The base pairing properties of 8-aza-7-deaza-2'-deoxyisoguanosine and 7-halogenated derivatives in oligonucleotide duplexes with parallel and antiparallel chain orientation

The base pairing properties of oligonucleotide duplexes containing 8-aza-7-deaza-2′-deoxyisoguanosine, its 7-bromo or its 7-iodo derivative are described. The nucleosides were synthesized on a convergent route, protected and converted into phosphoramidites. Oligonucleotides were prepared on a solid-phase and were hybridized to yield duplexes with parallel (ps) or antiparallel (aps) chain orientation. The 8-aza-7-deaza-2′-deoxyisoguanosine-containing duplexes show almost identical base pairing stability as those containing 2′-deoxyisoguanosine, while the 7-substituted derivatives induce a significant duplex stabilization both in ps and aps DNA. Self-complementary duplexes with parallel chain orientation are exceptionally stable due to the presence of 5′-overhangs. The bulky halogen substituents were found to be well accommodated in the grooves both of aps and ps DNA.     

Parallel-stranded duplex DNA containing dA · dU base pairs

DNA oligonucleotides with dA and dU residues can form duplexes with trans d(A · U) base pairing and the sugar-phosphate backbone in a parallel-stranded orientation, as previously established for oligonucleotides with d(A · T) base pairs. The properties of such parallel-stranded DNA (ps-DNA) 25-mer duplexes have been characterized by absorption (uv), CD, ir, and fluorescence spectroscopy, as well as by nuclease sensitivity. Comparisons were made with duplex molecules containing (a) dT in both strands, (b) dU in one strand and dT in the second, and (c) the same base combinations in reference antiparallel-stranded (aps) structures. Thermodynamic analysis revealed that total replacement of deoxythymine by deoxyuridine was accompanied by destabilization of the ps-helix (reduction in T_m by −13°C in 2 mM MgGl₂, 10 mM Na-cacodylate). The U-containing ps-helix (U1 · U2) also melted 14°C lower than the corresponding aps-helix under the same ionic conditions; this difference was very close to that observed between ps and aps duplexes with d(A · T) base pairs. Force field minimized structures of the various ps and aps duplexes with either d(A · T) or d(A · U) base pairs ps/aps and dT/dU combinations are presented. The energy-minimized helical parameters did not differ significantly between the DNAs containing dT and dU. © 1996 John Wiley & Sons, Inc.     

Alkene rotation in [Ru(η-C5H5) (L2) (η-alkene][CF3SO3] with L2 = iPr- or pTol-diazabutadiene. X-ray crystal structure of [Ru(η-C5H5(pTol-DAB) (η-ethene][CF3SO3]

Reaction of RuCl(η⁵-C₅H₅(pTol-DAB) with AgOTf (OTf = CF₃SO₃) in CH₂Cl₂ or THF and subsequent addition of L′ (L′ = ethene (a), dimethyl fumarate (b), fumaronitrile (c) or CO (d) led to the ionic complexes [Ru(η⁵-C₅H₅)(pTol-DAB)(L′)][OTf] 2a, 2b and 2d and [Ru(η⁵-C₅H₅)(pTol-DAB)(fumarontrile-N)][OTf] 5c. With the use of resonance Raman spectroscopy, the intense absorption bands of the complexes have been assigned to MLCT transitions to the iPr-DAB ligand. The X-ray structure determination of [Ru(η⁵-C₅H₅)(pTol-DAB)(η²-ethene)][CF₃SO₃] (2a) has been carried out. Crystal data for 2a: monoclinic, space group P2₁/n with A = 10.840(1), b = 16.639(1), C = 14.463(2) Å, β = 109.6(1)°, V = 2465.6(5) ų, Z = 4. Complex 2a has a piano stool structure, with the Cp ring η⁵-bonded, the pTol-DAB ligand σN, σN′ bonded (Ru-N distances 2.052(4) and 2.055(4) Å), and the ethene η²-bonded to the ruthenium center (Ru-C distances 2.217(9) and 2.206(8) Å). The C = C bond of the ethene is almost coplanar with the plane of the Cp ring, and the angle between the plane of the Cp ring and the double of the ethene is 1.8(0.2)°. The reaction of [RuCl(η⁵-C₅H₅)(PPh)₃ with AgOTf and ligands L′ = a and d led to [Ru(η⁵-C₅H₅)(PPh₃)₂(L′)]OTf] (3a) and (3d), respectively. By variable temperature NMR spectroscopy the rottional barrier of ethene (a), dimethyl fumarate (b and fumaronitrile (c) in complexes [Ru(η⁵-C₅H₅)(L₂)(η²-alkene][OTf] with L₂ = iPr-DAB (a, 1b, 1c), pTol-DAB (2a, 2b) and L = PPh₃ (3a) was determined. For 1a, 1b and 2b the barrier is 41.5±0.5, 62±1 and 59±1 kJ mol⁻¹, respectively. The intermediate exchange could not be reached for 1c, and the ΔG^# was estimated to be at least 61 kJ mol⁻. For 2a and 3a the slow exchange could not be reached. The rotational barrier for 2a was estimated to be 40 kJ mol⁻. The rotational barier for methyl propiolate (HC≡CC(O)OCH₃) (k) in complex [Ru(η⁵-C₅H₅)(iPr-DAB) η²-HC≡CC(O)OCH₃)][OTf] (1k) is 45.3±0.2 kJ mol⁻¹. The collected data show that the barrier of rotational of the alkene in complexes 1a, 2a, 1b, 2b and 1c does not correlate with the strength of the metal-alkene interaction in the ground state.     

PARALLEL DNA CONTAINING PYRAZOLO[3,4-D]PYRIMIDINE ANALOGUES OF ISOGUANINE

The phosphoramidites of 8-aza-7-deaza-2′-deoxyisoguanosine (1a) and its bromo derivative 1b as well as of 6-aza-2′-deoxyisocytidine and its 5-methyl derivative (3a,b) were synthesized. Parallel-stranded duplexes containing the nucleosides 1a,b show a significantly enhanced duplex stability compared to those containing 2′-deoxyisoguanosine.     

Synthesis of 3-methylpseudouridine and 2′-deoxy-3-methyl-pseudouridine

The first chemical synthesis of 3-methyl-ψ-uridine (5) and its 2′-deoxy analogue (9) has been achieved. ψ-Uridine was trimethylsilylated and the crude product was treated with acetyl chloride, to give the 1-acetyl derivative (3). Crude 3 was methylated with dimethoxymethyldimethylamine and then saponified, to give crystalline 5 in 82% overall yield. Treatment of 5 with 1,3-dichloro-1,1,3,3-tetraiso-propyldisiloxane afforded the 3′,5′-protected product, which was converted into the 2′-O-[(imidazol-1-yl)thiocarbonyl] derivative 7. Reduction of 7 with tributyltin hydride followed by deblocking of the product gave crystalline 2′-deoxy-3-methyl-ψ-uridine (9) in 35% yield from 5.     

Reactions of tungsten phosphonium carbyne complexes with aryloxide nucleophiles to form aryloxycarbyne and η-ketenyl complexes

Tungsten phosphoranylideneketene complexes of the type Tp′(CO)(p-OC₆H₄R)W(η²-(C,C)---O=CC---PR′₂Ph) (R=NO₂, R′=Me (6a); R=NO₂, R′=Ph (6b); R=CN, R′=Me (7a); R=CN, R′=Ph (7b); R=Cl, R′=Ph (8b)) have been synthesized from phosphonium carbyne precursors in a reaction that reflects coupling of carbonyl and carbyne ligands. In addition to these products, aryloxycarbyne complexes Tp′(CO)₂WCO(p-C₆H₄NO₂) (9a), Tp′(CO)₂WCO(p-C₆H₄CN) (9b), and Tp′(CO)₂WCO(p-C₆H₄Cl) (9c)) have been prepared via substitution of the phosphonium carbyne phosphine with an aryloxide nucleophile. The product ratio of substitution at the carbyne carbon to carbonyl–carbyne coupling can be tuned by variation of the aryloxide para-substituent. Aryloxy carbyne complexes are the favored products with stronger nucleophiles, while weaker nucleophiles result in a mixture of aryloxy carbyne complexes and η²-ketenyl coupled complexes. Formation of η²-ketenyl complexes is favored for the least nucleophilic aryloxides. Ketenyl complexes 6a and 6b were methylated at the ketenyl oxygen to form cationic alkyne complexes [Tp′(CO)(p-OC₆H₄NO₂)W(η²-(C,C)---CH₃OCCPR₂Ph)][OTf] (R=Me (10a), R=Ph (10b)). The structures of η²-ketenyl complexes 6a and 7b and the structure of cationic alkyne complex 10a were determined by X-ray crystallography.     

On the reduction behaviour of 2-methoxyethyl and 2-methylthioethyl substituted zirconocene dichlorides: crystal structure of (η,σ-C5Me4CH2CH2S)2Zr

A reduction of previously reported 2-methoxyethyl and 2-methylthioethyl functionalized zirconocenedichlorides (η⁵-C₅Me₄CH₂CH₂EMe)(η⁵-C₅Me₅)(ZrCl₂ (E = O, S) and (η⁵-C₅Me₄CH₂CH₂EMe)(η⁵-C₅Me₄CH₂CH₂E′Me)ZrCl₂ (E = O, S; E′ = O, S) with Mg/Hg in THF leads unexpectedly to the products of O---Me and S---Me bond cleavage (η⁵,σ-C₅Me₄CH₂CH₂E)(η⁵-C₅Me₅)ZrMe (E = O, S), (η⁵,σ-C₅Me₄CH₂CH₂E)(η⁵-C₅Me₄CH₂CH₂E′Me)ZrMe (E = O, S; E′ = O), and (η⁵,σ-C₅Me₄CH₂CH₂S)₂Zr respectively. The crystal structure of (η⁵,σ-C₅Me₄CH₂CH₂S)₂Zr was established by X-ray analysis. At that same time the reduction of (ηsu5-C_{5Me4CH2CH2EMe)(η⁵-C5Me5)ZrCl2 (E> = O, S)} under 1 atm of CO gives either only the dicarbonyl derivative (η⁵-C₅Me₄CH₂CH₂EMe) (η⁵-C₆Me₅)Zr(CO)₂ (E = O) or a complex mixture of products (E = S).     

Neolignans from Ocotea catharinensis

Bark, wood and leaves of Ocotea catharinensis contain respectively 10 (average yield 0.7%.), 15 (average yield 0.004%.) and one (yield 0.4%.) neolignans of the bicyclo[3.2.1]octanoid and the hydrobenzofuranoid structural types, including the new rel-(7S,8R,1′R,4′S,5′R,6′R)-Δ^8′-4′,6′-dihydroxy-5′-methoxy-3,4-methylenedioxy-3′-oxo-8.1′,7.5′-neolignan, (7S,8S)-Δ^{1′,3′,5′,8′}-5,3′,5′-trimethoxy-3,4-methylenedioxy-8.1′,7.O.6′,4.O.7′-neolignan, (7R,8S,1′R,3′R)-Δ^5′,8′-3,4,3′,5′-tetramethoxy-4′-oxo-8.1′,7.O.6′-neolignan and rel-(7R,8S,1′R,2′S)-Δ^4′,8′-2′-hydroxy-3,4-dimethoxy-3′-oxo-8.1′,7.O.2′-neolignan.     

Misdirected π-donor ligands: (η-C5H5)2Zr(Cl) (SR) with sterically more demanding R groups have lower rotational barriers

Rotational barriers about the M-S bonds of 16-electron bent metallocene monothiolates (η⁵-C₅H₅)₂Zr(Cl) (SR) (R = −CH₃, −CH₂CH₃, −CH(CH₃)₂, −C(CH₃)₃) (1a–d) have been measured by dynamic ¹H NMR methods: 32, 33, 35 and 26 kJ mol⁻¹, respectively. The ground-state orientation about the Zr-S bonds of 1 that maximizes Spπ → Mdπ bonding (Cl-Zr-S-R ≈ 90°) also maximizes CpR steric interaction, whereas the rotational transition-state orientation (Cl-Zr-S-R ≈ 0°) is one that minimizes Spπ → Mdπ bonding and maximizes ClR steric interaction. Deviation from a ground-state orientation that is ideal for Spπ → Mdπ bonding might be expected as the size of the R group and CpR steric interaction increases. Thus, the aberrant trend for the R = −C(CH₃)₃ derivative could be attributed to a ground-state steric effect where the sterically demanding −C(CH₃)₃ group forces an unfavorable (misdirected) orientation for Mdπ-Spπ bonding, but a favorable orientation with respect to CpR and ClR steric interactions. However, the solid-state structures of (η⁵-C₅H₅)₂Zr(SR)₂ (R = −CH₃, −CH₂CH₃, −CH(CH₃)₂, −C(CH₃)₃) (2a–d) exhibit regular variation of their metric parameters as evidenced by their Zr-S-C bond angles of 108, 109, 113, and 124° and S-Zr-S′ bond angles of 97, 99, 100 and 106°, respectively. Neither the S′-Zr-S-R torsion angles nor the dihedral angles that describe the relationship between the S/Zr/S′ and Cp(centroid)/Zr/Cp′ (centroid) planes (both indicators of the relative orientation of the Zr dπ acceptor orbital and the thiolate S pπ donor orbital) reflect the steric demand of the R group. Thus, the size of the R group imposes a measured effect on the geometry of 2 and the tert-butyl group is not extraordinary. Although the enthalpic and entropic effects could not be deconvoluted for rotation about the Zr-S bond of 1 in the present study, literature precedents suggest that both enthalpic and entropic effects may play a role in determining the irregular trend that is observed.     

PARALLEL AND ANTIPARALLEL DNA: FLUORESCENCE QUENCHING OF ETHIDIUM BROMIDE BY 7-DEAZAPURINES

The fluorescence quenching of ethidium bromide caused by 7-deaza-2′-deoxyguanosine or 7-deaza-2′-deoxyisoguanosine is observed in DNA with parallel or anti-parallel chain orientation.     

Angiotensin II and angiotensin-(1-7) inhibit the inner cortex Na+ -ATPase activity through AT2 receptor

In the present paper, the modulation of the basolateral membrane (BLM) Na⁺-ATPase activity of inner cortex from pig kidney by angiotensin II (Ang II) and angiotensin-(1–7) (Ang-(1–7)) was evaluated. Ang II and Ang-(1–7) inhibit the Na⁺-ATPase activity in a dose-dependent manner (from 10⁻¹¹ to 10⁻⁵ M), with maximal effect obtained at 10⁻⁷ M for both peptides. Pharmacological evidences demonstrate that the inhibitory effects of Ang II and Ang-(1–7) are mediated by AT₂ receptor: The effect of both polypeptides is completely reversed by 10⁻⁸ M PD 123319, a selective AT₂ receptor antagonist, but is not affected by either (10⁻¹²–10⁻⁵ M) losartan or (10⁻¹⁰–10⁻⁷ M) A779, selective antagonists for AT₁ and AT_(1–7) receptors, respectively. The following results suggest that a PTX-insensitive, cholera toxin (CTX)-sensitive G protein/adenosine 3′,5′-cyclic monophosphate (cAMP)/PKA pathway is involved in this process: (1) the inhibitory effect of both peptides is completely reversed by 10⁻⁹ M guanosine 5′-O-(2-thiodiphosphate) (GDPβS; an inhibitor of the G protein activity), and mimicked by 10⁻¹⁰ M guanosine 5′-O-(3-thiotriphosphate) (GTPγS; an activator of the G protein activity); (2) the effects of both peptides are mimicked by CTX but are not affected by PTX; (3) Western blot analysis reveals the presence of the G_s protein in the isolated basolateral membrane fraction; (4) (10⁻¹⁰–10⁻⁶ M) cAMP has a similar and non-additive effect to Ang II and Ang-(1–7); (5) PKA inhibitory peptide abolishes the effects of Ang II and Ang-(1–7); and (6) both angiotensins stimulate PKA activity.     

Olefin versus sulfur coordination of benzo[b]thiophene (BT) in Cp(CO)2Re(η:η-μ2-BT)Cr(CO)3

Reactions of Cr(CO)₃(η⁶-BT), in which the Cr is π-coordinated to the benzene ring of benzo[b]thiophene (BT), with Cp′(CO)₂Re(THF), where Cp′ = η⁵-C₅H₅ or η⁵-C₅Me₅, give the products Cp′(CO)₂Re(η²:η⁶-μ₂-BT)Cr(CO)₃ in which the Cr remains coordinated to the benzene ring and Re is bound to the C(2)=C(3) double bond. An X-ray diffraction study of Cp(CO)₂Re(η²:η⁶-μ₂-BT)Cr(CO)₃ (3) provides details of the geometry. This structure contrasts with that of the Cp′(CO)₂Re(BT) complexes that exist as mixtures of isomers in which the BT is coordinated to the Re through either the double bond (2,3-η²) or the sulfur (η¹(S)). Thus, the electron-withdrawing Cr(CO)₃ group in 3 stabilizes the 2,3-η² mode of BT coordination to the Cp′(CO)₂Re fragment. Implications of these results for catalytic hydrodesulfurization of BT are discussed. Crystal data for 3: triclinic, space group

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Anthroyl stearate as a fluorescent probe of chloroplast membranes

1. A reversible light-induced enhancement of the fluorescence of a “hydrophobic fluorophore”, 12-(9-anthroyl)-stearic acid (anthroyl stearate), is observed with chloroplasts supporting phenazine methosulfate, cyclic or 1,1′-ethylene-2,2′-dipyridylium dibromide (Diquat) pseudo-cyclic electron flow; no fluorescence change is observed when methyl viologen or ferricyanide are used as electron acceptors. The stearic acid moiety of anthroyl stearate is important for its localization and fluorescence response in the thylakoid membrane, since structural analogs of anthroyl stearate lacking this group do not show the same response.

2. This effect is decreased under phosphorylating conditions (presence of ADP, P_i, Mg²⁺), and completely inhibited by the uncoupler of phosphorylation NH₄Cl (5–10 mM), as well as the ionophores nigericin and gramicidin-D (both at 5 · 10⁻⁸ M). The MgCl₂ concentration dependence of the anthroyl stearate enhancement effect is identical to that previously observed for cyclic photophosphorylation, as well as for the formation of a “high energy intermediate”. The anthroyl stearate fluorescence enhancement is inhibited by increasing concentrations of ionophores in parallel with the decrease in ATP synthesis, but is essentially unaffected by specific inhibitors (Dio-9 and phlorizin) of photophosphorylation; thus, it appears that anthroyl stearate monitors a component of the “high energy state” of the thylakoid membrane rather than a terminal phosphorylation step.

3. The light-induced anthroyl stearate fluorescence enhancement is suggested to monitor a proton gradient in the energized chloroplast because (a) similar enhancement can be produced by sudden injection of hydrogen ions in a solution of anthroyl stearate; (b) when the proton gradient is dissipated by gramicidin or nigericin light-induced anthroyl stearate fluorescence is eliminated; (c) when the proton gradient is dissipated by tetraphenylboron, light-induced anthroyl stearate fluorescence decreases, and (d) light-induced anthroyl stearate fluorescence change as a function of pH is qualitatively similar to that observed with other probes for a proton gradient (e.g. 9-aminoacridine). Furthermore, anthroyl stearate does not monitor H⁺ uptake per se because (a) the pH dependence of H⁺ transport is different from that of the anthroyl stearate fluorescence change, and (b) tetraphenylboron, which does not inhibit H⁺ uptake, reduces anthroyl stearate fluorescence.

Thus, anthroyl stearate appears to be a useful probe of a proton gradient supported by phenazine methosulfate or Diquat catalyzed electron flow and is the first “non-amine” fluorescence probe utilized for this purpose in chloroplasts.     

A pterocarpan and two isoflavans from alfalfa

(−)6aR,11aR-Dihydro-3-hydroxy-9,10-dimethoxy-6H-benzofuro[3,2c] [1]-benzopyran (10-methoxymedicarpin), (+)-(2,3,4,-trimethoxyphenyl)-2,3-dihydro-7-hydroxy-4H-1-benzopyran (7-hydroxy-2′,3′,4′-trimethoxyisoflavan) and (+)-(2,3,4-trimethoxy-5-hydroxyphenyl)-2,3-dihydro-7-hydroxy-4H-1-benzopyran (7,5′-dihydroxy-2′,3′,4′-trimethoxyisoflavan) were isolated for the first time from dried Medicago sativa hay. Structural assignments were based on ¹H NMR and mass spectra, X-ray crystallography, and optical rotations.     

1-Hydroxy monocyclic carotenoid 3,4-dehydrogenase from a marine bacterium that produces myxol

A crtD (1-HO carotenoid 3,4-dehydrogenase gene) homolog from marine bacterium strain P99-3 included in the gene cluster for the biosynthesis of myxol (3^′,4^′-didehydro-1^′,2^′-dihydro-β,ψ-carotene-3,1^′,2^′-triol) was functionally identified. The P99-3 CrtD was phylogenetically distant from the other CrtDs. A catalytic feature was its high activity for the monocyclic carotenoid conversion: 1^′-HO-torulene (3^′,4^′-didehydro-1^′,2^′-dihydro-β,ψ-caroten-1^′-ol) was prominently formed from 1^′-HO-γ-carotene (1^′,2^′-dihydro-β,ψ-caroten-1^′-ol) in Escherichia coli with P99-3 CrtD, indicating that this enzyme has been highly adapted to myxol biosynthesis. This unique type of crtD is a valuable tool for obtaining 1^′-HO-3^′,4^′-didehydro monocyclic carotenoids in a heterologous carotenoid production system.     

Oligonucleotide duplex stability controlled by the 7-substituents of 7-deazaguanine bases

Oligonucleotides containing 7-substituted 7-deazaguanine residues (7-methyl, 7-iodo) have been synthesized. The self-complemetary octamer d(I⁷c⁷G-C)₄ containing 7-iodo-7-deaza-2′-deoxyguanosine forms a stabilized duplex compared to the parent oligomer d(G-C)₄ (ΔT_m = +10° C). Also the complex between the oligodeoxynucleotide d(I⁷c⁷G₅-G) and poly(C) is stabilized (ΔT_m = +10°) over that of d(c⁷G₅-G) with poly(C).     

Flavonoids and isoflavonoids of chemotaxonomic significance from Glycyrrhiza pallidiflora (Leguminosae)

Chemical studies were carried out on the root of Glycyrrhiza pallidiflora (Leguminosae), a licorice of no medicinal or commercial value. Two isoflavone glycosides, wistin and ononin, were isolated as major constituents from the methanol extract. A series of chromatographic separations of the acetone extract yielded isoflavone aglycones (afromosin, 2′,7-dihydroxy-4′-methoxyisoflavone and formononetin), flavanones (liquiritigenin and 4′,7-dihydroxy-6,8-diprenylflavanone), an isoflavan [(-)-vestitol], a pterocarpan [(-)-medicarpin], chalcones (echinatin and isoliquiritigenin), dibenzoylmethanes (licodione and 2′-O-methyl-licodione), a flavone (4′,7-dihydroxyflavone), a 3-arylcoumarin (2′-7-dihydroxy-4′-methoxy-3-arylcoumarin), and a new isoflav-3-ene (2′-7-dihydroxy-4′-methoxyisoflav-3-ene). The co-occurrence of the retrochalcone echinatin and the biogenetically related licodione and 2′-O-methyl-licodione is of particular interest, and suggests that this species is closely related to G. echinata and G. inflata. The biogenesis of the retrochalcone is also discussed in relation to its significance in the chemotaxonomy of sects Echinatae and Bucharicae of the genus Glycyrrhiza.     

Oligonucleotides Incorporating N7-(2′-Deoxy-β-d-erythro-pentofuranosyl)isoguanine

Abstract

The H-phosphonate and the phosphoramidite of N⁷-2′-deoxyisoguanosine (2) were prepared and incorporated into oligonucleotide duplexes. Their base pairing properties were investigated and compared with those of the parent purine nucleosides.     

Human DNA helicase IV is nucleolin, an RNA helicase modulated by phosphorylation

The cDNA encoding human DNA helicase IV (HDH IV), a 100-kDa protein which unwinds DNA in the 5′ to 3′ direction with respect to the bound strand, was cloned and sequenced. It was found to be identical to the human cDNA encoding nucleolin, a ubiquitous eukaryotic protein essential for pre-ribosome assembly. HDH IV/nucleolin can unwind RNA-RNA duplexes, as well as DNA-DNA and DNA-RNA duplexes. Phosphorylation of HDH IV/nucleolin by cdc2 kinase and casein kinase II enhanced its unwinding activity in an additive way. The Gly-rich C-terminal domain possesses a limited ATP-dependent duplex-unwinding activity which contributes to the helicase activity of HDH IV/nucleolin.