3-Deazaguanine N7- and N9-(2′-Deoxy-β-D-ribofuranosides): Building Blocks for Solid-Phase Synthesis and Incorporation into Oligodeoxyribonucleotides

Oligonucleotides continuing 3-deaza-2′-deoxyguanosine ( I ) or its N⁷-regioisomer 2 were prepared by solid-phase synthesis using P¹¹¹ chemistry. Protection of ¹ or ² with N,N V-dimethylformamide diethyl acetal followed by 4,4′-dimethoxytritylation afforded imidazo[4,5-c]pyridines 10b and 11b , respectively. The latter were converted into the 3′-phosphonates 10c or lie, respectively; the cyanoethyl N,N-diisopropylphosphoramidite 10d was also prepared. The oligonucleotide building blocks were employed in automated solid-phase synthesis. 1 he self-complementary oligomers 13 , 15 , and 17 were prepared and characterized by enzymatic hydrolysis with snake-venom phosphodiesterase followed by alkaline phosphatase. There CD spectra exhibited the general structure of a B-DNA.     

Biosynthetic Production of [N2,1,3,7,9-15N]Guanosine and [1,3,7,9-15N]inosine and conversion into [N6,1,3,7,9-15N]adenosine for structure elucidation of RNA by heteronuclear NMR

A procedure was developed for the biosynthetic preparation of ¹⁵N-labelled guanosine and inosine through the action of a mutant Bacillus subtilis strain. Crude [N²,1,3,7,9-¹⁵N]guanosine and [1,3,7,9-¹⁵N]inosine were isolated from the culture filtrate by precipitation and anion-exchange chromatography (Scheme 1). No cell lysis and no enzymatic degradation was necessary. The per-isobutyrylated derivatives 1 and 2 were isolated from a complex mixture, purified by virtue of their different lipophilicity, and separated in three steps involving normal-and reversed-phase silica-gel chromatography. One litre of complex nutrient medium yielded 8.44 mmol of guanosine derivative and 2.84 mmol of inosine derivative with high average ¹⁵N enrichment (83.5 and 91.9 atom-%, resp.). [N⁶,1,3,7,9-¹⁵N]Adenosine ( 4 ) was obtained from 2′,3′,5′-tri-O-isobutyryl[1,3,7,9-¹⁵N]inosine ( 1 ) through the ammonolysis of its 1,2,4-triazolyl derivative with aqueous ¹⁵NH₃ (Scheme 2).     

Thioureas from 3-aminoquinazolin-4(3H)-one. 2. Unusual alkaline recyclization of 3-(N",N",S-trialkylisothioureido)quinazolin-4(3H)-ones into new 1,3,4-oxadiazoles

3-(N",N",S-trialkylisothioureido)quinazolin-4(3H)-ones obtained by the reactions of 3-(N",N"-dialkylthioureido)quinazolin-4(3H)-ones with alkyl halides undergo unusual recyclization into 5-(2-aminophenyl)-2-dialkylamino-1,3,4-oxadiazoles under the action of aqueous solutions of alkali, hydrazine, and primary aliphatic amines. A plausible mechanism of the recyclization was proposed.     

Selective N3- and 5′-O-Alkylation of 2′,3′-O-isopropylideneuridine with methyl iodide

The 2′,3′-O-isopropylideneuridine ( 1 ) reacts with MeI in the presence of an excess of NaH in THF giving 2′,3′-O-isopropylidene-5′-O-methyluridine ( 2 ). Prolonged reaction time gives rise to 2′,3′-O-isopropylidene-3,5′-O-dimethyluridine ( 4 ). The use of an equimolar amount of base and alkylating agent results predominantly in methylation at N(3) (→ 3).     

Synthesis and characterization of metal complexes of 3-( N -phenyl)-thiourea-pentanone-2

Copper and cobalt complexes derived from 3-(N-phenyl)-thiourea-pentanone-2 were characterized by elemental, XRD, FTIR, UV–Vis, SEM and ¹H NMR spectroanalytical studies. The X-ray diffraction studies indicate that 3-(N-phenyl)-thiourea-pentanone-2 and complexes with copper and cobalt are crystalline in nature with simple cubic lattice structure. IR spectroscopic data were used to assign characteristic vibrational frequencies of groups present in these compounds. Scanning electron micrograms were used to assign morphology and particle size.     

Variants of Solid-State and Solution Structures of (η3-Allyl)- {2-[2′-(diphenylphosphino)phenyl]-4,5-dihydrooxazole-P,N}palladium(II) hexafluorophosphates and tetraphenylborates

Crystal and solution structures of the enantiomerically pure and the racemic pairs of (η³-allyl) {2-[2′-(diphenylphosphino)phenyl]-4,5-dihydro-4-phenyloxazole}palladium(II) hexafluorophosphates ( 1 , and rac- 1 , resp.) and tetraphenylborates ( 2 , and rac- 2 , resp.) as well as (η³-allyl){2-[2′-(diphenylphosphino)phenyl]-4,5-dihydro-4-isopropyloxazole}palladium(II) tetraphenylborate ( 3 ) were characterized by X-ray crystallography and ¹H-NMR spectroscopy. In the solid state, rac- 1 and rac- 2 proved to be disordered with both diastereoisomeric complexes in the crystal. The complexes 2 and 3 exist only in the ‘exo’ form. The X-ray structures show that the [Pd^II(η³-allyl)] moiety may adopt different configurations between a nearly symmetrical three-electron Pd^II(π³-allyl) system and an asymmetrical allyl group with a η¹- and a η²-bonding to the metal center. The [Pd^II(η³-allyl)] system of rac- 1 and of ‘endo’ rac- 2 is closer to the former, and that of 2 , ‘exo’-rac- 2 , and 3 closer to the later geometry. The ¹H-NMR spectra of the hexafluorophosphates 1 and rac- 1 show two sets of signals of the allylic protons in an ‘exo’/‘endo’ ratio of 2:3. The tetraphenylborates 2, rac- 2 , and 3 give only one set of broad signals of the allylic protons.     

N7-DNA: Synthesis and Base Pairing of Oligonucleotides Containing N7-(2-Deoxy-β-D-erythro-pentofuranosyl)guanine (N7Gd)

The synthesis of oligonucleotides containing N⁷-(2-deoxy-β-D -erythro-pentofuranosyl)guanine (N⁷G_d; 1 ) is described. Compound 1 was prepared by nucleobase-anion glycosylation of 2-amino-6-methoxypurine ( 5 ) with 2-deoxy-3,5-di-O-(4-toluoyl)-α-D -erythro-pentofuranosyl chloride ( 6 ) followed by detoluoylation and displacement of the MeO group ( 8→10→1 ). Upon base protection with the (dimethylamino)methylidene residue (→ 11 ) the 4,4-dimethoxytrityl group was introduced at OH? C(5′) (→ 12 ). The phosphonate 3 and the phosphoramidite 4 were prepared and used in solid-phase oligonucleotide synthesis. The self-complementary dodecamer d(N⁷G? C)₆ shows sigmoidal melting. The T_m of the duplex is 40°. This demonstrates that guanine residues linked via N(7) of purine to the phosphodiester backbone are able to undergo base pairing with cytosine.     

Reaction of ketenes with N,N-disubstituted α-aminomethyleneketones. XII. Synthesis of N,N-disubstituted 4-amino-3-chloro-6-(2-methyl-l-propenyl) (2-phenylethenyl)-2H-pyran-2-ones

Cycloaddition of dichloroketene to N,N-disubstituted (E)-amino-5-methyl-1,4-hexadien-3-ones IV and (E,E)-1-amino-5-phenyl-1,4-pentadien-3-ones V occurred in moderate to good yield only in the case of aromatic N-substitution to give N,N-disubstituted 4-amino-3,3-dichloro-3,4-dihydro-6-(2-methyl-l-propenyl) (2-phenylethenyl)-2H-pyran-2-ones, which were dehydrochlorinated with DBN to afford in good yield N,N-disubstituted 4-amino-3-chloro-6-(2-methyl-propenyl)(2-phenylethenyl)-2H-pyran-2-ones. In the case of aliphatic N,N-disubstitution (dimethylamino group) of enaminones IV and V, the Cycloaddition led directly in low yield to 3-chloro-4-dimethylamino-6-(2-methyl-l-propenyl)(2-phenylethenyl)-2H-pyran-2-ones.     

Exceptional Products of the Desulfurization of N,2-Diaryl-5-(arylimino)- 2,5-dihydro-4-nitroisothiazol-3-amines

The desulfurization of several N,2-diaryl-5-(arylimino)-2,5-dihydro-4-nitroisothiazol-3-amines 5 with Ph₃P led to complex mixtures of products in low yields. For instance, quinoxaline-2-carboxamide 1-oxides of type 6 (Scheme 2) and, in some cases, also 3-nitroquinolines of type 7 (Scheme 5) were isolated. By the desulfurization of the substituted derivatives 5b – e , a rearrangement of the intermediates yielded 6 and 7 with a different substitution pattern from that expected from the starting materials (Scheme 3). The additional formation of two isomeric 1,2,5-oxadiazole-3-carboxamides 8 was observed only in the case of 5d (R¹=R²=F) (Scheme 6). Under the same reaction conditions, the major product of the desulfurization of 5c was the quinoxaline-2-carboxamide 1-oxide 9 (Scheme 7). Reaction mechanisms involving intermediate ketene imines and O transfer from the NO₂ group to the neighboring ketene imine are proposed. The structures of 6a , 6e , 6k , 7b , and 8d were established by X-ray crystallography, while the structure of 9 was elucidated by 2D-NMR spectroscopy and corroborated by X-ray crystallography.     

Studies on the Base-Pairing Properties of N7-(2-Deoxy-β-D-erythro-pentofuranosyl)guanine (N7Gd)

The base-pairing properties of N⁷-(2-deoxy-β-D -erythro-pentofuranosyl)guanine (N⁷G_d; 1 ) are investigated. The nucleoside 1 was obtained by nucleobase-anion glycosylation. The glycosylation reaction of various 6-alkoxy-purin-2-amines 3a - i with 2-deoxy-3,5-di-O-(4-toluoyl)-α-D -erythro-pentofuranosyl chloride ( 8 ) was studied. The N⁹/N⁷-glycosylation ratio was found to be 1:1 when 6-isopropoxypurin-2-amine ( 3d ) was used, whereas 6-(2-methoxyethoxy)purin-2-arnine ( 3i ) gave mainly the N⁹-nucleoside (2:1). Oligonucleotides containing compound 1 were prepared by solid-phase synthesis and hybridized with complementary strands having the four conventional nucleosides located opposite to N⁷G_d. According to T_m values and enthalpy data of duplex formation, a base pair between N⁷G_d and dG is suggested. From the possible N⁷G_d dG base pair motives, Hoogsteen pairing can be excluded as 7-deaza-2′-deoxyguanosine forms the same stable base pair with N⁷G_d as dG.     

Die 3-(N,N-Dimethylamino)prop-1-enyl-Gruppe als Chelatligand in Organoindium-Verbindungen

The 3-(N,N-Dimethylamino)prop-1-enyl Group as a Chelate Ligand in Indium Organyls InBr₃ reacts with Me₂NCH₂CH?CHMgCl (molar ratio 1 : 2) to form (Me₂NCH₂CH?CH)₂InBr ( 1 ) as the first indium alkenyl compound with amino-functionalized alkenyl groups. The X-ray structure determination shows the formation of a chelate complex. 1 crystallizes in the orthorhombic space group Fddd with the unit cell parameters a = 14.904(2) Å, b = 17.140(1) Å and c = 21.035(2) Å. By reaction of Me₂InBr with Me₂NCH₂CH?CHMgCl (molar ratio 1 : 1) (Me₂NCH₂CH?CH)InMe₂ ( 2 ) is formed as a colorless, at room temperature liquid, monomeric compound. The n.m.r. and mass spectra are discussed.     

Synthesis and Copper(I) Complexes of a Series of 9- to 13-Membered N3 Macrocycles

Eight cyclic triamines with ring sizes between 9 and 13 were synthesized by the p-toluenesulfonate method. The open-chain triamines bis(2-aminoethyl)amine (dien) and bis(3-aminopropyl)amine (diprop) were used as starting materials. In some cases, the corresponding dimeric cyclic hexaamines have been isolated and characterized as major by-products. The complexation of Cu(I) by the triamines has been studied potentiometrically in CH₃CN/H₂O. All ligands L form ternary complexes [Cu(CH₃CN)L]⁺. The corresponding association constants vary between 10¹¹ and 10⁷, decreasing with increasing ring size. In addition, complexes [Cu(CH₃CN)_yLH]²⁺, y = 1 or 2, are found as less important species with maximum concentrations of 7 to 50%.     

8-Aza-7-deazaadenine N8- and N8-(β-D-2′-Deoxyribofuranosides): Building blocks for automated DNA synthesis and properties of oligodeoxyribonucleotides

Oligonucleotides with alternating 8-aza-7-deaza-2′-deoxyadenosine (= c⁷z⁸A_d2) and dT residues (see 11, 14 and 16 ) or 4-aminopyrazolo [3,4-d] pyrimidine N²-(β-D -2′-deoxyribofuranoside) (= c⁷z⁸A′_d¹); ( 3 ) and dT residues (see 12 ) have been prepared by solid-phase synthesis using P(III) chemistry, Additionally, palindromic oligomers derived from d(C-T-G-G-A-T-C-C-A-G) but containing 2 or 3 instead of dA (see 18 – 22 ) have been synthesized. Benzoylation of 2 or 3 , followed by 4,4′-dimethoxytritylation and subsequent phosphitylation yielded the methyl or the cyanoethyl phosphoramidites 8a,b and 9 . They were employed in automated. DNA synthesis. Alternating oligomers containing 2 or 3 showed increase dT_m values compared to those with dA, in particular 12 with an unusual N²-glycosylic bond. The palindromic oligomers 18 - 22 containing 2 or 3 instead of dA outside of the enzymic recognition side reduced the hydrolysis rate, replacement within d(G-A-T-C) abolished phosphodiester hydrolysis.     

Mixed pseudohalide complexes of copper(II). Crystal and molecular structure of [Cu(N3)(NCS)(tmen)] n and of [Cu(N3)(NCO)(tmen)]2 (tmen = N,N,N′,N′-tetramethylethylenediamine)

The compounds [Cu(N₃)(NSC)(tmen)]_n (1), [Cu(N₃)(NCO)(tmen)]_n (2) and [Cu(N₃)(NCO)(tmen)]₂ (3) (tmen=N,N,N′,N′-tetramethylethylenediamine) were synthesized and studied by i.r. spectroscopy. Single crystals of compounds (1) and (3) were obtained and characterized by X-ray diffraction. The structure of compound (1) consists of neutral chains of copper(II) ions bridged by a single azido ligand showing the asymmetric end-to-end coordination fashion. Each copper ion is also surrounded by the other three nitrogen atoms; two from one N,N,N′,N′-tetramethylethylenediamine and one from a terminal bonded thiocyanate group. Compound (2) decomposes slowly in acetone and the product formed [Cu(N₃)(NCO)(tmen)]₂ (3) crystallizes in the monoclinic system (P2₁). The structure of (3) consists of dimeric units in which the Cu atoms are penta-coordinated and connected by μ(1,3) bridging azido and cyanate ligands. In both cases the five coordinated atoms give rise to a slightly distorted square-based pyramid coordination geometry at each copper ion. The thermal behavior of [Cu(N₃)(NSC)(tmen)]_n (1) and [Cu(N₃)(NCO)(tmen)]_n (2) were investigated and the final decomposition products were identified by X-ray powder diagrams.     

Die Schmelzdiagramme der Systeme CsN3/Zn(N3)2 und KN3/Zn(N3)2

The phase diagrams of the systems CsN₃/Zn(N₃)₂ and KN₃/Zn(N₃)₂ have been obtained employing the microscopic technique ofL. Kofler andA. Kofler. Within the system CsN₃/Zn(N₃)₂ three eutectics at 148°C, 142°C, and 210°C were found. Besides Cs₂Zn(N₃)₄, melting incongruently in the interval 153°C to 170°C, there exist two further compounds of the most probable composition Cs₃Zn₂(N₃)₇ and CsZn₂(N₃)₅, melting congruently at 170°C and 210°C, resp. In the system KN₃/Zn(N₃)₂ there exist two eutectics at 203°C and 172°C and two compounds, one of them, i.e. K₂Zn(N₃)₄, melting congruently at 206°C, the other one, with composition KZn₃(N₃)₇ or KZn₄(N₃)₉, melting incongruently at 210°C.

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Mit 8 Abbildungen

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Herrn Professor Dr.Heribert Grubitsch zum 70. Geburtstag gewidmet.     

1H, 13C and 15N NMR observations on the protonation of 1- and 3-deazapurine

Using ¹H, ¹³C and ¹⁵N NMR it has been concluded that 3-deazarpurine protonates exclusively at N-1 with a pK of about 5.6. The base exhibits rapid tautomerism with proportions of 70:30, with the N–7-H tautomer in the majority. The salt exists predominantly as the N-7-H tautomer. 1-Deazapurine protonates essentially in a 1:1 ratio at N-3 and at the imidazole ring, with a pK of about 3.1. This base also exhibits rapid tautomerism with proportions of 30:70, this time with the N-9-H in the majority. The salt also exists in a tautomcric mixture with approximately equal proportions. One form has N-3 and N-9 bearing hydrogens and the other has N-7 and N-9 bearing hydrogens.     

Crystal structure of a new complex of [3-(1 H -benzimidazol-yl)propionato- N ][3-(1 H -benzimidazol-yl) propionic acid- N ]silver(I), C20H19AgN4O4

The silver and acid hydrogen atoms in the crystal structure of [Ag(pa)(Hpa)] _n (Hpa?=?3-(1H-benzimidazol-2-yl) propionic acid-N) both lie on special positions of ?1 site symmetry; the silver atom shows linear coordination [Ag–N?=?2.109(3)?Å, N–Ag–N?=?180°]. The ‘acid hydrogen’ links molecules into a linear chain, and hydrogen bonds between the nitrogen-bound hydrogen atom and the carbonyl oxygen atom of an adjacent chain furnish a three-dimensional supramolecular structure. The compound, C₂₀H₁₉AgN₄O₄, belongs to the triclinic space group P 1 [a?=?6.536(7), b?=?8.127(9), c?=?9.051(1)?Å; α?=?81.692(2), β?=?82.819(2), γ?=?87.229(2)°], and there is one formula unit in the unit cell.     

Sr3P3N7: Complementary Approach by Ammonothermal and High-Pressure Syntheses

Nitridophosphates exhibit an intriguing structural diversity with different structural motifs, for example, chains, layers or frameworks. In this contribution the novel nitridophosphate Sr₃P₃N₇ with unprecedented dreier double chains is presented. Crystalline powders were synthesized using the ammonothermal method, while single crystals were obtained by a high-pressure multianvil technique. The crystal structure of Sr₃P₃N₇ was solved and refined from single-crystal X-ray diffraction and confirmed by powder X-ray methods. Sr₃P₃N₇ crystallizes in monoclinic space group P2/c. Energy-dispersive X-ray and Fourier-transformed infrared spectroscopy were conducted to confirm the chemical composition, as well as the absence of NH_x functionality. The optical band gap was estimated to be 4.4 eV using diffuse reflectance UV/Vis spectroscopy. Upon doping with Eu²⁺, Sr₃P₃N₇ shows a broad deep-red to infrared emission (λ_em=681 nm, fwhm≈3402 cm⁻¹) with an internal quantum efficiency of 42 %.