclic nucleosides were evaluated for their inhibitory effects against the replication of HIV-1(III_B) and HIV-2(ROD) in MT-4 cells and for their anti-tumor activity. No marked activity was found. However, initial evaluation of 6a,b, 7a,b, 12a,b, 13a,b and 14–23 showed that compound 7b has marked activity against M. tuberculosis.     

Synthesis and Biological Evaluation of Pyrimidine and Purine α-L-2′,3′-Dideoxy Nucleosides

Abstract

A series of α-L-2′,3′-dideoxy nucleosides was prepared as potential antiviral agents. The pyrimidine nucleosides were prepared by standard Vorbrüggen coupling reactions. The purine analogues were prepared by enzymatic transfer of the dideoxy sugar from a pyrimidine to a purine base. These compounds were inactive against HIV-1, HBV, HSV-1 and -2, VZV, and HCMV.