Molecular recognition patterns of 2-aminopurine versus adenine: a view through ternary copper(II) complexes

In contrast to the comprehensive structural information about metal complexes with adenine, the corresponding to its isomer 2-aminopurine (H2AP) is extremely poor. With the aim to rationalize the metal binding pattern of H2AP, we report the molecular and/or crystal structure of four novel compounds with various iminodiacetate-like (IDA-like) copper(II) chelates: [Cu(IDA)(H2AP)(H2O)]·H2O (1), [Cu(MIDA)(H2AP)(H2O)]·3H2O (2), {[Cu(NBzIDA)(H2AP)]·1.5H2O}n (3) and [Cu(MEBIDA)(H2AP)(H2O)]·3.5 H2O (4), where IDA, MIDA, NBzIDA and MEBIDA are R = H, CH3, benzyl- and p-tolyl- in R-N-(CH2-COO-)2 ligands, respectively. Synthesis strategies include direct reactions of copper(II) chelates with H2AP (alone, for 1 and 3) and/or with the base pairs H2AP:thymine (1-4) or H2AP:cytosine (3). Moreover, these compounds have been also investigated by spectral and thermal methods. Regardless of the N-derivative of the IDA chelator, molecular recognition between H2AP and the referred Cu(II)-chelates only displays the formation of the Cu-N7(purine-like) bond what is clearly in contrast to what was previously reported for adenine. The metal binding pattern of 2-aminopurine is discussed on the basis of the electronic effects and steric hindrance of the 2-amino exocyclic group.     

DNA binding affinity of a macrocyclic copper(II) complex: Spectroscopic and molecular docking studies

The interaction of a novel macrocyclic copper(II) complex, ([CuL(ClO₄)₂] that L is 1,3,6,10,12,15-hexaazatricyclo[13.3.1.1^6,10]eicosane) with calf thymus DNA (ct-DNA) was investigated by various physicochemical techniques and molecular docking at simulated physiological conditions (pH = 7.4). The absorption spectra of the Cu(II) complex with ct-DNA showed a marked hyperchroism with 10 nm blue shift. The intrinsic binding constant (K_b) was determined as 1.25 × 10⁴ M^?1, which is more in keeping with the groove binding with DNA. Furthermore, competitive fluorimetric studies with Hoechst33258 have shown that Cu(II) complex exhibits the ability to displace the ct-DNA-bound Hoechst33258 indicating that it binds to ct-DNA in strong competition with Hoechst33258 for the groove binding. Also, no change in the relative viscosity of ct-DNA and fluorescence intensity of ct-DNA-MB complex in the present of Cu(II) complex is another evidence to groove binding. The thermodynamic parameters are calculated by van't Hoff equation, which demonstrated that hydrogen bonds and van der Waals interactions played major roles in the binding reaction. The experimental results were in agreement with the results obtained via molecular docking study.     

Equilibrium and kinetic studies of ligand BMXD complexation with copper(II) and glycylglycine

Equilibrium studies of BMXD complexation with copper(II) and glycylglycine were performed by potentiometric and UV-visible titration. The equilibrium constants determined by potentiometry for the ternary system are: [LCu₂P³⁺]/[LCu₂⁴⁺][P⁻]=8.11(3), [LCu₂HP⁴⁺]/[LCu₂P³⁺][H⁺]=5.39(2), [LCu₂H₋₁P²⁺][H⁺]/[LCu₂P³⁺]=−6.33(2), [LCu₂(OH)H₋₁P⁺][H⁺]/[LCu₂H₋₁P²⁺]=−8.20(1) and [LCu₂(OH)₂HH₋₁P][H⁺]/[LCu₂(OH)H₋₁P⁻¹]=−10.33(3), which are in good agreement with the values determined by UV-visible titration. The species formed were confirmed by electrospray mass spectrometry. The association constants, determined by kinetic studies, for the association of the second molecule of glycylglycine with the LCu₂P complex, for two ionic media, are 1.29 (KCl) and 1.27 (KNO₃). These are in good agreement with the values determined by thermodynamic measurements 1.41 (KCl) and 1.26 (KNO₃).     

Interaction of polyethyleneimine‐anchored copper(II) complexes with tRNA studied by spectroscopy methods and biological activities

Ultraviolet–visible, emission and circular dichroism spectroscopic methods were used in transfer RNA (tRNA) interaction studies performed for polyethyleneimine–copper(II) complexes [Cu(phen)(l ‐Tyr)BPEI]ClO₄ (where phen =1,10‐phenanthroline, l ‐Tyr = l ‐tyrosine and BPEI = branched polyethyleneimine) with various degrees of coordination (x = 0.059, 0.149, 0.182) in the polymer chain. The results indicated that polyethyleneimine–copper(II) complexes bind with tRNA mostly through surface binding, although other binding modes, such as hydrogen bonding and van der Waals interactions, might also be present. Dye‐exclusion, sulforhodamine B and 3‐(4,5‐dimethylthiazol‐2‐yl)‐2,5‐diphenyltetrazolium bromide assays of a polyethyleneimine–copper(II) complex with a higher degree of coordination against different cancer cell lines proved that the complex exhibited cytotoxic specificity and a significant cancer cell inhibition rate. Antimicrobial screening showed activity against some human pathogens.     

New dinuclear copper(II) and zinc(II) complexes for the investigation of sugar–metal ion interactions

We have studied the binding interactions of biologically important carbohydrates (d-glucose, d-xylose and d-mannose) with the newly synthesized five-coordinate dinuclear copper(II) complex, [Cu₂(hpnbpda)(μ-OAc)] (1) and zinc(II) complex, [Zn₂(hpnbpda)(μ-OAc)] (2) [H₃hpnbpda = N,N′-bis(2-pyridylmethyl)-2-hydroxy-1,3-propanediamine-N,N′-diacetic acid] in aqueous alkaline solution. The complexes 1 and 2 are fully characterized both in solid and solution using different analytical techniques. A geometrical optimization was made of the ligand H₃hpnbpda and the complexes 1 and 2 by molecular mechanics (MM+) method in order to establish the stable conformations. All carbohydrates bind to the metal complexes in a 1:1 molar ratio. The binding events have been investigated by a combined approach of FTIR, UV–vis and ¹³C NMR spectroscopic techniques. UV–vis spectra indicate a significant blue shift of the absorption maximum of complex 1 during carbohydrate coordination highlighting the sugar binding ability of complex 1. The apparent binding constants of the substrate-bound copper(II) complexes have been determined from the UV–vis titration experiments. The binding ability and mode of binding of these sugar substrates with complex 2 are indicated by their characteristic coordination induced shift (CIS) values in ¹³C NMR spectra for carbon atoms C1, C2, and C3 of sugar substrates.     

An oxamato bridged trinuclear copper(II) complex: Synthesis, crystal structure, reactivity, DNA binding study and magnetic properties

A linear tri-nuclear oxamato bridged copper(II) complex [Cu₃(pba)(dpa)₂(H₂O)(ClO₄)](ClO₄)·H₂O (1) (pbaH₄ = 1,3-propanediylbis(oxamic acid), dpa = 2,2′-dipyridylamine) was isolated from the reaction mixture of Na₂[Cu(pba)]·3H₂O, copper perchlorate hexahydrate and dipyridylamine in methanol. On reaction with dpa or DMF in basic medium (KOH) at ambient temperature complex 1 changed to dinuclear oxalate bridged copper(II) derivatives, [Cu₂(μ-C₂O₄)(dpa)₄](ClO₄)₂ (2) and [Cu₂(μ-C₂O₄)(dpa)₂(DMF)₂](ClO₄)₂ (3), respectively. The complexes 1, 2 and 3 have been characterized by physicochemical and spectroscopic tools, and also by the X-ray single crystal analysis. The hydrolysis of 1 in basic medium and thermo-gravimetric analysis has been studied. Absorption and emission spectral studies showed that complex 1 interacts with calf thymus-DNA (CT-DNA) with a binding constant (K_b) of 4.01 × 10⁴ M⁻¹ and linear Stern-Volmer quenching constant (K_sv) of 6.9 × 10⁴. A strong anti-ferromagnetic interaction with a coupling constant J_CuCu of 320.0 ± 0.3 cm⁻¹ was observed from the study of magnetic behavior of complex 1 in the temperature range of 2-300 K. Electrochemical equivalency of three copper(II) ions in 1 was identified by getting only one quasi reversible cyclic voltammogram.     

DNA interaction of new copper(II) complexes with sulfonamides as ligands

New copper(II) complexes with sulfonamide ligands have been prepared and characterized. Sulfonamide ligands were prepared through a reaction between 8-aminoquinoline and either 2-mesitylene (Hqmesa), 4-tert-butylbenzene (Hqtbsa), or alpha-toluene (Halphaqtsa) sulfonyl chlorides. The structural analysis carried out for complex [Cu(alphaqtsa)(2)] indicated that the local environment of the Cu(II) cation is between a square planar and a tetrahedral geometry, with stacking of the benzene rings of the sulfonyl ligands between neighbor molecules. Powder EPR spectra at room temperature gave rhombic spectra for the [Cu(alphaqtsa)(2)] and [Cu(qmesa)(2)] complexes and an axial spectrum for the [Cu(qtbsa)(2)] complex, probably due to the steric hindrance of the methyl groups. Complexes [Cu(alphaqtsa)(2)] and [Cu(qmesa)(2)] are artificial chemical nucleases that degrade DNA in the presence of sodium ascorbate. A study of the radical scavengers revealed that the ROS (reactive oxygen species) involved in the DNA damage were hydroxyl, singlet oxygen-like species, and superoxide anion.     

Mixed-ligand complex formation of mercury (II) ethylenediaminetetraacetate with cysteine and methionine in aqueous solution

The mixed-ligand complex formation in the systems Hg²⁺-Edta⁴⁻-L (L = Cys²⁻, Met⁻) has been studied by means of calorimetry, pH-potentiometry and NMR spectroscopy in aqueous solution at 298.15 K and the ionic strength of I = 0.5 (KNO₃). The thermodynamic parameters of formation of the HgEdtaL, HgEdtaHL and (HgEdta)₂L complexes have been determined. The most probable coordination mode for the complexone and the amino acid in the mixed-ligand complexes is discussed.     

Kinetics and DFT studies on the reaction of copper(II) complexes and H2O2

Copper(II) complexes supported by bulky tridentate ligands L1^H (N,N-bis(2-quinolylmethyl)-2-phenylethylamine) and L1^Ph (N,N-bis(2-quinolylmethyl)-2,2-diphenylethylamine) have been prepared and their crystal structures as well as some physicochemical properties have been explored. Each complex exhibits a square pyramidal structure containing a coordinated solvent molecule at an equatorial position and a weakly coordinated counter anion (or water) at an axial position. The copper(II) complexes reacted readily with H₂O₂ at a low temperature to give mononuclear hydroperoxo copper(II) complexes. Kinetics and DFT studies have suggested that, in the initial stage of the reaction, deprotonated hydrogen peroxide attacks the cupric ion, presumably at the axial position, to give a hydroperoxo copper(II) complex retaining the coordinated solvent molecule (H ^R ·S). H ^R ·S then loses the solvent to give a tetragonal copper(II)-hydroperoxo complex (H ^R ), in which the –OOH group may occupy an equatorial position. The copper(II)–hydroperoxo complex H ^R exhibits a relatively high O–O bond stretching vibration at 900 cm⁻¹ compared to other previously reported examples.Electronic Supplementary Material Supplementary material is available for this article at     

A ferromagnetically coupled tetranuclear pseudo-cubane copper(II) cluster: magnetic and ESR studies

A tetranuclear copper(II) complex [Cu₄(NSI)₄] · 2C₂H₅OH · 2H₂O (NSI=hydroxethylsalicydeneimine) has been synthesized and characterized by X-ray diffraction analysis. The compound crystallizes in the monoclinic system, space group P2(1), a=9.494(3) Å, b=18.687(5) Å, c=13.149(4) Å, β=110.162(5)°, Z=2, R₁=0.0482 and wR₂=0.0978. The crystal structure contains a tetranuclear pseudo-cubane core based on an approximately cubane array of alternating copper and oxygen atoms. Each copper atom resides in a distorted square planar coordination environment with one nitrogen and three oxygen atoms from two NSI ligands. The tetranuclear units are linked in the crystal by O-H?O hydrogen bonds and weak Cu?O co-ordination bonds into one-dimensional structure. Variable temperature (5-300 K) magnetic measurements indicate the existence of ferromagnetic interactions among copper atoms. The IR and ESR spectra have also been investigated.     

A new copper(II) complex of unsymmetrical tetradentate ligand generated in situ: synthesis and molecular structure

A new copper(II) complex with tetradentate unsymmetrical ligand was prepared by one-pot condensation of methyl-2-pyrrole carboxylate, diethylenetriamine and copper(II) sulfate. The complex was characterized by elemental analysis, electronic and IR spectral, as well as X-ray crystal structure determination. The X-ray structure of the molecule reveals the copper(II) center is in a square planar environment through coordination by two nitrogen atoms of the amine, one amide nitrogen atom and one nitrogen atom of the pyrrole moieties, respectively. The copper(II) complex is neutral due to deprotonation of the amide and pyrrole groups.     

The use of trans-4-cotininecarboxylate to construct a polymeric copper(II) azido complex: Hydro(solvo)thermal synthesis, structure and magnetic properties

A new pyridyl-carboxylate ligand, the anion of trans-4-cotininecarboxylic acid, HL, 1, has been used to prepare a new polymeric copper(II) complex, [CuLN₃]_2n, 2, based on a [CuLN₃]₂ dimeric building block. The single crystal structures of both 1 and 2 have been determined and 1 has been found to be in its zwitterionic configuration. The structure of 2 is a one-dimensional tape-like polymeric structure based on an end-on azido-bridged binuclear [Cu₂N₃]₂ backbone moiety. Magnetic studies reveal that 2 is close to paramagnetic from 2 to 300 K with a Curie constant of 1.094 emu K/mol, a Weiss temperature of 0.73 K and a corresponding μ_eff of 2.09 μ_B. A fit of χ_MT for 2 with S₁ = S₂ = ½, yields g = 2.441(6), J = −0.49(3) cm⁻¹, zJ = −0.38(2) cm⁻¹ and N(α) = 0.00053(12) emu/mol, a fit that indicates the presence of both very weak intramolecular intrachain antiferromagnetic exchange coupling within the one-dimensional tape-like chains and very weak interchain antiferromagnetic exchange coupling between these chains.     

A new blue luminescent dichlorido-bridged dinuclear copper(II) complex with DNA binding and cytotoxic activities: Synthesis, structure and DFT studies

A blue luminescent dichlorido-bridged dinuclear copper(II) (S = 1/2) complex, [Cu^II₂(HL)₂(μ-Cl)₂]·2H₂O, 1a was synthesized with the 1:1 reaction of the acyclic tridentate salicylaldehyde 2-pyridyl hydrazone ligand, HL, 1. The complex 1a displays multiple bands in the visible region (400-470 nm). The association constant (K_ass, UV-Vis) was found to be 1.186 × 10⁴ for 1a at 298 K. The copper(II)-copper(III) oxidation potential lies near 0.32 V versus Ag/AgCl electrode. On excitation at 390 nm, the ligand 1 strongly emits at 444 nm due to an intraligand ¹(π-π^∗) transition. Upon complexation with copper(II) the emission peak is slightly red shifted (λ_ex 390 nm, λ_em 450 nm, F/F₀ 0.81) with little quenching. Molecular structure of 1a (Cu···Cu 3.523 Å) has been determined by single crystal X-ray diffraction studies. DFT and TDDFT calculations strongly support the spectral behavior of the ligand and the complex. The complex 1a exhibits a strong interaction towards DNA as revealed from the K_b (intrinsic binding constant) 2.05 × 10⁴ M⁻¹ and K_sv (Stern-Volmer quenching constant) 2.47 values. The complex exhibits cytotoxic effect and the LD₅₀ value for HeLa cells was calculated as 5.44 μM at which the cell cycle was arrested at G₂/M phase.     

DNA binding and oxidative DNA damage induced by a quercetin copper(II) complex: potential mechanism of its antitumor properties

The interaction of a quercetin copper(II) complex with DNA was investigated using UV–vis spectra, fluorescence measurement, viscosity measurement, agarose gel electrophoresis, and thiobarbituric acid reactive substances assay. The results indicate that the quercetin copper(II) complex can promote the cleavage of plasmid DNA, producing single and double DNA strand breaks, and intercalate into the stacked base pairs of DNA. Moreover, the complex can induce oxidative DNA damage involving generation of reactive oxygen species such as H₂O₂ and Cu(I)OOH. In addition, the cytotoxicity experiments carried out with A549 cells confirmed its apoptosis-inducing activity. And we also demonstrate that the levels of survivin protein expression in A549 cells decreased, and that relative activity of caspase-3 increased significantly after treatment with the complex. So our results suggest that the antitumor mechanism of the quercetin copper(II) complex involves not only its oxidative DNA damage with generation of reactive oxygen species but also its specific interaction with DNA. Electronic supplementary material  The online version of this article (doi:) contains supplementary material, which is available to authorized users.     

Solvent-controlled generation of two pairs of mononuclear single-strand helical copper(II) complexes of 2,6-pyridinediylbis(2-pyridinyl)methanone: metal-promoted hydrolysis and solvolysis with asymmetric induction

Two pairs of stable mononuclear single-strand helical complexes were obtained through controlled self-assembly using 2,6-pyridinediylbis(2-pyridinyl)methanone (L) and copper(II) salts. CuL(NO₃)₂ (1) and [CuL′(H₂O)](NO₃)₂ (2) represent a pair in which L takes the diketo form in 1 but hydrolyzed in 2, while CuLCl₂ (3) and [CuL″Cl]Cl (4) constitute another pair in which L remains intact in 3 but solvolyzed in 4. A mechanism of the metal-promoted hydrolysis and solvolysis of ligand L with asymmetric induction is proposed through studies on the crystal structures of these complexes.     

Synthesis and characterization of novel Cu(II)-bipyridine complexes having functional groups and their application toward molecular recognition

Two kinds of Cu(II) complexes having 2,2′-bipyridine derivatives with two 1-naphthoylamide groups or two ethyl dimethylmalonylamide moieties at 6 and 6′ positions as ligands were prepared and characterized by X-ray crystallography and spectroscopic methods. Those ligands bound to the Cu(II) centers in a tetradentate fashion including two amide oxygen atoms in the equatorial planes. Those complexes were found to recognize carboxylic acids as guest molecules by coordination and additional non-covalent interactions, including intramolecular π-π interactions or hydrogen bonding.     

Biological evaluations of newly-designed Pt(II) and Pd(II) complexes using spectroscopic and molecular docking approaches

To perform biological evaluations of newly-designed Pt(II) and Pd(II) complexes, the present study was conducted with targeted protein human serum albumin (HSA) and HCT116 cell line as model of human colorectal carcinoma. The binding of Pt(II) and Pd(II) complexes to HSA was analyzed using fluorescence spectroscopy and molecular docking. The thermal stability and alterations in the secondary structure of HSA in the presence of Pt(II) and Pd(II) complexes were investigated using the thermal denaturation method and circular dichroism (CD) spectroscopy. The cytotoxicity of the Pt(II) and Pd(II) complexes was studied against the HCT116 cell line using MTT assay. The binding analysis revealed that the fluorescence findings were well in agreement with docking results such that there is only one binding site for each complex on HSA. Binding constants of 8.7?×?10³ M^?1, 2.65?×?10³ M^?1, 0.3?×?10³ M^?1, and 4.4?×?10³ M^?1 were determined for Pd(II) and Pt(II) complexes (I–IV) at temperature of 25?°C, respectively. Also, binding constants of 1.9?×?10³ M^?1, 15.17?×?10³ M^?1, 1.9?×?10³ M^?1, and 13.1?×?10³ M^?1 were determined for Pd(II) and Pt(II) complexes (I–IV) at temperature of 37?°C, respectively. The results of CD and thermal denaturation showed that the molecular structure of HSA affected by interaction with Pt(II) and Pd(II) complexes is stable. Cytotoxicity studies represented the growth suppression effect of the Pt(II) and Pd(II) complexes toward the human colorectal carcinoma cell line. Therefore, the results suggest that the new designed Pt(II) and Pd(II) complexes are well promising candidates for use in cancer treatment, particularly for human colorectal cancer.

Communicated by Ramaswamy H. Sarma     

Dipeptide interactions with Zn(II)–cyclen artificial model for molecular recognition

The Zn(II)–cyclen–dipeptide ternary systems (where cyclen is abbreviated as L and dipeptide is glycylglycine (HL¹) or glycyl‐(S)‐alanine (HL²)) were investigated by potentiometry applying both “out‐of‐cell” and direct titrations and by ¹H NMR spectroscopy. Especially, the ¹H NMR study was found to be very efficient to estimate speciation in the systems. The results obtained under full equilibria indicated two main species, [Zn(L)(HL^1,2)]²⁺ and [Zn(L)(L^1,2)]⁺, in both the systems. In the [Zn(L)(HL^1,2)]²⁺ complex, presence of carbonyl‐carboxylate chelate was confirmed, and in the [Zn(L)(L^1,2)]⁺ species, the peptide coordination is re‐organized to carbonyl‐amine chelate or only terminal amino group is coordinated. Equilibrium constants describing [Zn(L)]²⁺–dipeptide interaction are relatively low, log K = 3.4 for Gly‐Gly and 4.1 for Gly‐(S)‐Ala, respectively. Nevertheless, the values are slightly higher than stability constants for interaction of Zn(II) with the dipeptides (i.e. [Zn(L^1,2)]⁺ species) where a chelate formation is expected. It indicates that interaction between Zn(II) ion in [Zn(L)]²⁺ and the dipeptides should be supported by some additional interactions. Potentiometry carried out under non‐equilibrum condition showed different species where these additional stabilizing forces play more important role. Copyright © 2015 John Wiley & Sons, Ltd.     

Short-chain oligopeptides with copper(II) binding properties: The impact of specific structural modifications on the copper(II) coordination abilities

A series of linear tetrapeptides containing two histidyl residues in position 2 and 4, namely DHGH, DHGdH, KHGH, KHGdH, Ac-DHGH-NH₂, Ac-DHGdH-NH₂, Ac-KHGH-NH₂, and Ac-KHGdH-NH₂, were synthesized and characterised. Their copper(II) binding properties were investigated in depth through a variety of physicochemical methods. Potentiometric titrations were first carried out to establish the stoichiometry and the stability of the resulting copper(II)-peptide complexes. The copper(II) chromophores that are formed in the various cases in dependence of pH were subsequently characterised by extensive spectroscopic analysis (UV-Vis, EPR, CD) in strict correlation with potentiometric data. The effects of the nature of the first amino acid (Lys versus Asp) and of N-terminal amino group protection on copper(II) binding were specifically addressed. On turn, the careful comparison of the copper(II) coordination abilities of the linear peptides with those of their cyclic analogs provided insight into the effects of cyclization on the overall metal binding properties.     

A new Schiff base copper (II) complex derived from estrone and d-glucosamine: Synthesis,characterization and its interaction with DNA

A novel copper (II) complex of Schiff base prepared through condensation between 2-formyl-17-deoxyestrone and d-glucosamine was synthesized and characterized. Fluorescence spectroscopy was conducted to assess their binding ability with CT-DNA. The results showed that the copper (II) complex could bind to DNA with a weak intercalative mode. The interaction between the copper (II) complex and DNA was also investigated by gel electrophoresis. Interestingly, we found that the complex could cleave plasmid DNA (pUC19) to nicked and linear forms through an oxidative mechanism without the use of exogenous agents.