Preparation of (2′-5′)-oligonucleotides based on 6-<Emphasis Type="Italic">N</Emphasis>-benzylaminopurineriboside using the <Emphasis Type="Italic">Spicaria violacea</Emphasis> fungal enzyme complex

A method for chemico-enzymatic synthesis of (2′-5′)-oligonucleotides with 6-N-benzylaminopurineriboside as the nucleoside units was proposed. The method consisted of enzymatic hydrolysis of the oligonucleotides with mixed (2′-5′)-(3′-5′)-phosphodiesterbonds that were prepared by polymerization of 6-N-benzyladenosine-2′(3′)-monophosphate by using (3′-5′)-specific nuclease and phosphatase contained in the filtrate of culture medium of the mycelial fungus Spicaria violacea. Translated from Khimiya Prirodnykh Soedinenii, No. 1, pp. 64–68, January–February, 2009.     

Immobilization of single-strand specific nuclease (S1 nuclease) fromAspergillus oryzae

S1 nuclease fromAspergillus oryzae (EC 3.1.30.1) was coupled to gelatin-alginate composite matrix using the residual free aldehyde groups on the surface of glutaraldehyde crosslinked matrix. The immobilized enzyme retained approximately 10% activity of the soluble enzyme. When partially purified enzyme was bound to the matrix, the immobilized preparation did not show any detectable enzyme activity. However, the activity could be restored when the coupling was carried out in the presence of a coprotein or substrate. The optimum pH of the immobilized S1 nuclease shifted to 3.8 from 4.3 for the soluble enzyme. Also, optimum temperature increased to 65°C after immobilization. Bound S1 nuclease showed increased pH and temperature stabilities. Immobilization brought about a twofold decrease in the Michaelis-Menton constant (K _m).     

Kinetics and mechanism of propene hydroformylation catalyzed by rhodium complexes with a diphosphite ligand

The kinetics of propene hydroformylation in the presence of the catalytic system Rh(acac)(CO)₂/nL (L = 2,2′-bis[(1,1′-diphenyl-2,2′-diyl)phosphito]-3,3′,5,5′-tetra-tert-butyl-1,1′-diphenyl, 0.5 < n < 20) in para-xylene at 90°C is reported. At n ≥ 2, the rate and regioselectivity of the process are independent of the L concentration. The reaction is of positive fractional order with respect to propene and hydrogen and of negative order with respect to CO. The molar ratio between the linear product and the branched product decreases with an increasing CO pressure and increases with an increasing H₂ pressure. The kinetic data are consistent with a process mechanism involving irreversible propene addition to the unsaturated hydride complex HRh(CO)L with the formation of the π-complex HRh(CO)L(C₃H₆). The insertion of coordinated propene into the H-Rh bond of this complex is reversible in the linear aldehyde formation route and is quasi-equilibrium in the branched isomer formation route. The conclusions as to the character of these reaction steps are corroborated by the compositions of the but-1-ene and but-2-ene hydro-formylation products.     

Kinetics and Mechanism of the Reactions of Picolinic Acid with Dichloro-{1-alkyl-2-(arylazo)imidazole}palladium(II) Complexes

The reaction between Pd(N,N′)Cl₂ [N,N′ ≡ 1-alkyl-2-(arylazo)imidazole (N,N′) and picolinic acid (picH) have been studied spectrophotometrically at λ = 463 nm in MeCN at 298 K. The product is [Pd(pic)₂] which has been verified by the synthesis of the pure compound from Na₂[PdCl₄] and picH. The kinetics of the nucleophilic substitution reaction have been studied under pseudo-first-order conditions. The reaction proceeds in a two-step-consecutive manner (A → B → C); each step follows first order kinetics with respect to each complex and picH where the rate equations are: Rate 1 = {k′₀ + k′₂[picH]₀} × [Pd(N,N′)Cl₂] and Rate 2 = {k′′₀ + k′′₂[picH]₀}[Pd(N,O)(monodentate N,N′)Cl₂] such that the first step second order rate constant (k′₂) is greater than the second step second order rate constant (k′′₂). External addition of Cl⁻ (as LiCl) suppresses the rate. Increase in π-acidity of the N,N′ ligand, increases the rate. The reaction has been studied at different temperatures and the activation parameters (Δ^‡H° and Δ^‡S°) were calculated from the Eyring plot.     

A kinetic investigation into the rate of chloride substitution from chloro terpyridine platinum(II) and analogous complexes by a series of azole nucleophiles

The substitution kinetics of the complexes [Pt(terpy)Cl]Cl·2H₂O (PtL1), [Pt(^tBu₃terpy)Cl]ClO₄ (PtL2), [Pt{4′-(2′′′-CH₃-Ph)terpy}Cl]BF₄ (PtL3), [Pt{4′-(2′′′-CF₃-Ph)terpy}Cl]CF₃SO₃ (PtL4), [Pt{4′-(2′′′-CF₃-Ph)-6-Ph-bipy}Cl] (PtL5) and [Pt{4′-(2′′′-CH₃-Ph)-6-2′′-pyrazinyl-2,2′-bipy}Cl]CF₃SO₃ (PtL6) with the nucleophiles imidazole (Im), 1-methylimidazole (MIm), 1,2-dimethylimidazole (DIm), pyrazole (Pyz) and 1,2,4-triazole (Trz) were investigated in a methanolic solution of constant ionic strength. Substitution of the chloride ligand from the metal complexes by the nucleophiles was investigated as a function of nucleophile concentration and temperature under pseudo first-order conditions using UV/Visible and stopped-flow spectrophotometric techniques. The reactions follow the rate law k_\textobs = k₂ [ \textNu ] + k _{- 2} k_{\text{obs}} = k_{2} \left[ {\text{Nu}} \right] + k_{ - 2} . The results indicate that changing the nature or distance of influence of the substituents on the terpy moiety affects the π-back-donation ability of the chelate. This in turn controls the electrophilicity of the metal centre and hence its reactivity. Electron-donating groups decrease the reactivity of the metal centre, while electron-withdrawing groups increase the reactivity. Placing a strong σ-donor cis to the leaving group greatly decreases the reactivity of the complex, while the addition of a good π-acceptor group significantly enhances the reactivity. The results indicate that the metal is activated differently by changing the surrounding atoms even though they are part of a conjugated system. It is also evident that substituents in the cis position activate the metal centre differently to those in the trans position. The kinetic results are supported by DFT calculations, which show that the metal centre is less electrophilic when a strong σ-donor is cis to the leaving group and more electrophilic when a good π-acceptor group is part of the ring moiety. The temperature dependence studies support an associative mode of activation. An X-ray crystal structure of Pyz bound to PtL3 was obtained and confirmed the results of the DFT calculations as to the preferred N-atom as a binding site.     

Thermal analysis of 2-oxocyclopentanedithiocarboxylato complexes of iron(iii), copper(ii) and zinc(ii) containing pyridine or morpholine as the second ligand

A series of ternary complexes of the types M₂L′₂L″₂;ML′₂L″₂ (M=Fe, Cu, Zn; L′=2-oxocyclopentane dithiocarboxylate; L″=pyridine, morpholine) and CuL′₂H₂O was prepared afresh. Except the iron complex, all are dimer and complexation is through the dithio moiety of the ligand L′. Their thermal decomposition was carried out in air at heating rate 10°C min⁻¹ and it revealed that the dehydration of the aqua complex follows the same path as the carboxylates and the pyridine complexes have the tendency to follow one-step decomposition. The copper complexes are less thermally stable. The overall thermal stability of the 2-oxocyclopentanedithiocarboxylato complexes of the three metals with the volatile ligands was found to be in the order: (CuLmorph)₂< CuL₂H₂O<(CuLpy)₂<(ZnLmorph)₂<(ZnLpy)₂<FeL₂py₂. The thermogravimetric properties of the complexes have been studied and the data were subjected to kinetic analysis. The values of n, E, A and ΔS# have been approximated and compared. Any formation of bridged structure is not indicated in the first step case.     

Studies on the Synthesis and Potentiometric Properties of Three Novel Tripodal Ligands and their Complexes

Three novel tripodal ligands, N,N′,N′′-tri-(3′-phenylpropionic acid-2′-yl-)-1,3,5-triaminomethylbenzene (Ll), N,N′,N′′-tri-(4′-methylvaleric acid-2′-y1-)-1,3,5-triaminomethylbenzene (L2) and N,N′,N′′-tri-(3′methylvaleric acid-2′-yl-)-1,3,5-triaminomethylbenzene (L3), have been synthesized and fully characterized. The stabilizing ability of complexes of the three ligands with transition metal ions Cu(II), Ni(II), Zn(II) and Co(II) and rare earth metal ions La(III), Nd(III), Sm(III), Eu(III) and Gd(III) has been investigated by the pontentiometric method in water and in aqueous KNO₃ (0.1 mol dm⁻³) at 25.0±0.1 °C, respectively. The results show that there is a great deal of difference between two series of complexes’ stabilities. An explanation of the difference has been given.     

Copper complexes as chemical nucleases

Redox active mononuclear and binuclear copper(II) complexes have been prepared and structurally characterized. The complexes have planar N-donor heterocyclic bases like 1,10-phenanthroline (phen), dipyridoquinoxaline (dpq) and dipyridophenazine (dppz) ligands that are suitable for intercalation to B-DNA. Complexes studied for nuclease activity have the formulations [Cu(dpq)₂(H₂O)] (ClO₄)₂.H₂O (1), [CuL(H₂O)₂(μ-ox)](ClO₄)₂ (L = bpy,2; phen,3; dpq,4; and dppz,5) and [Cu(L)(salgly)] (L = bpy,6; phen,7; dpq,8; and dppz,9), where salgly is a tridentate Schiff base obtained from the condensation of glycine and salicylaldehyde. The dpq complexes are efficient DNA binding and cleavage active species. The dppz complexes show good binding ability but poor nuclease activity. The cleavage activity of thebis-dpq complex is significantly higher than thebis-phen complex of copper(II). The nuclease activity is found to be dependent on the intercalating nature of the complex and on the redox potential of the copper(II)/copper(I) couple. The ancillary ligand plays a significant role in binding and cleavage activity.     

Hydrophobic interactions of phenoxazine modulators with bovine serum albumin

The interaction of 10-(3′-N-morpholinopropyl)phenoxazine [MPP], 10-(4′-N-morpholinobutyl)phenoxazine [MBP], 10-(3′-N-morpholinopropyl)-2-chlorophenoxazine [MPCP], 10-(3′-N-piperidinopropyl)-2-chlorophenoxazine [PPCP] or 10-(3′-N-morpholinopropyl)-2-trifluoromethylphenoxazine [MPTP] with bovine serum albumin (BSA) has been studied by gel filtration and equilibrium dialysis methods. The binding of these modulators, based on dialysis experiments, has been characterized using the following parameters: percentage of bound drug (Β), the association constant (K ₁), the apparent binding constant (k) and the free energy change (δF‡). The binding of phenoxazine derivatives to serum transporter protein, BSA, is correlated with their octanol-water partition coefficient, log₁₀ P. In addition, effect of the displacing activities of hydroxyzine and acetylsalicylic acid on the binding of phenoxazine derivatives to albumin has been studied. Results of the displacement experiments show that phenoxazine benzene rings and tertiary amines attached to the side chain of the phenoxazine moiety are bound to a hydrophobic area on the albumin molecule.     

Synthesis,crystal structure,and thermal decomposition kinetics of complex [Nd(BA)<Subscript>3</Subscript>bipy]<Subscript>2</Subscript>

The complex of [Nd(BA)₃bipy]₂ (BA = benzoic acid; bipy = 2,2′-bipyridine) has been synthesized and characterized by elemental analysis, IR spectra, single crystal X-ray diffraction, and TG/DTG techniques. The crystal is monoclinic with space group P2(1)/n. The two–eight coordinated Nd³⁺ ions are linked together by four bridged BA ligands and each Nd³⁺ ion is further bonded to one chelated bidentate BA ligand and one 2,2′-bipyridine molecule. The thermal decomposition process of the title complex was discussed by TG/DTG and IR techniques. The non-isothermal kinetics was investigated by using double equal-double step method. The kinetic equation for the first stage can be expressed as dα/dt = A exp(−E/RT)(1 − α). The thermodynamic parameters (ΔH ^≠, ΔG ^≠, and ΔS ^≠) and kinetic parameters (activation energy E and pre-exponential factor A) were also calculated.     

Syntheses and characterization of three hybrid materials based on polymeric copper complexes and saturated Keggin polyoxoanions

Three novel heteropolytungstates, [Cu(phen)₂]₄[α-SiW₁₂O₄₀] (1), [Cu₄(4,4′-bpy)₃(2,2′-bpy)₄][α-SiW₁₂O₄₀] · H₂O (2) and [Cu(4,4′-bpy)(4,4′-Hbpy)_0.5]₂[PW₁₂O₄₀] (3) (phen = 1,10-phenanthroline, 4,4′-bpy = 4,4′-bipyridine, 2,2′-bpy = 2,2′-bipyridine), have been synthesized and characterized by elemental analyses, IR, TG analyses and single-crystal X-ray diffraction. Compound (1) exhibits interesting chiral layer constructed from interperpendicular helical chains running along a crystallographic 2₁ axis in the c and a directions. Furthermore, the chiral layers are connected by the [α-SiW₁₂O₄₀]⁴⁻ anions via hydrogen bonding interactions to form a 3D superamolecular structure. The [Cu₄(4,4′-bpy)₃(2,2′-bpy)₄]⁴⁺ coordinated complexes in compound (2) are packed together via the aromatic π–π stacking interactions and exhibit an interesting 3D sandglasslike “host” network with 1D channels, in which [α-SiW₁₂O₄₀]⁴⁻ anions “guests” reside. Compound (3) has a unique 2D superamolecular network, which is composed of cationic Cu^I coordination polymer chains and discrete [PW₁₂O₄₀]³⁻ polyoxoanions as linkers. It is noteworthy that the monprotonated 4,4′-bpy ligands of (3) act as arms and connect the adjacent 2D network, generating a 3D interpenetrating superamolecular structure.     

Stable Monopyrrole Atropisomers

 Malonic ester derivatives of ethyl and methyl 3,5-dimethyl-4-(1′-iodoneopentyl)-1H-pyrrole-2-carboxylate exhibit restricted rotation about the pyrrole C(4)–C(1′) bond due to the bulky 1′-tert-butyl and malonic ester groups and the ortho effect at C(4) of the sterically crowded 3,5-dimethylpyrrole. The malonates belong to a rare class of atropisomers with restricted rotation about an sp³–sp² C–C bond, and they undergo diastereomeric separation by TLC and crystallization: the diastereomers are stable in solution at room temperature. A crystal of one of the diastereomers, suitable for X-ray crystallography, gave the relative configuration of the chiral axis and stereogenic center at C(1′). Dynamic NMR studies of the purified diastereomers provide kinetic and thermodynamic parameters associated with the atropisomerism: ΔG ^‡ = 132–134 kJ/mol (∼32 kcal/mol) at 383 K in C₂D₂Cl₄ solvent.     

Synthesis and Structure of Vitamin B<Subscript>12</Subscript>-Derivatives with a Modified Ribose-Unit

Summary. The acylation at the 5′-OH group of the ribose-unit of vitamin B₁₂ (cyanocobalamin) or of aquocobalamin with two conventional reagents gave mono-acylated B₁₂-derivatives with good to very high selectivity. The site of the modification was deduced from spectral data of the products and was further supported by the crystal structure data of three such modified B₁₂-derivatives. These three B₁₂-derivatives were found to crystallize in the space group P2₁2₁2₁, irrespective of the nature of the appendage. Acylation at 5′-OH has been used to protect (or block) this group in the context of functionalization of 2′-OH or elsewhere in the B₁₂-molecule. Attachment of the bifunctional succinyl-unit has allowed the preparation of further modified derivatives of vitamin B₁₂ and binding of B₁₂-derivatives to biological carriers and other macromolecules. In aqueous solution, 5′-acylcobalamins turned out to be rather susceptible to hydrolytic loss of the acyl-functionality. Bernhard Kr?utler: In memoriam Prof. Karl Schl?gl     

Construction of novel coordination polymers with simple ligands

Three different types of metal-organic polymers have been prepared by a solution diffusion process carried out at room temperature. Crystals of the copper coordination polymers [CuX(4,4′-bipy)] _n (X = Cl, Br, I) have been obtained by the reaction of 4,4′-bipyridine ligands with Cu₂X₂ fragments to yield a three-dimensional network consisting of four interlocking planar lattices. Single crystals of [Cu₂(1,2,4,5-BTC)(DMF)₂] _n (1,2,4,5-BTC = 1,2,4,5-benzene tetracarboxylate) have been grown by slow diffusion from solutions of a mixture of CuBr₂, 2,2′-dithiosalicylic acid, and sodium azide plus a mixture of 1,2,4,5-H₄BTC and 4-cyanopyridine. The complex [Co(1,3,5-BTC)(4,4′-bipy)] _n (1,3,5-BTC = 1,3,5-benzene tricarboxylate) has a 3D open framework structure involving terminal cobalt atoms plus bridging 1,3,5-BTC and 4,4′-bipyridine ligands.     

1,3-diallyl-5-[ω-(diphenylphosphino)alkyl] isocyanurates in reactions of complex formation with palladium(ii) dichloride

The reactions of phosphine derivatives of diallyl isocyanurates with palladium(ii) dichloride lead to the formation of complexes, whose structure, composition, and stability depend on the length of the methylene chain between the isocyanurate and diphenylphosphine fragments in the ligand. 1,3-Diallyl-5-[5′-(diphenylphosphino)pentyl and 10′-(diphenyl-phosphino)decyl] isocyanurates with PdCl₂ form monomeric L₂PdCl₂ trans-complexes in which P atoms of the ligands participate in coordination with the metal. 1,3-Diallyl-5-[2′-(diphenylphosphino)ethyl] isocyanurate with PdCl₂ forms a dimeric (LPdCl₂)₂ complex, which decomposes in a solution to the monomer including solvent molecule into the coordination sphere of the metal. The reactions of 1,3-diallyl-5-[4′-(diphenylphosphino)butyl] isocyanurate and 1,3-diallyl-5-[6′-(diphenylphosphino)hexyl] isocyanurate with PdCl₂ give monomeric chelate LPdCl₂ complexes in which one of the allyl groups of the isocyanurate cycle participates in coordination with the central ion along with the phosphorus atom. Translated fromIzvestiya Akademii Nauk. Seriya Khimicheskaya, No. 9, pp. 1859–1865, September, 1998.     

Ruthenium-mediated Selective Aromatic Thiolation in the Complex [RuII{o-S—C6H4-(p-R-)—N=N—C3H2NN(1)—R′}2]. Synthesis, Spectroscopic, e.p.r., Electro-chemical Characterization and Spectro-electrochemical Correlation

The reaction of ctc-[Ru(RaaiR′)₂Cl₂] (3a–3i) [RaaiR′=1-alkyl-2-(arylazo)imidazole, p-R—C₆H₄—N=N— C₃H₂NN(1)—R′, R=H, OMe, NO₂, R′=Me, Et, Bz] with KS₂COR′′ (R′′=Me, Et, Pr, Bu or CH₂Ph) in boiling dimethylformamide afforded [Ru^II{o-S—C₆H₄(p-R-)—N=N—C₃H₂NN(1)—R′}₂] (4a–4i), where the ortho-carbon atom of the pendant phenyl ring of both ligands has been selectively and directedly thiolated. The newly formed tridentate thiolate ligands are bound in a meridional fashion. The solution electronic spectra exhibit a strong MLCT band near 700 nm and near 550 nm, respectively in DCM. The molecular geometry of the complexes in solution has been determined by H n.m.r. spectroscopy. Cyclic voltammograms show a Ru(II)/Ru(III) couple near 0.4 V and an irreversible oxidation response near 1.0 V due to oxidation of the coordinated thiol group, along with two successive reversible ligand reductions in the range −0.80–0.87 V (one electron), −1.38–1.42 V (one electron). Coulometric oxidation of the complexes at 0.6 V versus SCE in CH₂Cl₂ produced an unstable Ru(III) congener. When R=Me the presence of trivalent ruthenium was proved by a rhombic e.p.r. spectrum having g₁=2.349, g₂=2.310.     

Dynamic surface tension and dilational viscoelasticity of adsorption layers of alkylated chitosans and surfactant–chitosan complexes

The kinetics of the adsorption at the air-water interface and the processes of the structure formation inside the adsorption layers of hydrophobically modified systems [alkylated chitosans and sodium dodecyl sulfate (SDS)–chitosan (Ch) complexes] have been studied by the tensiometric method based on the axisymmetric rising-bubble-shape analysis as a function of the bulk concentration of polymers and the ageing time of their adsorption layers. The kinetics of the adsorption of chitosan, alkylated chitosans (ChC₃, ChC₈, and ChC₁₂), and surfactant–polyelectrolyte (PE) complexes formed by the chitosan and the polysoaps with oppositely charged anionic surfactant SDS is characterized by an induction time (the so-called lag time), τ_lag, corresponding to the diffusion stage of the formation of adsorption layers. During this time, the decrease in the surface tension (or the increase in the surface pressure π) does not exceed several millinewtons per meter that corresponds to the “gaseous” state of adsorption layers. The postlag stage of the formation of the adsorption layer is characterized by the remarkable rate of increase in the surface pressure π that corresponds to the conformational rearrangement of PEs inside the adsorption layer by increasing the number of hydrophobic groups (adsorbing centres) in contact with the non-polar phase at the interface. It has been found that during the lag time, the adsorption of alkylated chitosans (cationic polysoaps) increases with increasing alkyl chain length, whereas during the postlag time, the adsorption of the ChC₃ is maximal with regard to other polysoaps. It has been confirmed that at equal content of alkyl groups in the system, the surface activity of the SDS–Ch complexes is much higher with regard to that of the polysoaps. The viscoelasticity of adsorption layers of individual PEs and their complexes continuously increases with the ageing time, giving evidence for the interaction between the polymers inside the adsorption layers. It has been found that the rate of increase in the dilational storage module E′ of the adsorption layers of SDS–Ch complexes is much higher than for the polysoaps that correlates with the higher surface activity of the former with regard to the latter. For the mentioned systems, the module E′ is much higher than the loss module E″ that confirms the solid-like properties of their adsorption layers. On the other hand, the adsorption layers of the chitosan are liquid-like, while E′<<E′′.     

Synthesis,structure, DNA binding studies and nuclease activities of two luminescent neodymium complexes

Two neodymium(III) complexes, [Nd(Phen)(NO₃)₃(DMF)₂] (1) and [Nd(Phen)₂(NO₃)₃] (2) (phen = 1,10-phenanthroline; DMF = dimethylformamide), have been synthesized with a view to design artificial luminescent nucleases and nuclease mimics. The complexes were characterized by spectroscopic, powder, and single crystal XRD studies. The complexes, as expected, have luminescent properties. The DNA binding studies of both complexes have been carried out by spectroscopic studies e.g. electronic absorption (UV–Vis), fluorescence emission as well as viscosity measurements. The nuclease activity of the complexes has been established by gel electrophoresis using pUC19 circular plasmid DNA. The results of DNA binding as well as DNA cleavage activity and the model studies of interaction with pNPP indicate that both neodymium complexes demonstrate nuclease activity through phosphoester bond cleavage.     

Kinetic and mechanistic studies of the interaction of 2-mercapto pyridine with dichloro[1-alkyl-2-(arylazo)imidazole]palladium(II) complexes

Nucleophilic substitution of Pd(RaaiR′)Cl₂ [(RaaiR′ = 1-alkyl-2-(arylazo)imidazole, p-R-C₆H₄-N=N-C₃H₂NN-1-R′; where R = H(a)/ Me(b)/ Cl(c) and R′ = Et(1)/Bz(2)] with 2-Mercaptopyridine (2-SH-Py) in acetonitrile (MeCN) at 298 K, to form [Pd₂(2-S-Py)₄], has been studied spectrophotometrically under pseudo-first-order conditions and the analyses support the nucleophilic association path. The reaction follows the rate law, Rate = {k ₀ + k [2-SH-Py] ₀ ² }[Pd(RaaiR′)Cl₂]: first order in Pd(RaaiR′)Cl₂ and second order in 2-SH-Py. The rate of the reaction follows the order: Pd(RaaiEt)Cl₂ (1) < Pd(RaaiBz)Cl₂ (2) and Pd(MeaaiR′)Cl₂ (b) < Pd(HaaiR′)Cl₂ (a) < Pd(ClaaiR′)Cl₂ (c). External addition of Cl⁻ (LiCl) and HCl suppresses the rate (Rate ∝ 1/[Cl⁻]₀ & ∝1/[HCl]₀). The reactions have been studied at different temperatures (293–308 K) and activation parameters (Δ^‡ H° and Δ ^‡ S°) of the reactions were calculated from the Eyring plot and support the proposed mechanism.