Regioselective Silylations of C-2 Hydroxyl Groups of Cyclodextrins Dependent on Reaction Temperature

Silylations of the C-2 hydroxyl group of cyclodextrins were carried out using t-butyldimethylsilyl imidazole in the presence of 4A molecular sieves in N,N-dimethylformamide. A unique aspect of this silylation method is the temperature dependence of the regioselectivity; silylation at 0 °C regioselectively favored the C-6 position to afford mono-6-O-t-butyldimehylsilyl-cyclodextrins, whereas silylation at 140 °C exhibited high regioselectivity on the C-2 hydroxyl group.     

New functionalization at the 5-position of uracils by selenenylation

Electrophilic substitution of phenylselenenyl chloride at the 5-position of uracils in the presence of silver reagents, such as Ag₂O, AgBF₄, or CF₃CO₂Ag, afforded the corresponding 5-phenylselenenyluracils in excellent yields. 1,3-Dimethyl-5-phenylselenenyluracil (2a) , 5-phenylselenenyl-(2′,3′,5′-tri-O-acetyl)uridine (2b) , 5-phenylselenoxyl-1,3-dimethyluracil (3a) and 5-phenylselenoxyl-(2′,3′,5′-tri-O-acetyl)uridine (3b) were used for various transformations at C-5 or C-6 of pyrimidine bases via nucleophilic substitution, a free radical process, and a Michael-type addition utilizing the unique properties of organo-seleno groups located on C-5 of pyrimidine bases.     

Synthesis of eupomatilone-6 and assignment of its absolute configuration

[Reaction: see text]. The Zn-mediated Barbier reaction of the biarylaldehyde 8 with crotyl bromide followed by hydroboration and oxidation provided the gamma-butyrolactones 4 and 5. The stereoselective installation of methyl group at C-3 by using LiHMDS and MeI completed the synthesis of racemic eupomatilone-6 (2) and its diastereomer 3. The spectroscopic data of 2 was in full agreement with reported spectra of natural product, thus confirming the revised relative configuration of eupomatilone-6. Similarly, an optically active (3R,4R,5S)-isomer of eupomatilone-6 (23) was prepared in which the aldol reaction with thiazolidinethione as a chiral auxiliary was employed as a key step. On the basis of the spectroscopic data and optical rotation values of 23, the absolute configuration of eupomatilone-6 was proposed.     

Intermolecular reactions of new halovinylcarbenes - versatile synthesis of (halovinyl) cyclopropanes

Deprotonation of the oligohalopropenes 1A, 1B, 1C with LiTMP or LiHMDS in the presence of olefins 3 led to halovinylcyclopropanes 4A, 4B, 4C by intermolecular trapping of the corresponding halovinylcarbenes. Mixtures 4B/4C and (dichloroethenylidene) cyclopropanes 5 can be obtained from 1,1,2,3,3-pentachloropropane (6), LiHMDS and olefins 3.     

Proton transfer from C-6 of uridine 5'-monophosphate catalyzed by orotidine 5'-monophosphate decarboxylase: formation and stability of a vinyl carbanion intermediate and the effect of a 5-fluoro substituent

The exchange for deuterium of the C-6 protons of uridine 5'-monophosphate (UMP) and 5-fluorouridine 5'-monophosphate (F-UMP) catalyzed by yeast orotidine 5'-monophosphate decarboxylase (ScOMPDC) at pD 6.5-9.3 and 25 °C was monitored by (1)H NMR spectroscopy. Deuterium exchange proceeds by proton transfer from C-6 of the bound nucleotide to the deprotonated side chain of Lys-93 to give the enzyme-bound vinyl carbanion. The pD-rate profiles for k(cat) give turnover numbers for deuterium exchange into enzyme-bound UMP and F-UMP of 1.2 × 10(-5) and 0.041 s(-1), respectively, so that the 5-fluoro substituent results in a 3400-fold increase in the first-order rate constant for deuterium exchange. The binding of UMP and F-UMP to ScOMPDC results in 0.5 and 1.4 unit decreases, respectively, in the pK(a) of the side chain of the catalytic base Lys-93, showing that these nucleotides bind preferentially to the deprotonated enzyme. We also report the first carbon acid pK(a) values for proton transfer from C-6 of uridine (pK(CH) = 28.8) and 5-fluorouridine (pK(CH) = 25.1) in aqueous solution. The stabilizing effects of the 5-fluoro substituent on C-6 carbanion formation in solution (5 kcal/mol) and at ScOMPDC (6 kcal/mol) are similar. The binding of UMP and F-UMP to ScOMPDC results in a greater than 5 × 10(9)-fold increase in the equilibrium constant for proton transfer from C-6, so that ScOMPDC stabilizes the bound vinyl carbanions, relative to the bound nucleotides, by at least 13 kcal/mol. The pD-rate profile for k(cat)/K(m) for deuterium exchange into F-UMP gives the intrinsic second-order rate constant for exchange catalyzed by the deprotonated enzyme as 2300 M(-1) s(-1). This was used to calculate a total rate acceleration for ScOMPDC-catalyzed deuterium exchange of 3 × 10(10) M(-1), which corresponds to a transition-state stabilization for deuterium exchange of 14 kcal/mol. We conclude that a large portion of the total transition-state stabilization for the decarboxylation of orotidine 5'-monophosphate can be accounted for by stabilization of the enzyme-bound vinyl carbanion intermediate of the stepwise reaction.     

Synthesis of 5-fluoro N-acetylglucosamine glycosides and pyrophosphates via epoxide fluoridolysis: versatile reagents for the study of glycoconjugate biochemistry

Numerous carbohydrate-processing enzymes facilitate catalysis via stabilization of positive charges on or near the C-1, C-4, C-5, or C-6 positions. Substrate analogues differing only in the substitution of a fluorine for the axial C-5 hydrogen would possess reduced electron density at these positions and could be useful mechanistic probes of these enzymes. Introduction of this 5-fluoro substituent after radical halogenation was problematic because of the incompatibility of many protecting groups to the radical halogenation and the instability of the subsequent 5-fluoro hexosamines. Thus, to allow easy access to a wide variety of 5-fluoro glycosides and glycosyl phosphates, a versatile method for the introduction of the 5-fluoro group has been developed, the key step being the fluoridolysis of C-5, 6 epoxides. By use of this method, two fluorinated carbohydrates, uridine 5'-diphospho-5-fluoro-N-acetylglucosamine and octyl 5-fluoro-N-acetylglucosamine, have been synthesized. Initial biochemical investigations of these compounds show that 5-fluoro analogues are useful probes of transition-state charge development in several enzyme-catalyzed reactions.     

Introducing a Hydrogen‐Bond Donor into a Weakly Nucleophilic Brønsted Base: Alkali Metal Hexamethyldisilazides (MHMDS,M=Li,Na, K,Rb and Cs) with Ammonia

Alkali metal 1,1,1,3,3,3‐hexamethyldisilazide (MHMDSs) are one of the most utilised weakly nucleophilic Brønsted bases in synthetic chemistry and especially in natural product synthesis. Like lithium organics, they aggregate depending on the employed donor solvents. Thus, they show different reactivity and selectivity as a function of their aggregation and solvation state. To date, monomeric LiHMDS with monodentate donor bases was only characterised in solution. Since the first preparation of LiHMDS in 1959 by Wannagat and Niederprüm, all efforts to crystallise monomeric LiHMDS in the absence of chelating ligands failed. Herein, we present ammonia adducts of LiHMDS, NaHMDS, KHMDS, RbHMDS and CsHMDS with unprecedented aggregation motifs: 1) The hitherto missing monomeric key compound in the LiHMDS aggregation architectures. Monomeric crystal structures of trisolvated LiHMDS ( 1 ) and NaHMDS ( 2 ), showing unique intermolecular hydrogen bonds, 2) the unprecedented tetrasolvated KHMDS ( 3 ) and RbHMDS ( 4 ) dimers and 3) the disolvated CsHMDS ( 5 ) dimer with very close intermolecular Si?CH₃???Cs s‐block “agostic” interactions have been prepared and characterised by single‐crystal X‐ray structure analysis.     

Bromination at C-5 of Pyrimidine and C-8 of Purine Nucleosides with 1,3-Dibromo-5,5-dimethylhydantoin

Treatment of the protected and unprotected nucleosides with 1,3-dibromo-5,5- dimethylhydantoin in aprotic solvents such as CH(2)Cl(2), CH(3)CN, or DMF effected smooth bromination of uridine and cytidine derivatives at C-5 of pyrimidine rings as well as adenosine and guanosine derivatives at C-8 of purine rings. Addition of Lewis acids such as trimethylsilyl trifluoromethanesulfonate enhanced efficiency of bromination.     

Reaction of ketones with lithium hexamethyldisilazide: competitive enolizations and 1,2-additions

Reaction of 2-methylcyclohexanone with lithium hexamethyldisilazide (LiHMDS, TMS(2)NLi) displays highly solvent-dependent chemoselectivity. LiHMDS in THF/toluene effect enolization. Rate studies using in situ IR spectroscopy are consistent with a THF concentration-dependent monomer-based pathway. LiHMDS in pyrrolidine/toluene affords exclusively 1,2-addition of the pyrrolidine fragment to form an alpha-amino alkoxide-LiHMDS mixed dimer shown to be a pair of conformers by using (6)Li, (15)N, and (13)C NMR spectroscopies. Rate studies are consistent with a monomer-based transition structure [(TMS(2)NLi)(ketone)(pyrrolidine)(3)](). The partitioning between enolization and 1,2-addition is kinetically controlled.     

Oligonucleosides with a Nucleobase‐Including Backbone,Part 1, Concept,Force‐Field Calculations,and Synthesis of Uridine‐Derived Monomers and Dimers

A new type of oligonucleosides has been devised to investigate the potential of oligonucleosides with a nucleobase‐including backbone to form homo‐ and/or heteroduplexes (cf. Fig. 2). It is characterised by ethynyl‐linkages between C(5′) and C(6) of uridine, and between C(5′) and C(8) of adenosine. Force‐field calculations and Maruzen model studies suggest that such oligonucleosides form autonomous pairing systems and hybridize with RNA. We describe the syntheses of uridine‐derived monomers, suitable for the construction of oligomers, and of a dimer. Treatment of uridine‐5′‐carbaldehyde ( 2 ) with triethylsilyl acetylide gave the diastereoisomeric propargylic alcohols 6 and 7 (1 : 2, 80%; Scheme 1). Their configuration at C(5′) was determined on the basis of NOE experiments and X‐ray crystal‐structure analysis. Iodination at C(6) of the (R)‐configured alcohol 7 by treatment with lithium diisopropylamide (LDA) and N‐iodosuccinimide (NIS) gave the iodide 17 (62%), which was silylated at O−C(5′) to yield 18 (89%; Scheme 2). C‐Desilylation of 7 with NaOH in MeOH/H₂O led to the alkyne 10 (98%); O‐silylation of 10 at O−C(5′) gave 16 (84%). Cross‐coupling of 18 and 16 yielded 63% of the dimer 19 , which was C‐desilylated to 20 in 63% yield. Cross‐coupling of 10 and the 6‐iodouridine 13 (70%), followed by treatment of the resulting dimer 14 with HF and HCl in MeCN/H₂O, gave the deprotected dimer 15 (73%).     

Directed ortho metalation approach to C-7-substituted indoles. Suzuki-Miyaura cross coupling and the synthesis of pyrrolophenanthridone alkaloids

[reaction: see text] Although the indole N-phosphinoyl derivative 4 undergoes n-BuLi deprotonation/electrophile quench to afford C-7-substituted products, its deprotection requires harsh conditions. On the other hand, the N-amide 12, upon sequential or one-pot C-2 metalation, silylation, C-7 metalation, and electrophile treatment, furnishes indoles 7 in good overall yields. In combination with the Suzuki-Miyaura protocol, C-7 aryl (heteroaryl)-substituted indoles 14 and 16 are obtained, including hippadine and pratosine, members of the pyrrolophenanthridone alkaloid family.     

Expanding functionality of RNA: synthesis and properties of RNA containing imidazole modified tandem G-U wobble base pairs

Imidazole modification at C-5 of uridine that is part of tandem G-U wobble base pairs causes slight reduction of thermal stability (DeltaDeltaG(0)(310) < 0.4 kcal mol(-1)) and relatively small change in hydration of short RNA helices.     

Novel 3,4- and 8,15-polyether analogues of macrocyclic trichothecenes

Protecting group chemistry on derivatives of T-2 toxin (2) involving silylation (TBDMS ethers) of the hydroxyl groups at C-3 and C-4, and acetalation (benzylidene acetals) of the C-8 and C-15 hydroxyl groups, has afforded the 3,4- and 8,15-polyether analogues 9–12 and 18 and 19 of macrocyclic trichothecenes.     

Synthetic study on telomerase inhibitor, D8646-2-6: synthesis of the key intermediate using Sn(OTf)2 or Sc(OTf)3 mediated aldol-type reaction and Stille coupling

The synthesis of the key intermediate (4) in the proposed route to D8646-2-6 is described. The aldol reaction of the carbohydrate-containing pyrone 7 with the aldehyde 6 was accomplished by using LiHMDS and Sc(OTf)3 or Sn(OTf)2. The stepwise dehydration reaction of the aldol adduct 14, followed by Stille coupling with vinyl stannane 5 which contained phosphonate gave the desired 4.     

Regio- and chemoselective manipulation under mild conditions on glucosamine derivatives for oligosaccharide synthesis and its application toward N-acetyl-d-lactosamine and Lewis X trisaccharide

Special emphasis on regio- and chemoselective manipulation on a new glucosamine scaffold was laid, toward the short-step and efficient synthetic routes for oligosaccharides. First, the blocking of two hydroxyl groups at C-1 and C-6 positions of N-protected glucosamine at once by silylation followed by an oxazolidinone formation between C-3 hydroxyl and C-2 amino groups were established, to lead an expeditious way for a glycosyl acceptor for lactosamine synthesis. Second, without any effect on acetyl protective groups in the same molecule, the ring-opening of oxazolidinone and hydrolysis of resulting carbonate under mild conditions allowed the C-3 hydroxyl group to be free, which is indispensable for further extension to oligosaccharides, such as a LeX trisaccharide.     

Studies on 2'-alpha-C-carboxyalkyl nucleosides and their application to a stereocontrolled nucleobase exchange process

The ability of 2'-alpha-C-carboxyalkyl nucleosides to undergo an unusual two-step stereocontrolled nucleobase exchange process has been investigated. Upon silylation a protected 2'-deoxy-2'-alpha-C-(carboxymethyl)uridine derivative can undergo intramolecular displacement of the uracil base, by the 2'-carboxylic acid group, to form a pentofuranosyl gamma-lactone. Under identical conditions the homologous 2'-deoxy-2'-alpha-C-(carboxyethyl)uridine derivative does not yield the corresponding delta-lactone, but undergoes elimination of uracil to give the corresponding glycal. The pentofuranosyl gamma-lactone is a good substrate for nucleoside synthesis by the Vorbrüggen procedures and undergoes completely stereoselective ring opening with either pyrimidine or purine silylated nucleobases to give novel 2'-C-carboxymethyl beta-nucleosides in moderate to high yield.     

Carbon-13 as a tool for the study of carbohydrate structures, conformations and interactions

The application of 13C-NMR spectroscopy to problems involving the structures and interactions of carbohydrates is described. Both 13C-enriched and natural abundance compounds were used and some advantages of the use of the stable isotope are described. Carbon-carbon and carbon-proton coupling constants obtained from 1-13C enriched carbohydrates were employed in the assignment of their chemical shifts and to establish solution conformation. In all cases studied thus far, C-3 couples to C-1 only in the beta-anomers while C-5 couples to C-1 only in the alpha-anomers. C-6 and C-2 always couple to C-1 in both anomeric species. The alkaline degradation of glucose [1-13C] to saccharinic acids was followed by 13C-NMR. The conversion of glucose [1-13C] to fructose-1, 6-bisphosphate [1, 6-13C] by enzymes of the glycolytic pathway was shown as an example of the use of 13C-enriched carbohydrates to elucidate biochemical pathways. In a large number of glycosyl phosphates the 31P to H-1 and 31P to C-2 coupling constants demonstrate that in the preferred conformation and phosphate group lies between the O-5 and the H-1 of the pyranose ring. The influence of paramagnetic Mn2 + ions on the proton decoupled 13C-NMR spectra of uridine diphosphate N-acetylglucosamine indicates that the Mn2 + interacts strongly with the pyrophosphate moiety and with the carbonyl groups of the uracil and N-acetyl groups.     

A study of the binding of manganese (II) with the sodium salts of nucleosides in aqueous solutions by the13C NMR method

The binding of manganese(II) with nucleosides — adenosine (A), guanosine (G), cytidine (C), and uridine (U) — in an alkaline D₂O solution has been investigated by the¹³C NMR method. It has been established that the structure of the paramagnetic Mn(II)—nucleoside complexes differs substantially in neutral and in alkaline media. The broadening of the resonance lines (C-2′, C-3′ > C-1′, C-4′ > C-5′) shows the localization of the Mn(II) in the C-2′ and C-3′ hydroxyls of the ribose in an alkaline medium. It has been shown for the case of U that the degree of complex-formation depends on the pH of the solution. It is assumed that the nucleoside forms intramolecular complexes (I) with Mn(OH)₂.     

Expeditious synthesis of C2- or N4-aryl-1,4-benzothiazin-3-one via orthogonal Pd-catalyzed C-arylation and Cu-catalyzed N-arylation

Direct, chemo-specific arylation at C-2 or N-4 of 1,4-benzothiazin-3-one with aryl halides, based on Pd or Cu catalyst system, respectively, provided easy entry to arylated derivatives, a class of molecules not easily accessible via existing methods. Under Pd-catalysis conditions with LiHMDS as the base, N-arylation of 1,4-benzothiazin-3-one was inhibited leading to Cα-arylation of a secondary amide without the need for protection and de-protection of more acidic amido NH.