Tethered dinuclear europium(III) macrocyclic catalysts for the cleavage of RNA

Dinuclear europium(III) complexes of the macrocycles 1,3-bis[1-(4,7,10-tris(carbamoylmethyl)-1,4,7,10-tetraazacyclododecane]-m-xylene (1), 1,4-bis[1-(4,7,10-tris(carbamoylmethyl)-1,4,7,10-tetraazacyclododecane]-p-xylene (2), and mononuclear europium(III) complexes of macrocycles 1-methyl-,4,7,10-tris(carbamoylmethyl)-1,4,7,10-tetraazacyclododecane (3), 1-[3'-(N,N-diethylaminomethyl)benzyl]-4,7,10-tris(carbamoylmethyl)-1,4,7,10-tetraazacyclododecane (4), and 1,4,7-tris(carbamoylmethyl)-1,4,7,10-tetraazacyclododecane (5) were prepared. Studies using direct excitation ((7)F0 --> (5)D0) europium(III) luminescence spectroscopy show that each Eu(III) center in the mononuclear and dinuclear complexes has two water ligands at pH 7.0, I = 0.10 M (NaNO3) and that there are no water ligand ionizations over the pH range of 7-9. All complexes promote cleavage of the RNA analogue 2-hydroxypropyl-4-nitrophenyl phosphate (HpPNP) at 25 degrees C (I = 0.10 M (NaNO3), 20 mM buffer). Second-order rate constants for the cleavage of HpPNP by the catalysts increase linearly with pH in the pH range of 7-9. The second-order rate constant for HpPNP cleavage by the dinuclear Eu(III) complex (Eu2(1)) at pH 7 is 200 and 23-fold higher than that of Eu(5) and Eu(3), respectively, but only 7-fold higher than the mononuclear complex with an aryl pendent group, Eu(4). This shows that the macrocycle substituent modulates the efficiency of the Eu(III) catalysts. Eu2(1) promotes cleavage of a dinucleoside, uridylyl-3',5'-uridine (UpU) with a second-order rate constant at pH 7.6 (0.021 M(-1) s(-1)) that is 46-fold higher than that of the mononuclear Eu(5) complex. Methyl phosphate binding to the Eu(III) complexes is energetically most favorable for the best catalysts, and this supports an important role for the catalyst in stabilization of the developing negative charge on the phosphorane transition state. Despite the formation of a bridging phosphate ester between the two Eu(III) centers in Eu2(1) as shown by luminescence spectroscopy, the two metal ion centers are only weakly cooperative in cleavage of RNA and RNA analogues.     

A minimalist approach to understanding the efficiency of mononuclear Zn(II) complexes as catalysts of cleavage of an RNA analog

Mononuclear complexes between Zn(2+) and the following four macrocycles were prepared: 1,4,7,10-tetraazacyclododecane (1), 1-oxa-4,7,10-triazacyclododecane (2), 1,5,9-triazacyclododecane (3) and 1-hydroxyethyl-1,4,7-triazacyclononane (4). The pH rate profiles of values of the observed second-order rate constant log (k(Zn))(app) for Zn(X)(OH(2))-catalyzed cleavage (X = 1, 2, 3 and 4) of 2-hydroxypropyl-4-nitrophenyl phosphate (HpPNP) show downward breaks centered at the pK(a) for ionization of the respective zinc bound water. At low pH, where the rate acceleration for the catalyzed reaction is largest, the stabilizing interaction between the catalyst and the bound transition state is 5.7, 7.4, 7.4 and 5.9 kcal mol(-1) for the reactions catalyzed by Zn(1)(OH(2)), Zn(2)(OH(2)), Zn(3)(OH(2)) and Zn(4)(OH(2)), respectively. The interactions between the metal cation and the macrocycle cause either a modest increase or reduction in transition state stabilization compared with 6.6 kcal mol(-1) stabilization for catalysis by Zn(OH(2))(6). The best Zn(II)-macrocycle catalysts are those for which the interactions between the metal ion and macrocycle are the weakest. Inhibition studies show that each of the four catalysts form complexes with phosphate and oxalate dianions with a much higher affinity than diethyl phosphate monoanion, consistent with stronger interaction of the catalysts with the transition state dianion compared with the substrate monoanion HpPNP. The pH-dependence of methyl phosphate inhibition of Zn(2) catalyzed cleavage of HpPNP shows that only the Zn(2)(OH(2)) species binds the inhibitor. This result is consistent with a mechanism that has Zn(2)(OH(2)) as the active catalytic species.     

Cooperativity between metal ions in the cleavage of phosphate diesters and RNA by dinuclear Zn(II) catalysts

A series of ligands containing linked 1,4,7-triazacyclononane macrocycles are studied for the preparation of dinuclear Zn(II) complexes including 1,3-bis(1,4,7-triazacyclonon-1-yl)-2-hydroxypropane (L2OH), 1,5-bis(1,4,7-triazacyclonon-1-yl)pentane (L3), 2,9-bis(1-methyl-1,4,7-triazacyclonon-1-yl)-1,10-phenanthroline (L4), and alpha,alpha'-bis(1,4,7-triazacyclonon-1-yl)-m-xylene (L5). The titration of these ligands with Zn(NO(3))(2) was monitored by (1)H NMR. Each ligand was found to bind two Zn(II) ions with a very high affinity at near neutral pH under conditions of millimolar ligand and 2 equiv of Zn(NO(3))(2). In contrast, a stable mononuclear complex was formed in solutions containing 5.0 mM L2OH and 1 equiv of Zn(NO(3))(2). (1)H and (13)C NMR spectral data are consistent with formation of a highly symmetric mononuclear complex Zn(L2OH) in which a Zn(II) ion is sandwiched between two triazacyclononane units. The second-order rate constant k(Zn) for the cleavage of 2-hydroxypropyl-4-nitrophenyl phosphate (HPNP) at pH 7.6 and 25 degrees C catalyzed by Zn(2)(L2O) is 120-fold larger than that for the reaction catalyzed by the closely related mononuclear complex Zn(L1) (L1 = 1,4,7-triazacyclononane). By comparison, the observation that the values of k(Zn) determined under similar reaction conditions for cleavage of HPNP catalyzed by the other Zn(II) dinuclear complexes are only 3-5-fold larger than values of k(Zn) for catalysis by Zn(L1) provides strong evidence that the two Zn(II) cations in Zn(2)(L2O) act cooperatively in the stabilization of the transition state for cleavage of HPNP. The extent of cleavage of an oligoribonucleotide by Zn(L1), Zn(2)(L5), and Zn(2)(L2O) at pH 7.5 and 37 degrees C after 24 h incubation is 4,10, and 90%. The rationale for the observed differences in catalytic activity of these dinuclear Zn(II) complexes is discussed in terms of the mechanism of RNA cleavage and the structure and speciation of these complexes in solution.     

Synthesis,DNA-binding and cleavage studies of macrocyclic copper(II) complexes

Two macrocyclic copper(II) complexes, [CuL¹](ClO₄)₂ (L¹ = 2,6,9,13-tetraparacyclophane, a Schiff base) and [CuL²]Cl₂ [L² = 3,10-bis(2-benzyl)-1,3,5,8,10,13-hexaazacyclotetradecane] have been prepared and characterized by elemental analysis, u.v.–vis., i.r. and mass spectra. Absorption, fluorescence, circular dichroic spectra and viscosity experiments have been carried out on the interaction of the two complexes with calf thymus CT DNA. The results suggest that both complexes can bind to CT DNA by intercalation via the aromatic moiety ring in the macrocycle into the base pairs of DNA. [CuL¹](ClO₄)₂ binds to CT DNA more strongly than [CuL²]Cl₂. The position of the aromatic ring in the macrocycle plays an important role in deciding the extent of binding of the complexes to DNA. Significantly, the complexes have been found to be single-strand DNA cleavers in the presence of H₂O₂ or/and 2-mercaptoethanol.     

Carboxyester hydrolysis promoted by novel nano‐sized macrocyclic Zn(II) complexes

A novel series of nano‐sized Zn(II) macrocyclic complexes has been synthesized using the template method, i.e. by the in situ reaction of Schiff bases (derived from 1,4‐bis(4‐amino‐5‐mercapto‐1,2,4‐triazol‐3‐yl)alkanes/phenylene with salicylaldehyde/2‐hydroxyacetophenone) and 1,4‐dibromobutane in the presence of zinc(II) acetate dihydrate in ethanol. The complexes have been characterized using elemental analysis, infrared and NMR spectroscopies, scanning electron microscopy and thermal analysis. The catalytic properties of these complexes have been investigated kinetically for the hydrolysis of p‐nitrophenylacetate (PNPA) at 25°C in aqueous dimethylsulfoxide using phosphate buffer (pH = 7.0–8.5). During the reaction, absorbance of p‐nitrophenolate increases linearly with time (i.e. increase of p‐nitrophenolate concentration) which indicates that the rate of the reaction increases linearly with time. On the basis of these results, a plausible mechanism for the hydrolysis of PNPA is proposed. It is shown that coordinated water may serve as a good nucleophile that effectively catalyses PNPA hydrolysis. Therefore, these complexes may serve as model compounds for hydrolytic enzymes. Copyright © 2014 John Wiley & Sons, Ltd.     

Multiple functional group cooperation in phosphate diester cleavage promoted by Zn(II) complexes

Zn(II) complexes bearing multiple auxiliary organic groups greatly accelerate the cleavage of a phosphate diester.     

C-branched chiral (racemic) macrocyclic amino acids: structure of their Ni(II), Zn(II) and Cu(II) complexes

A new procedure for the synthesis of macrocyclic embedded bis-α-amino acids and their use as cation-ligands is described. These compounds are able to form stable Cu(II), Zn(II) and Ni(II) complexes as long as they have a flexible tether between the two nitrogen atoms. For a given macrocycle, the X-ray diffraction studies revealed diastereomerically pure complexes having different geometries depending on the metal ion.     

Spectroscopy: the study of DNA cleavage by newly synthesized polydentate macrocyclic ligand and its copper(II) complexes

A novel hexadentate nitrogen donor [N6] macrocyclic ligand, i.e. 2,6,12,16,21,22-hexaaza-3,5,13,15-tetramethyl-4,14-diethyl-tricyclo-[15.3.1.1(7-11)]docosane-1(21),2,5,7(22),8,10,12,15,17,19-decaene (L), has been synthesized. Copper(II) complexes with this ligand have been prepared and subjected to elemental analyses, molar conductance measurements, magnetic susceptibility measurements, mass, 1H NMR (ligand), IR, electronic, and EPR spectral studies. On the basis of molar conductance the complexes may be formulated as [Cu(L)X2] [X = Cl(-), Br(-), NO3(-) and CH3COO(-)] due to their nonelectrolytic nature in N,N'-dimethylformamide (DMF). All the complexes are of the high spin type and are six coordinated. On the basis of IR, electronic and EPR spectral studies tetragonal geometry has been assigned to the Cu(II) complexes. The interaction of these complexes with calf thymus DNA has been explored by using absorption, emission, viscosity measurements, electrochemical studies and DNA cleavage. All the experimental results suggest that the complexes bind to DNA and also promote the cleavage plasmid pBR 322, in the presence of H2O2 and ascorbic acid.     

Site-specific cleavage of human telomerase RNA using PNA-neocuproine.Zn(II) derivatives

Here we report the synthesis of a novel PNA based neocuproine.Zn RNA cleaving agent; we demonstrate that such agents sequence specifically cleave a synthetic RNA target and in particular the RNA component of human telomerase.     

Pentacoordinated Cu(II)/Zn(II) complexes bearing macrocyclic skeleton: synthesis, spectroscopic and molecular structure optimization studies

2,6-Diacetylpyridine and 1,2-diaminoethane in the presence of copper(II) and zinc(II) chlorides containing a few drops of acetic acid were condensed into compositions [CuLH2]2.2HCl.H2O (1), [Cu2LPyz]2.2HCl.4CH3COCH3 (2) [CuZnLPyz]2.2HCl.2CH3COCH3.10H2O (3) and [ZnL'Cl]3.3HCl.3H2O (4) substantiated by elemental analyses, IR, UV-vis, 1H NMR and FAB mass spectral data. Demetallation of a Ni(II) complex (isolated as above) afforded macrocyclic skeleton LH4, whereas L' symbolizes a skeleton of the ligand containing only ethylenediamine and 2,6-diacetylpyridine. Molecular structure optimization using MM2 force field calculations for the complexes revealed distorted square pyramidal geometry around Cu(II) centers in complexes 1 and 2 and tetrahedral geometry around Cu(II) and Zn(II) centers with different degrees of distortion in complex 3 whereas three Zn(II) atoms (each in distorted square pyramidal geometry) attached via Cl bridges form a cyclic structure in complex 4. In complexes 1 and 2,Cu-Cu = 2.63-2.66 angstroms indicated the possibility of coupling between the two Cu(II) centers which has been supported by lower magnetic moment as well as ESR spectra showing half-field signal.     

Bis-(thiosemicarbazonato) Zn(II) complexes as building blocks for construction of supramolecular catalysts

In this paper we report the application of bis-(thiosemicarbazonato) Zn(II) complexes as building blocks in the construction of supramolecular transition metal assemblies. We investigated their coordination behaviour towards pyridylphosphine molecules and found these systems comparable to those based on Zn(porphyrin) and Zn(salphen) complexes. Additionally, catalytic experiments and an in situ high-pressure FTIR study of the supramolecular rhodium hydroformylation catalysts, assembled using the bis-(thiosemicarbazonato) Zn(II) complexes, demonstrate their applicability in supramolecular catalysis and their potential for application in other areas of supramolecular chemistry.     

Hydrolytic cleavage of p-nitrophenyl picolinate by mononuclear Zn(II) and Co(II) complexes with imidazole derivative in CTAB micellar solution

One new hydroxyl-functionalized imidazole derivative (L) was synthesized and characterized. Further, the related mononuclear zinc(II) and cobalt(II) complexes were prepared and used as mimic hydrolases to catalyze the hydrolytic cleavage of p-nitrophenyl picolinate (PNPP) in buffered aqueous solution and a micellar solution of cetyltrimethylammonium bromide (CTAB). Observations show that for all of catalytic systems, the hydrolysis of PNPP was pH-dependent in the pH range of 7.00–8.20. Besides, hydrolysis rates of PNPP displayed a constant increase with the increasing concentration of substrate. In the case of CoL-containing system, moreover, much greater acceleration for PNPP hydrolysis was observed in comparison with the ZnL-containing system. However, micellar effect of CTAB micelle aggregates on the PNPP hydrolysis was not obvious only showing 1.0?～?1.3 folds rate difference in contrast to buffered aqueous solution.     

Hydrolytic cleavage of DNA by quercetin manganese(II) complexes

Quercetin manganese(II) complexes were investigated focusing on its DNA hydrolytic activity. The complexes successfully promote the cleavage of plasmid DNA, producing single and double DNA strand breaks. The amount of conversion of supercoiled form (SC) of plasmid DNA to the nicked circular form (NC) depends on the concentration of the complex as well as the duration of incubation of the complexes with DNA. The maximum rate of conversion of the supercoiled form to the nicked circular form at pH 7.2 in the presence of 100 μM of the complexes is found to be 1.32 × 10⁻⁴ s⁻¹. The hydrolytic cleavage of DNA by the complexes was supported by the evidence from free radical quenching, thiobarbituric acid-reactive substances (TBARS) assay and T4 ligase ligation.     

Synthesis,binding properties and electrochemistry of nickel(II) macrocyclic complexes containing crown ethers

Macrotetracyclic complexes of nickel(II) containing crown ethers as pendant arms, [Ni(B)](ClO₄)₂ and [Ni(C)](ClO₄)₂, were prepared and characterized. The binding constants of the complexes toward alkali metal ions are relatively small compared with those of free 15-crown-5 or 18-crown-6 and the reduction potentials of the [Ni(B)](ClO₄)₂ and [Ni(C)](ClO₄)₂ in the presence of alkali metal ions shift to the positive direction in the order Li⁺>Na⁺>K⁺ and K⁺>Na⁺>Li⁺, respectively.     

Recognition of thymine in DNA bulges by a Zn(II) macrocyclic complex

A Zn(II) macrocyclic complex with appended quinoline is a bifunctional recognition agent that uses both the Zn(II) center and the pendent aromatic group to bind to thymine in bulges with good selectivity over DNA containing G, C or A bulges. Spectroscopic studies show that the stem containing the bulge stays largely intact in a DNA hairpin with the Zn(II) complex bound to the thymine bulge.     

Synthesis of new chiral heterocyclic Schiff base modulated Cu(II)/Zn(II) complexes: their comparative binding studies with CT-DNA, mononucleotides and cleavage activity

New Schiff base ligand L derived from the condensation reaction of 2-amino-3-formylchromone with (R)-2-amino-2-phenylethanol was synthesized and characterized which involves combination element of ammine functionality and naturally occurring heterocyclic chromone, 4H-benzopyran-4-one. Subsequently, their complexes 1 and 2 with Cu(NO?)? and Zn(NO?)?, respectively were prepared. The DNA binding studies of the ligand L and complexes 1 and 2 with CT-DNA as compared to classical anticancer drug cisplatin were carried out by employing different optical methods viz, UV-vis, fluorescence, circular dichroism and viscosity measurements. Furthermore, the absorption studies, 1H and 31P with mononucleotides were also monitored to examine the base specific interactions of the transition metal complexes which revealed a higher propensity of copper(II) complex 1 for 5'-GMP while for zinc(II) complex 2 towards 5'-TMP involving groove binding mechanism of the complexes towards DNA. The complex 1 exhibits a remarkable DNA cleavage activity with pBR322 DNA in presence of different activators and cleavage reaction involves various oxygen species suggesting the involvement of active oxygen species for the DNA scission.     

ESR study on copper(II) macrocyclic polythia complexes

ESR measurements have been made on complexes formed by copper(II) with [12]anS₄, [13]anS₄, iso-[14]anS₄, and [18]anS₆; they show intramolecular reduction for the central ion by electron transfer from the donor sulfur atoms, and free cation-radicals are formed in solution. The covalency parameter ² indicates that the copper-sulfur bonds are mainly covalent. The electronic structures are analogous to those of the active centers in copper-bearing blue proteins.Translated from Teoreticheskaya i Éksperimental'naya Khimiya, Vol. 25, No. 6, pp. 737–742, November–December, 1989.     

DNA binding,cleavage, and cytotoxicity of binuclear phenolate nickel(II) complexes

Three binuclear phenolate complexes, [Ni₂(L¹)₂(OAc)](BPh₄)·DMF (1), [Ni₂(L²)₂(OAc)](BPh₄) (2), and [Ni₂(L³)₂(OAc)](OH)·3H₂O (3), where L¹ = 2-{[bis-(2-hydroxy-ethyl)-amino]-methyl}-4-methyl-phenol, L² = 2-{[bis-(2-hydroxy-ethyl)-amino]-methyl}-4-methoxy-phenol, and L³ = 2-{[bis-(2-hydroxy-ethyl)-amino]-methyl}-4-tert-butyl-phenol), have been synthesized. Single-crystal diffraction reveals that all the metal atoms are in a distorted octahedral geometry. The interactions of the complexes with calf thymus DNA (CT-DNA) have been investigated by UV–vis absorption, fluorescence emission, and circular dichroism spectroscopy and viscosity measurements. Furthermore, DNA cleavage mechanism shows that the complexes may be capable to promote DNA cleavage through oxidative DNA damage pathway, which is indicative of the involvement of hydroxyl radical, singlet oxygen, or singlet oxygen-like entity in the cleavage process. Cytotoxicity studies on the Hela and MCF-7 cancer cell lines show that complexes 1–3 exhibit excellent activity toward the tested tumor cell lines with respect to the standard drug carboplatin, revealing that they have the potential to act as effective metal-based anticancer drugs.     

Trans-bis(dicyanamido)nickel(II) complexes with polyaza macrocyclic ligands

Two new trans-bis(dicyanamido)nickel(II) macrocyclic complexes, [Ni(II)(L1){N(CN)₂}₂] · H₂O (1) and [Ni(II)-(L3){N(CN)₂}₂] (2), where L1 is 3,10-bis(2-hydroxyethyl)-1,3,5,8,10,12-hexaazacyclotetradecane and L3 is 3,14-dimethyl-2,6,13,17-tetraazatricyclo[14,4,0^1.18,0^7.12]docosane, have been synthesized and structurally characterized by spectroscopic and X-ray crystallographic methods. In (1) and (2), each central nickel(II) ion possesses a distorted octahedral geometry with four equatorial nitrogen atoms from the macrocycle and two axial nitrogen atoms from dicyanamide anions, which are terminally bonded to the central nickel atom. The solid state electronic spectra of (1) and (2) using the diffuse reflectance method show a characteristic high-spin d⁸ nickel(II) ion in a distorted octahedral environment.