Straightforward synthesis of 3′-deoxy-3′,4′-didehydronucleoside-5′-aldehydes via 2′,3′-O-orthoester group elimination: a simple route to 3′,4′-didehydronucleosides

Straightforward, high-yielding syntheses of 3′-deoxy-3′,4′-didehydronucleoside-5′-aldehydes and 3′-deoxy-3′,4′-didehydronucleosides starting from 2′,3′-O-orthoester derivatives of ribonucleosides are described.     

Application and details of photoinduced oxidative cyclization of 5-(4′,9′-methanocycloundeca-2′,4′,6′,8′,10′-pentaenylidene)pyrimidine-2,4,6(1,3,5H)-triones and related compounds

As novel methodology for synthesizing the furan ring, a photoinduced oxidative cyclization of 5-(4′,9′-methanocycloundeca-2′,4′,6′,8′,10′-pentaenylidene)pyrimidine-2,4,6(1,3,5H)-triones (7a-c) and related compounds 9a-c was accomplished to give 5,10-methanocycloundeca[4,5]furo[2,3-d]pyrimidine-2,4(1,3H)-dionylium tetrafluoroborates (8a-c⁺·BF₄⁻) and related compounds 2a-c⁺·BF₄⁻, respectively. In the photoinduced oxidative cyclization, the molecular oxygen in air is used as oxidant and the reaction proceeds under mild conditions to give desired products without byproducts, and thus, it is interesting from the viewpoint of the green chemistry. On the reactions of the mono-substituted derivatives 7d,e and 9e,f, the selectivity of the photoinduced cyclizations were reversed as compared with those of the DDQ-promoted oxidative cyclizations. By the NMR monitoring of the reactions of 7a and deuterated compound 7a-D₂ under degassed conditions, the details of the reaction pathway were clarified and rationalized on the basis of the MO calculation by the 6-31G^∗ basis set of the MP2 levels as well.     

Synthesis and crystal structure of 2′-deoxy-2′-fluoro-4′-thioribonucleosides: substrates for the synthesis of novel modified RNAs

We report herein the synthesis of appropriately protected 2′-deoxy-2′-fluoro-4′-thiouridine (5), -thiocytidine (7), and -thioadenosine (35) derivatives, substrates for the synthesis of novel modified RNAs. The synthesis of 5 and 7 was achieved via the reaction of 2,2′-O-anhydro-4′-thiouridine (3) with HF/pyridine in a manner similar to that of its 4′-O-congener whereas the synthesis of 35 from 4′-thioadenosine derivatives was unsuccessful. Accordingly, 35 was synthesized via the glycosylation of the fluorinated 4-thiosugar 25 with 6-chloropurine. The X-ray crystal structural analysis revealed that 2′-deoxy-2′-fluoro-4′-thiocytidine (8) adopted predominately the same C3′-endo conformation as 2′-deoxy-2′-fluorocytidine.     

5′-Epimeric 3′-deoxy-3′,4′-didehydronucleoside-5′-C-phosphonates: synthesis and structural assignment by NMR and X-ray analyses

Epimeric 5′-(RS) dialkyl 3′-deoxy-3′,4′-didehydro-5′-C-phosphonates were prepared by nucleophilic addition of various dialkyl phosphites to 3′-deoxy-3′,4′-didehydronucleoside-5′-aldehydes. Whereas direct NMR configuration assignment for the C5′ atom bearing the phosphoryl and hydroxy groups using the J (P,H4′) and J (H5′,H4′) coupling constants is impossible due to the absence of the H4′ atom, successful separation, crystallisation and X-ray crystallographic analysis of a pair of epimeric 5′-C-phosphonates, followed by correlation with a series of NMR parameters, led to efficacious configuration assignment of individual epimers in the mixtures.     

An efficient synthesis of new 1-H-4′-methyl-3′,4′-dihydrospiro[piperidine-4,2′(1′H)quinoline] scaffolds

Efficient synthesis of new 3′,4′-dihydrospiro[piperidine-4,2′(1′H)quinolines] by a four step synthetic route based on 1-benzyl-4-piperidone reactivity is reported.     

The synthesis and characterization of a new 3-D inorganic-organic hybrid framework porous material Zn3(bbdc)3(4,4′-bpy)·2(DMF)·4(H2O)

A new 3-D inorganic-organic hybrid framework microporous material Zn₃(bbdc)₃(4,4′-bpy)·2(DMF)·4(H₂O) (1), which is constructed by coordination of zinc ions with 4,4′-bibenzene-dicarboxylic acid (H₂bbdc) and 4,4′-bipyridine (4,4′-bpy), was obtained at mild synthesis condition. Crystallographic data for the compound (1), C₅₈H₅₄N₄O₁₈Zn₃, orthorhombic, space group Pbcn, a=14. 532(3) Å, b=25.037(5) Å, c=18.184(4) Å, Z=4, V=6616(2) Å³.     

A concise synthesis of 3′-α-fluoro-2′,3′-dideoxyguanosine (FddG) via 3′-α-selective fluorination of 8,2′-thioanhydronucleoside

The antiviral nucleoside 3′-α-fluoro-2′,3′-dideoxyguanosine (FddG) was synthesized via 3′-α-selective fluorination of 8,2′-thioanhydronucleoside as the key step. Desulfurization of 3′-α-fluoro-3′-deoxy-8,2′-thioanhydronucleoside could be achieved by the treatment with Raney Ni in toluene. This method provides a concise route to 3′-α-fluoro-2′,3′-dideoxynucleosides that avoids the use of explosive and expensive SF₄-related fluorinating reagents.     

Synthesis of 4′-benzoyloxycordycepin from adenosine

With an aim to synthesize 4′-substituted cordycepins, the 4′-benzoyloxy precursor (9) was prepared from adenosine through an electrophilic addition (iodo-benzoyloxylation) to the 4′,5′-unsaturated derivative (5) and subsequent radical-mediated removal of the 3′-iodine atom of the resulting adducts (6). Usefulness of 9 was briefly verified by synthesizing the 4′-allyl (12) and 4′-cyano (13) analogues of cordycepin.     

Practical synthesis of adenosine 3′,5′-cyclic monophosphorodithioate

Adenosine 3′,5′-cyclic monophosphorodithioate (cAMPS₂), which has two exocyclic sulfurs directly attached to phosphorus, was synthesized from adenosine phosphoramidite by intramolecular cyclization employing the phosphotriester method as a key step.     

A novel copper diphosphonate complex Cu4(aedp)2(4,4′-bpy)(H2O)4 with three-dimensional framework structure

A novel copper organodiphosphonate complex containing a second ligand 4,4′-bipyridine (4,4′-bpy) based on 1-aminoethylidenediphosphonic acid (H₄aedp), Cu₄(aedp)₂(4,4′-bpy)(H₂O)₄ (1), has been synthesized under hydrothermal conditions. Complex 1 adopts a three-dimensional framework structure assembled from {Cu₄(aedp)₂(H₂O)₄} layers and 4,4′-bpy bridges. Each {Cu₄(aedp)₂(H₂O)₄} unit consists of three crystallographically distinct Cu atoms. The Cu(1) atom has a distorted square pyramidal geometry, whereas the Cu(2) and Cu(3) atoms have a distorted elongated tetragonal octahedral geometry. The magnetic studies indicate that complex 1 show typical antiferromagnetic behaviors at low temperature, which is attributed to the superexchange couplings between Cu(II) centers through μ-O bridge in the phosphonate layers. Crystal data for 1: triclinic, space group , a=8.0931(16), b=13.567(3), c=6.2185(12)Å, α=90.55(3), β=96.97(3), γ=78.50(3)°, V=664.1(2)ų, Z=2.     

Efficient synthesis of 3,3′,5,5′-tetra(p-X-phenylethynyl)biphenyl (X: NMe2; OMe) by homocoupling of 1-bromo-3,5-di(p-X-phenylethynyl)benzene or by heterocoupling of 3,3′,5,5′-tetraethynylbiphenyl with p-X-phenylbromobenzene with nickel or palladium complexes, respectively

The conjugated 3,3′,5,5′-tetra(p-X-phenylethynyl)biphenyl derivatives were efficiently obtained by homocoupling of 1-bromo-3,5-di(p-X-phenylethynyl)benzene mediated by zero-valent nickel complexes.The 1-bromo-3,5-di(p-X-phenylethynyl)benzene was previously prepared by heterocoupling between 1-bromo-3,5-di(ethynyl)benzene and p-X-iodobenzene (X: NMe₂; OMe) catalysed by the palladium/copper system in good yield. The necessary 1-bromo-3,5-di(ethynyl)benzene was obtained by heterocoupling between 1,3,5-tribromobenzene and 2-methyl-3-butyn-2-ol catalysed by palladium and successive treatment with sodium hydroxide in dry toluene, in good yield.The same 3,3′,5,5′-tetra(p-X-phenylethynyl)biphenyl (X: NMe₂; OMe) derivatives were alternatively synthesised in highest yield by heterocoupling between 3,3′,5,5′-tetra(ethynyl)biphenyl and p-X-bromobenzene (X: NMe₂; OMe) catalysed by palladium in excellent yields. Previously, 3,3′,5,5′-tetra(ethynyl)biphenyl was obtained in practically quantitative yield by homocoupling of 1-bromo-3,5-di[4-(2-methyl-3-butyn-2-ol)] benzene mediated by the zero-valent nickel complex to the 3,3′,5,5′-tetra{di[4-(2-methyl-3-butyn-2-ol)]}biphenyl followed the treatment with sodium hydroxide.     

Reaction of 3,3′,4,4′-tetramethyl-1,1′-diphosphaferrocene with [Re2(CO)8(CH3CN)2]: Novel coordination modes of the 1,1′-diphosphaferrocene ligand

Reaction of 3,3′,4,4′-tetramethyl-1,1′-diphosphaferrocene (1) with [Re₂(CO)₈(CH₃CN)₂] afforded two trimetallic complexes in which the heterometallocene is ligated across the Re-Re bond. The structure of the complex having 1 bridging the Re₂(CO)₈ moiety through two P atoms was determined by X-ray diffraction and compared with those of analogous complexes with organic bridging bis-phosphines. The second complex obtained in this reaction presumably contains 1 acting as a (P,Fe) bridging ligand.     

Difluorocarbene chemistry: synthesis of gem-difluorocyclopropenylalkynes and 3,3,3′,3′-tetrafluorobicyclopropyl-1,1′-dienes

A series of gem-difluorocyclopropenylalkynes are easily obtained in good yields by the Sonogashira reaction of 3,3-difluoro-1-iodocyclopropenes with terminal alkynes. Onto these new alkynes addition of difluorocarbene, generated from the decomposition of FSO₂CF₂COOTMS in diglme in the presence of 10 mol% anhydrous NaF at 120 °C, gives 3,3,3′,3′-tetrafluorobicyclopropyl-1,1′-dienes. Acid hydrolysis of gem-difluorocyclopropenylalkynes in refluxing CH₃OH affords the corresponding methoxycarbonylenynes.     

Interaction of 2-(2′,6′-dialkylphenylazo)-4-methylphenols with iridium. C-H activation and migration of alkyl group

Reaction of 2-(2′,6′-diethylphenylazo)-4-methylphenol (L²) with [Ir(PPh₃)₃Cl] afforded two organoiridium complexes 3 and 4 via C-H bond activation of an ethyl group in the arylazo fragment of the L² ligand. In both the complexes the azo ligand binds to iridium as a dianionic tridentate C,N,O-donor. Two triphenylphosphines and a hydride (in the case of complex 3) or chloride (in the case of complex 4) are also coordinated to the metal center. A similar reaction of [Ir(PPh₃)₃Cl] with 2-(2′,6′-diisopropylphenylazo)-4-methylphenol (L³) yielded another organoiridium complex 5, where migration of one iso-propyl group from its original location (say, the 2′ position) to the corresponding third position (say, the 4′ position) took place through C-C bond activation. In this complex the modified azo ligand binds to iridium as a dianionic tridentate C,N,O-donor. Two triphenylphosphines and a hydride are also coordinated to the metal center. The structures of complexes 3 and 4 have been optimized through DFT calculations. The structure of complex 5 has been determined by X-ray crystallography. All the complexes show characteristic ¹H NMR signals and intense transitions in the visible region. Cyclic voltammetry on all the complexes shows an oxidation within 0.66-1.10 V vs SCE, followed by a second oxidation within 1.15-1.33 V vs SCE and a reduction within −0.96 to −1.07 V vs SCE.     

6,6′-Dimethyl-2,2′-bipyridine-4-ester: A pivotal synthon for building tethered bipyridine ligands

We describe an efficient and scalable synthesis of 4-carbomethoxy-6,6′-dimethyl-2,2′-bipyridine starting from easily available substituted 2-halopyridines and based on the application of modified Negishi cross-coupling conditions. This compound is a versatile starting material for the synthesis of 4-functionalized 2,2′-bipyridines bearing halide, alcohol, amine, and other functionalities, suitable for conjugation to biological material (2a-c, 3a-g). The utility of this compound in the construction of more complex architectures was further demonstrated by the synthesis of two bifunctional lanthanide chelators; an open chain ligand based on one 2,2′-bipyridine unit and a cryptand based on three 2,2′-bipyridine units [N₂(bpy)₃COOMe]. In the field of luminophoric biolabels, the photophysical properties of the corresponding Eu(III) cryptate are reported.     

Vibrational spectra and structure of the photochromic 2-(2′,4′-dinitrobenzyl)pyridine

The molecular structure of the pale yellow crystals of 2-(2′,4′-dinitrobenzyl)pyridine (CH₂ form) and its photo induced ‘enamine’ NH tautomer (dark blue crystals) have been studied by means of vibrational spectra and ab initio calculations. The Raman spectrum of the photo-sensitive CH₂ form was registered by NIR FT-Raman spectroscopy by means of the Nd:YAG laser as an excitation source. Ab initio calculations have been performed for the CH₂ and NH tautomers at the Hartree-Fock level using a 6-21G** basis set. The theoretical geometrical parameters for the isolated 2-(2′,4′-dinitrobenzyl)pyridine molecule (CH₂ form) are close to the literature X-ray diffraction data. According to the theory the dihedral angle between the benzene and pyridine ring planes in the NH photo induced tautomer is about 46°, the ortho-nitro group is twisted about 25° towards the benzene ring plane, whereas the para-nitro group is coplanar to the benzene ring. The assignment of the fundamental vibration frequencies of both 2-(2′,4′-dinitrobenzyl)pyridine tautomers CH₂ and NH have been performed on the basis of Raman and infrared spectra and ab initio force field calculations. The computed frequencies are in coincidence with the registered ones; the mean deviations are between 23.7 and 28.5 cm⁻¹.     

New and efficient synthesis of 5′-amino-5′-(S)-methyl-2′,5′-dideoxynucleosides

A short, efficient synthesis of 5′-amino-5′-(S)-methyl-2′,5′-dideoxynucleosides 1 has been developed through the diastereoselective addition of methylmagnesium bromide or methyllithium to an intermediate tert-butylsulfinimide.     

The intercalation reaction of 2,2′-bipyridine with layered compound MnPS3

The intercalation process of 2,2′-bipyridine into layered MnPS₃ is studied with powder X-ray powder diffraction (XRD) technology as the monitoring tool. From the XRD results, it is found that the absence or presence of acid greatly influences the existing form and the arranged orientation of the guest. Two series of the reactions are carried out. In Series A, only MnPS₃ and 2,2′-bipyridine are present. While in Series B, a variety of acetic acid is added. During the intercalation of Series A, there coexist four phases: the 00l phase (with lattice spacing of 6.47 Å) is pristine MnPS₃; the 00l′ phase (with lattice spacing of 9.81 Å), indicating the parallel orientation of the 2,2′-bipyridine molecular ring to the layer; the 00l″ phase (with lattice spacing of 12.20 Å), indicating the perpendicular orientation of the 2,2′-bipyridine molecular ring to the layer of the host, which is only an intermediate phase for the formation of the 00l′′′ phase; the 00l′′′ phase (with the lattice spacing of 15.33 Å), indicating the existence of the complex cation [Mn(bipy)₃]²⁺ coming from the in situ coordination of the inserted guest with intralayered Mn²⁺ ions between the interlayer space of host. As the intercalation proceeds, the 00l, 00l′ and 00l″ phases finally disappear, and 00l′′′ phase is intensified and a complete intercalate is obtained. In Series B, due to the presence of the acid, the formation of the complex cation [Mn(bipy)₃]²⁺ is inhibited, and the amount of the acid in the intercalation plays a key role in the formation of the guest. With the increase of the acid, the protonated bipyridine becomes the main existing form of the guest, which is arranged in the perpendicular orientation of molecular ring to the layer. From the experimental evidences, the possible intercalation mechanisms are proposed and the novel intercalation phenomenon of in situ coordination of the inserted 2,2′-bipyridine with Mn²⁺ of the host is elucidated.     

3′-Selective modification of a 4′,5′-didehydro-5′-deoxy-2′,3′-epoxyuridine using nucleophiles

1-(2,3-Anhydro-5-deoxy-4,5-didehydro-α-l-erythro-pent-4-enofuranosyl)uracil 4 was obtained by the treatment of 5′-iodo-2′,3′-epoxyuridine 5 with LiHMDS in excellent yield. The pyrimidine nucleoside 4 possesses quite unique vinyl epoxide moiety within the molecules. The reactions of 4 with a variety of nucleophiles gave 3′-substituted pyrimidine nucleosides without the formation of the corresponding 2′-substituted isomers. In the case of NaN₃ or PhSH, the corresponding 5′-adduct was obtained as a minor product together with the expected 3′-adduct.