Preparation of Three Decadeoxyribonucleotides Containing an Uncommon or Modified Base

Three decadeoxyribonucleotides (d-C-C-A-A-I-A-T-T-G-G, d-C-^brC-A-A-G-A-T-T-G-G and d-C-C-A-A-^mG-A-T-T-G-G) involving inosine (I), 5-bromocytidine (^brC) and 6-O-methylguanosine (^mG) were chemically synthesized based on the phosphotriester approach in milligram quantities. The procedures of full protection reaction of these uncommon or modified bases are given in detail. The phosphotriester method was then employed to synthesize all the decamers. It seems the phosphotriester method is applicable to the synthesis of oligodeoxyribonucleotide with these three odd-bases. However, slightly different procedures have to be used while deblocking the fully protected oligodeoxyribonucleotides depending upon the nature of the uncommon or modified base.     

Synthesis and properties of oligodeoxyribonucleotides containing 2’-<Emphasis Type="Italic">O</Emphasis>-(2,3-dihydroxypropyl)- and 2’-<Emphasis Type="Italic">O</Emphasis>-(2-oxoethyl)arabinouridine residues

2’-O-(2,3-Dihydroxypropyl)arabinouridine-containing oligodeoxyribonucleotides were synthesized starting from a new modified nucleoside, viz., 2’-O-(2,3-dihydroxypropyl)arabinouridine, and the corresponding 3’-phosphoramidite. Oxidation of these oligodeoxyribonucleotides with sodium periodate afforded oligonucleotides containing 2’-O-(2-oxoethyl)arabinouridine residues. Subsequent modification of the aldehyde-containing oligonucleotides involved the reactions with 9-hydrazinoacridine and N-aminooxyacetyl peptide and reductive amination by 4-(1-pyrenyl)butyrohydrazide and biotin hydrazide. Thermal stabilities of duplexes of modified oligodeoxyribonucleotides with complementary oligodeoxyribonucleotides are slightly lower than those of natural duplexes. Duplexes with complementary oligoribonucleotides are substantially destabilized.__________Published in Russian in Izvestiya Akademii Nauk. Seriya Khimicheskaya, No. 1, pp. 233–241, January, 2005.     

Nucleotides. Part XXXV. Synthesis of 3′-deoxyadenylyl-(2′–5′)-3′-deoxyadenyIyl-(2′–ω)-9-(ω-hydroxyalkyl)adenines

Via the phosphotriester approach, new structural analogs of (2′–5′)oligoadenyiates, namely 3′-deoxyadenylyl-(2′–5′)-3′-dcoxyadenylyl-(2′–ω)-9-(ω-hydroxyalkyl)adenines 18 – 21 , have been synthesized (see Scheme) which should preserve biological activity and show higher stability towards phosphodiesterases. The newly synthesized oligonucleotides 18 – 21 have been characterized by ¹H-NMR spectra, TLC, and HPLC analysis.     

Nucleotides part XXX Chemical synthesis of adenylyl-(2′ → 5′)-adenylyl-(2′ → 5′)-8-azidoadenosine,and activation and photoaffinity labelling of RNase L by [32P]p5′A2′p5′A2′p5′N38A

The chemical synthesis of adenylyl-(2′–5′)-adenylyl-(2′–5′)-8-azidoadenosine ( 15 ) was performed by the phosphotriester approach. Enzymatic phosphorylation of 15 by [γ-³²P]ATP led to the corresponding labelled 5′-monophosphate 16 . Photoinsertion of 16 took place on UV irradiation by covalent cross linking to a protein of M_r 80 K known to be RNase L. Radiobinding and core-cellulose assays as well as photoaffinity labelling experiments with 16 are described.     

Rapid chemical synthesis of d(CACGTG) in milligram amounts by solution-phase phosphotriester chemistry

This paper reports an optimised method for chemical synthesis of short oligodeoxyribonucleotides in milligram amounts by solution-phase phosphotriester chemistry. The procedure is a slight modification of one reported earlier in the literature. Detailed experimental procedures for condensation, deprotection and purification are described. The efficiency of the method is demonstrated by the synthesis of a hexamer, d(CACGTG), in good yields and high purity. The homogeneity of the product and the sequence composition are shown by 270 MHz¹H NMR spectrum.     

2-(Glucosylthio)ethyl Groups as Potential Biolabile Phosphate- Protecting Groups of Mononucleotides

The in vitro anti-HIV effects and the stability studies of mononucleoside phosphotriester derivatives 1 – 3 of 3′-azido-3′-deoxythymidine (AZT) containing 2-(glucosylthio)ethyl moieties as potential biolabile phosphate-protecting groups are reported. The results of the anti-HIV evaluation demonstrate that the described compounds act via the release of the free nucleoside analogue and cannot be considered as mononucleotide prodrugs (pronucleotides). These data can be related to the lack of substrate affinity of these derivatives towards target-enzymes as corroborated by decomposition studies in various media and experiments with a purified β-D glucosidase.     

Nucleotides. Part XXXI. Modified Oligomeric 2′–5′ A Analogues: Synthesis of 2′–5′ oligonucleotides with 9-(3′-azido-3′-deoxy-β-D-xylofuranosyl)adenine and 9-(3′-amino-3′-deoxy-β-D-xylofuranosyl)adenine as modified nucleosides

A series of new 2′–5′ oligonucleotides carrying the 9-(3′-azido-3′deoxy-β-D-xylofuranosyl)adenine moiety as a building block has been synthesized via the phosphotriester method. The use of the 2-(4-nitrophenyl)ethyl (npe) and 2-(4-nitrophenyl)ethoxycarbonyl (npeoc) blocking groups for phosphate, amino, and hydroxy protection guaranteed straightforward syntheses in high yields and easy deblocking lo form the 2′–5′ trimers 21 , 22 , and 25 and the tetramer 23 . Catalytic reduction of the azido groups in [9-(3′-azido-3′-deoxy-β-D-xylofuranosyl)adenine]2′-yl-[2′-(O^p-ammonio)→ 5′]-[9-(3′-azido-3′-deoxy-β-D-xylofuranosyl)adenin]-2′-yl-[2′-(O^p-ammonio)→ 5′]-9-(3′-azido-3′-deoxy-β-D-xylofuranosyl)adenine ( 21 ) led to the corresponding 9-(3′-amino-3′-deoxy-β-D-xylofuranosyl)-adenine 2′–5′ trimer 26 in which the two internucleotidic linkages are formally neutralized by intramolecular betaine formation.     

Mass spectra of some 2-(p-R2-phenyl)-indole-3-carboxaldehyde derivatives

The mass spectra of eight new substituted 2-(p-R²-phenyl)-indole-3-carboxyaldehydes which have potentially useful pharmacological properties, are presented.     

Synthesis of 2-chloro-5-hydroxynicotinonitrile: The required intermediate in the total synthesis of a hydroxylated metabolite of (S)-2-(3-t-butylamino-2-hydroxypropoxy)-3-cyanopyridine

A convenient method for the synthesis of 2-chloro-5-hydroxynicotinonitrile ( 10 ) via 5-amino-2-chloro-3-methylpyridine ( 3 ) is described. Subsequent conversions provided the basic metabolite 2 of (S)-2-(3-t-butylamino-2-hydroxypropoxy)-3-cyanopyridine ( 1 ). ¹³C Nmr data is also presented to characterize 2-chloro-5-fluoro-3-methylpyridine ( 5 ), a by-product in the Schiemann reaction having unexpected ¹H and ¹⁹F nmr spectra.     

Structural Chemistry of Chiral Complexes. NMR and X-ray studies on Rh1 compounds of (S)-1-[bis(p-methylphenyl)phosphino]-2-[(p-methoxybenzyl)amino]-3-methylbutane

The Rh¹(diolefin)complexes [Rh(nbd)( 2 )][PF₆] [Rh(1,5-cod)( 2 )][PF₆], and [Rh((Z)-α -acetamidocinnamic acid)( 2 )][PF₆] ( 2 = the chiral P,N-ligand (S)-1-[bis(p-methylphenyl)phospino]-2-[p-methoxybenzyl)amino]-3-methylbutane have been prepared and characterized. These complexes exit as a mixture of isomers arising from different five-membered-ring conformations and diastereoisomers due to both the prochiral nitrogen and olefin ligands. The three-dimensional solutions structures of these complexes have been studied with the specific aim of understanding how the chiral pocket is built. Aspects of the exchange dynamics and their possible relevance to homogeneous hydrogenation are discussed The solid-state structure for the nbd complex, [Rh(nbd)( 2 )][PF₆], as well as detailed one- and two-dimensional ³¹P-, ¹³C-, and ¹H-NMR results are presented.     

Mass spectra of some 2-(o-and p-R1-phenyl)-indole-3-carboxaldehyde derivatives. III

The mass spectra of sixteen substituted 2-(o- and p-R¹-phenyl)indole-3-carboxaldehydes which have potentially useful pharmacological properties are presented.     

Copper(II) complexes of potentially terdentate N2-[(R)-2-hydroxypropyl]- and N2-[(S)-2-hydroxypropyl]-(S)-phenylalaninamide for chiral recognition: Synthesis of the Ligands and Formation Constants

Copper(II) complexes of the ligands N²-[(R)-2-hydroxypropyl]- and N²-[(S)-2-hydroxypropyl]-(S)-phenylalaninamide performed chiral separation of N-dansyl-protected and unmodified amino acids in HPLC (reversed phase). With the aim of investigating which species are potentially involved in the discrimination mechanism, the two ligands were synthesized and their complexation equilibria with Cu²⁺ studied by potentiometry and spectrophotometry in aqueous solution up to pH 11.7. The formation constants of the species observed, [CuL]²⁺, [CuL₂]²⁺, [CuLH_–1]⁺, [CuL₂H_–1]⁺, [CuL₂H_–2], and [CuL₂H_–3]^?, were quite similar for both compounds and were compared to those of (S)-phenylalaninamide. Most probably, in [CuL₂H_–3]^? the ligands behave as terdentate, with the deprotonated OH group occupying an apical position.     

An infrared spectroscopic investigation on N-methyl-1,3-thiazolidine-2-thione and -2-selone

An infrared investigation cm N-methyl-1,3-thiazolidine-2-thione and -2-selone in the range 4000-200 cm^?1 is reported. The v CS and v CSe vibrations give contributions to the absorptions around 1000 cm^?1 and below 600 cm^?1. The assignments are supported by comparison of their ir spectra with those of S- and Se-methiodides. The π-bond orders of the thio- and seleno-ketonic links in these compounds are higher than those found for 1,3-imidazolidine-2-thione and -2-selone.     

Molecular and crystal structure of 4-trifluoro-2-[2-(4-fluorophenyl)hydrazine-1-ylidene]-1-(thiophen -2-yl)butane-1,3-dione

Single crystal X-ray diffraction is used to determine the crystal and molecular structure of 4-trifluoro-2-[2-(4-fluorophenyl)hydrazine-1-ylidene]-1-(thiophen-2-yl)butane-1,3-dione. Crystallographic data for C₁₄H₈F₄N₂O₂S are as follows: a = 8.2723(6) ?, b = 9.3009(7) ?, c = 9.9895(7) ?; α = 79.224(2)°, β = 75.851(2)°, γ = 72.337(2)°. Triclinic crystal system, P-1 space group, d _x = 1.622 g/cm³, V = 704.83(9) ?³, μ = 0.286 mm⁻¹, crystal size 0.30×0.20×0.20 mm, R1 = 0.0891, wR2 = 0.1989.     

Preparation and Structure of (E)-1-(3′-Hydroxy-2-Furanyl)-3-(3″-Hydroxy-4″-Methoxyphenyl)-2-Propen-1-One

Abstract

A facile procedure is presented for the synthesis of (E)-1-(3′-hydroxy-2′-furanyl)-3-(3″-hydroxy-4″-methoxyphenyl)-2- propen-1-one (6). Galactosylisomaltol (1) was condensed with isovanillin (2) under strong alkaline conditions at 25 [ddot]C to form (E)-1-(3′-O-β-D-galactopyranosyloxy-2′-furanyl)-3-(3″- hydroxy-4″-methoxyphenyl)-2-propen-1-one (4). (E)-1-(3′-hydroxy-2′-furanyl)-3-(3″-hydroxy-4″-methoxyphenyl)-2-propen-1-one (6) was obtained by acid hydrolysis of 4 in a 53.9% yield. This hetero-cyclic 2-propen-1-one was characterized on the basis of spectral data (IR and ¹H NMR), physicochemical properties, and conversion to a mono-O-acetyl derivative.     

The One Step Synthesis of 2-(2-Bromo-5- methoxyphenyl)-5-(3-arylidene)-1,3-thiazolo[3,2-b]- 1,2,4-triazol-6-(5H)-ones and the Evaluation of the Anticonvulsant Activity

A smooth one-step synthesis of 2-(2-bromo-5-methoxyphenyl)-5-(3-arylidene)-1,3-thiazolo[3,2-b]-1,2,4-triazol-6-(5H)-ones (4a–n) is described. The newly prepared compounds are characterized by analytical and IR, ¹ H NMR, ¹³ C NMR, and FABMS spectral analysis. A few compounds are screened for anticonvulsant activity. Compounds 4i and 4n exhibit promising anticonvulsant activity and are recommended for further studies.     

Synthesis and 13C NMR spectra of cis- and trans-{2-(haloaryl)-2-[(1H-imidazol)-1-yl]methyl]}-1,3-dioxolane-4-methanols

Syntheses and ¹³C nmr spectra of a number of cis and trans 2-(haloaryl)-2-[(1H-imidazol-1-yl)rnethyl]-4-(hydroxymethyl)-1,3-dioxolanes are described. The haloaryl groups are 2,4-dichloro, 2,4-difluoro-, 4-chloro-and 4-bromophenyl. In these series, some of the cis compounds become available through crystalline bromo benzoates 5 . Separations of some trans isomers are achieved through fractional crystallizations of imidazolyl benzoate nitrates 6 . Stereochemical assignments are based primarily on one major ¹³C chemical shift difference, namely that of C-4 of the 1,3-dioxolane ring, the chemical shift of the trans isomers being 1.0-2.5 ppm downfield from that of the cis isomers.     

Metal Complexes with Macrocyclic Ligands. Part XXIX.. Structural and kinetic studies of two isomeric Cu2+ complexes with 1,4-dimethyl-8-[2-(2-pyridyl)ethyl]-1,4,8,11-tetraazacyclotetradecane

The synthesis and complexation properties of 1,4-dimethyl-8-[2-(2-pyridyl)ethyl]-1,4,8,11-tetraazacyclotetra-decane ( 2 ) are described. This ligand forms with Cu²⁺ two complexes, one of which has been characterized by X-ray structure analysis. The structural, spectral, and kinetic studies indicate that the two Cu²⁺ complexes are isomers with the macrocycle in the trans-III and trans-I configuration. The rate of the interconversion of the trans-I isomer to the thermodynamically more stable trans-III species is proportional to [OH^?]. A mechanism for this reaction is proposed.     

Synthesis of 2-(p-R-benzoylmethylene)-3-(p-R-phenyl)-1H-quinoxalines

The reaction of 1,2-diaminobenzenes with substituted 1,2-dibenzoyl-1,2-dibromoethanes constitutes a convenient synthetic route to the hitherto 2-(p-R-benzoylmethylene)-3-(p-R-phenyl)-1H-quinoxalines. Structures of all products were elucidated by ir, ¹H and ¹³C-nmr, mass spectra data. X-Ray crystallography data confirm assigned structures.