Oligoribonucleotide synthesis by the use of 1-(2-cyanoethoxy)ethyl (CEE) as a 2′-hydroxy protecting group

A novel method for the synthesis of oligoribonucleotides using 1-(2-cyanoethoxy)ethyl (CEE) as a 2′-hydroxy protecting group has been developed. A CEE group was introduced to the 2′-position of N-acyl-3′,5′-O-silyl-protected ribonucleosides under acidic conditions in good yields. The 2′-O-CEE group was found to be stable in an aqueous or ethanolic ammonia and was quickly removed by treatment with anhydrous tetrabutylammonium fluoride (TBAF). A combination of the use of N-acyl and 2′-O-CEE protecting groups enabled a reliable and complete two-step deprotection, first with NH₃–EtOH, then with TBAF in THF, without cleavage of internucleotidic linkages.     

The chemistry of phenalenium system—II 7,8,2′,3′,4′,5′-Hexachloro-11-methoxy-6H-cyclopenta[a]pyrene-6-spiro-1′-cyclopenta-2′,4′-diene

7,8,2′,3′,4′,5′-Hexachloro-11-methoxy-6H-cyclopenta[a]pyrene-6-spiro-1′-cyclopenta-2′,4′-diene 5 has been obtained by the reaction of phenalenone and 1,2,3,4-tetrachlorocyclopentadiene. The gross structure of 5 has been determined by the X-ray analysis. The ground-state properties of 5were discussed from the spectroscopic data, dipole moment and bond lengths.     

Acetylation of nucleosides and acetyl migration

Acetylation of the 2′-OH group predominances over acetylation of the 3′-OH group in derivatives of adenosine, uridine, 3β- -xylosyluracil and 3β- -lyxosyluracil. In each case subsequent equilibrium of the products of acetylation results in a net acetyl migration away from the glycosidic link.     

Thermal analysis of 5-halo-2'-deoxynucleosides

Heat may be a mutagenic agent which could be more important to evolution than are the ordinary errors in DNA replication. Therefore, it is necessary to know the stability of heredity determinants to thermal energy. Consequently, a thermal analysis, via differential scanning calorimetry (DSC), has been undertaken, using model compounds (crystalline 2'-deoxyribonucleosides and their 5-halo derivatives) to provide information regarding: 1. bond free energies maintaining the fibrous structure in nucleic acids e.g. H-bonding,π-complexing and dipole induced dipole interaction. 2. susceptibility to thermal degradation e.g. thermolytic cleavage of the glycosidic bond and deamination of the bases. Interpretation of the thermal curves has been facilitated and enhanced by utilization of a DSC-TLC analytical technique. Based on these data, a mechanism for the thermolysis of the glycosidic bond in the melt has been considered.     

Conformational and structural analysis of N-N′-bis(4-methoxybenzylidene)ethylenediamine

The Schiff base compound, N-N′-bis(4-methoxybenzylidene)ethylenediamine (C₁₈H₂₀N₂O₂) has been synthesized and its crystal structure has been investigated by X-ray analysis and PM3 method. The compound crystallizes in monoclinic space group P2₁/n with a=10.190(1), b=7.954(1), c=10.636(1) Å, β=111.68(1)°, V=801.1(1) ų, Z=2 and D_cal=1.229 Mgm⁻³. The title structure was solved by direct methods and refined to R=0.056 for 2414 reflections [I>3.0σ(I)] by full-matrix anisotropic least-squares methods. The energy profile of the compound was calculated by PM3 method as a function of θ[N1′–C9′–C9–N1]. The most stable molecular structure of the title compound is the anti conformation, which is different in energy by 5.0 and 1.0 kcal mol⁻¹ from the eclipsed conformation I and gauche conformations, (III and V), respectively.     

Chains, ladders and sheets of d metal–organic polymers generated from the flexible bipyridyl ligands

By use of the three-layer diffusion method, reactions of flexible bipyridyl ligands (4,4′-bpp or 3,3′-bpp) with M(II) salts (M = Zn, Cd) and multi-carboxylate ligands resulted in the formation of four interesting d¹⁰ metal–organic coordination polymers: [Zn(μ-4,4′-bpp)Br₂]_n (1), [Zn(μ-4,4′-bpp)(1,2-bdc)]_n · nH₂O (2), [Zn(μ-3,3′-bpp)(1,3-bdc)]_n · nCH₃OH · 2nH₂O (3) and [Cd(μ-3,3′-bpp)(C₄H₂O₄)]_n · 3nH₂O (4) (4,4′-bpp = 2,2′-bis(4-pyridylmethyleneoxy)-1,1′-biphenylene; 3,3′-bpp = 2,2 ′-bis(3-pyridylmethyleneoxy)-1,1′-biphenylene; bdc=benzenedicarboxylate, C₄H₄O₄ = fumaric acid). Complex 1 has a 2D sheet structure consisting of two unusual zigzag Zn(II) chains which are nearly perpendicular to each other. Complex 2 is comprised of two-leg ladders, in which [Zn(4,4′-bpp)] chains serve as the side rails and 1,2-bdc ligands serve as the cross rungs. In complex 3, every two 1,3-bdc ligands connect the neighbouring Zn(II)-3,3′-bpp dimetallic rings in η¹ coordination modes into an interesting chain structure. Complex 4 consists of an anionic macrocycle-containing cadmium dicarboxylate sheets that are separated by 3,3′-bpp. These d¹⁰ metal complexes exhibit high thermal stabilities and strong luminescence efficiencies.     

Effect of sulphur on both thermal and dielectric properties of pre-compressed FEF black-loaded SBR vulcanizates

The thermal properties (thermal conductivity λ, thermal diffusivity a, and specific heat C_p) as well as the dielectric constant ε′ and dielectric loss ε′ of conductive styrene butadiene rubber loaded with different concentrations of sulphur were measured. It was found that both λ and C_p increase gradually at around 1 phr of sulphur content. Meanwhile, the dielectric constant ε′, showed a pronounced peak at 2 phr of sulphur content. Moreover, the effect of hydrostatic pressure on the dielectric constant ε′ and dielectric loss ε′ was found to rise with pre-compression.     

Chemical investigation of Andrographis serpyllifolia Isolation and structure of serpyllin, a new flavone

A new flavone, Serpyllin, has been isolated from Andrographis serpyllifolia Wt. and its structure has been established as 5-hydroxy-7,8,2′,3′,4′-pentamethoxyflavone by spectral and synthetic evidence. The synthesis of 5,6,7,2′,3′,4′-hexamethoxyflavone is also reported.     

Synthesis of new thiazole analogues of pyochelin, a siderophore of Pseudomonas aeruginosa and Burkholderia cepacia. A new conversion of thiazolines into thiazoles

Three pyochelin analogues and their methyl esters all containing a thiazole ring have been synthesised from the same Weinreb amide key intermediate. One of these analogues called HPTT-COOH, a molecule released in the course of pyochelin and yersiniabactin biosynthesis, was efficiently synthesised using a new base induced conversion of the key compound 2′-(2-hydroxyphenyl)-2′-thiazoline-4′-(N-methoxy,N-methyl) carboxamide into 2′-(2-hydroxyphenyl)-2′-thiazole-4′-(N-methoxy,N-methyl) carboxamide.     

Thermal decomposition and stability in a series of tetrafluorborate copper(I) complexes

Tetrafluorborate copper(I) complexes containing acetonitrile, triphenylphosphine, 1,10-phenanthroline,2,2′-bipyridine and 2-quinolinethiol have been prepared in order to study their thermal stabilities as a function of the ligands present. The characterization of the above compounds was carried out by elemental analysis and IR spectroscopy. Their thermal behaviour has been investigated and the final products were identified by X-ray powder diagrams.     

Spiro-dihydrofuran-pyrazolidinones from tetraacetylethylene andazo-dicarbonyl compounds

Tetraacetylethylene (1) reacted with electron-withdrawing azo compounds to give spiro furan-pyrazoles. Their structure was confirmed by an X-ray crystallographic analysis on a derivative of the spiro furan-3(2H),5′(7′H)-pyrazolo 1,2-a1,2,4 triazole-1′,3′,6′-trione. The cycload-ducts show ring-open chain tautomerism.     

UV stabilizers bonded to transition metals: Synthesis and X-ray structure of 2-(2′-hydroxyphenyl)benzotriazole-oxovanadium(IV) and -dioxomolybdenum(VI) complexes

The UV-stabilizer 2-(2′-hydroxy-5′-methylphenyl)benzotriazole (Tinuvin P, LH) has been used as a monoanionic bidentate ligand for complexing oxocations. Displacement of acacH from [VO(acac)₂] and [MoO₂(acac)₂] gave [*VO(acac)₂*(μ-L)] (2) and [cis-O₂Mo(acac)L] (3) respectively, as crystalline compounds. Their structure has been determined by an X-ray analysis showing the structural changes occurring upon coordination. The UV spectrum of Tinuvin P is significantly affected by complexation.     

Homoleptic carbene complexes VI. Bis{1,1′-methylene-3,3′-dialkyl-diimidazolin-2,2′-diylidene}palladium chelate complexes by the free carbene route

1,1′-Methylene-3,3′-dialkyldiimidazolium salts have been deprotonated with n-butylithium in the presence of palladium(II) iodide to give the percarbene complexes 1 (alkyl=Me) and 2 (alkyl=Et), each containing two bidentate 1,1′-methylene-3,3′-dialkyldiimidazolin-2,2′-diylidene chelate ligands. The X-ray structure analysis of 1 reveals a stereochemistry in which the two spiro-linked six-membered metallacycles adopt boat-like conformations strongly bending out of the PdC₄ coordination plane in opposite directions. The carbenoid imidazole rings, which are rotated by +42 and −43°, respectively, relative to this plane, break down into two tightly bound π-systems (N=4C=4N,= C=C) connected by long C---N bonds.     

Studies of nucleosides and nucleotides—XLVI Purine cyclonucleosides—13. Synthesis and properties of 8,5′-anhydro-8-mercaptoadenosine

Starting from 8-bromoadenosine, 2′,3′-O-isopropylidene-(IIa) and 2′,3′-O-ethoxymethylidene-5′-O-tosyl-8-bromoadenosme (IIb) were synthesized. Compounds IIa, b gave 8,5′-anhydronucleosides (IV a and b) on treatment with hydrogen sulfide in pyridine or aqueous sodium hydrogen sulfide in pyridine at −5–−15°. The structure of IV was confirmed by UV absorption, NMR and elemental analysis. CD and ORD measurements of IV showed large positive Cotton effects around absorption maxima. Acidic removal of the protecting group in IV gave 8,5′-anhydro-8-mercaptoadenosine (V), which was desulfurized to afford 5′-deoxyadesine (VI).     

The effects of oxidation and protonation on the N-glycosidic bond stability of 8-oxo-2′-deoxyguanosine: DFT study

This work is an attempt to evaluate the ability of protonation of 8-oxo-2′-deoxyguanosine (8-oxodG) and the effects of oxidation and protonation on its N-glycosidic bond stability by using the density functional theory B3LYP/6-31++G(d, p) method. In all modified forms, the length of the N9–C1′ bond increases as compared to the neutral system 8-oxodG. Especially, the changes are much more obvious for the di-cationic systems. The analysis for the ability of protonation indicates that for the mono-protonated systems, the O8 atom becomes the preferred protonation site in the gas phase. From the dissociation energies of the N-glycosidic bond, it has been found that the homolytic cleavage becomes more difficult upon introducing positive charge in the base ring. In contrast, these systems favor significantly the heterolytic cleavage, especially for the di-cationic systems in which the dissociation energy values are negative. The influence is most prominent with the mono-cation obtained by O8 protonation.     

Synthesis and characterisation of monomeric, dimeric and polymeric ferrocenylacetylides. Crystal structure of 1,1′-bis(phenylethynyl)ferrocene

The reactions of alkynyltrimethylstannanes with 1,1′-dilithioferrocene have given several ferrocenylacetylides, namely 1-pheny]-ethynyl-1′-iodo-ferrocene (1), 1,1′-bis(phenylethynyl)ferrocene (2), 1,4-di(1′-iodoferrocenylethynyl)benzene (3) and poly[1,4-(1′-ferrocenylethynyl)ethynylbenzene] (4). The versatility of this reaction for the formation of ferrocenylacetylides is demonstrated. The crystal structure of 2 has been determined, and shown to involve a linear array of the groups with a cis arrangement of the phenylethynyl ligands.     

Kinetics of vinylation of 4′-bromoacetophenone with n-butyl acrylate using palladacycle catalyst

The kinetics of vinylation of 4′-bromoacetophenone (4′-BAP) with n-butyl acrylate (n-BA) has been studied using palladacycle catalyst precursor 1, in the presence of sodium acetate (NaOAc) as a base and tetrabutylammonium bromide (TBAB) as a promoter in N-methyl-2-pyrrolidinone (NMP) solvent. The rate was found to be first order with respect to 4′-BAP, fractional order with the catalyst, and first order tending to zero order with NaOAc concentration. The rates passed through a maximum with variation of TBAB and n-butyl acrylate concentrations. The rate data have been analyzed to propose an empirical model, which is in good agreement with the mechanism already established for Heck reactions using palladacycle catalysts.     

The reactions of oxindoles and isatin with nitrobenzyl chlorides Formation of 2′-hydroxy-spiro[2H-indole-2,3′-3′H-indole]

Oxindole reacts with p-nitrobenzyl chloride ot give 3-(4′-nitrobenzyl) oxindole, but with o-nitrobenzyl chloride abnormal product, 2′-hydroxy-spiro[2H-indole-2,3′-3′H-indole] (Vb) is produced. The structure of Vb has been elucidated on the basis of the IR, UV and mass spectra, and confirmed by the analogous reactions of 3-methyl-, 4-methyl- and 3,3-dimethyloxindoles with o-nitrobenzyl chloride. Isatin reacts with o-nitrobenzyl chloride to give o-nitrobenzyloxireno[,3]-oxindole (X).     

Chemical examination of Tylophora asthmatica—II

Tylophorine has been degraded to a compound, identified as 2:3:6:7-tetramethoxy-9-methylphenanthrene. In conjunction with other degradation results and biogenetic considerations, tylophorine is now formulated as 2:3:6:7-tetramethoxyphenanthro(9:10:6′:7′)indolizidine.

A synthesis of the basic ring system, phenanthro-(9:10:6′:7′)indolizidine, present in tylophorine has been achieved.     

Molecular structure of free canonical 2′-deoxyribonucleosides: a density functional study

The molecular structure of isolated canonical 2′-deoxyrinobucleosides was calculated using the density functional theory. It was demonstrated that the geometry of the base unit (BU) is almost unchanged compared to free nucleobases. Only slight out-of-plane deformation of the pyrimidine ring in deoxy-cytidine is observed. The conformation of the furanose ring strongly depends on the nature and orientation of the nucleobase. All nucleosides possess different conformations of this ring. Significant influence of the steric repulsion between the nucleobase and the sugar unit (SU) on puckering of the furanose ring and variation of the C–O and glycosyl bond lengths was demonstrated. The C(3′)-endo conformer of the furanose ring is more stable at the anti-orientation BU with respect to SU. An opposite trend is observed for the syn-orientation which is additionally stabilized by an intramolecular hydrogen bond with participation of the C(5′)OH group.