Synthesis,characterization and DNA interaction studies of a new platinum(II) complex containing caffeine and histidine ligands using instrumental and computational methods

A new Pt(II) complex, [Pt(Caff)(His)(Cl)] (Caff is Caffeine (3,7-dihydro-1,3,7-trimethyl-1H-purine-2,6-dione) and His is l-Histidine), was synthesized and characterized using different physicochemical methods. The interaction of this complex with calf thymus DNA (ct-DNA) was investigated by absorption, emission, circular dichroism (CD), and viscosity measurements and molecular docking techniques. The calculated binding constant, K_b, was 5.3 × 10³ M^?1. In fluorimetric studies, the enthalpy and entropy of the reaction between the complex and ct-DNA showed that the reaction is exothermic (?H = ?184.07 kJ mol^?1, ?S = ?551.97 J mol^?1 K^?1). CD spectra of DNA in the presence of different amounts of the complex showed little changes in both the negative and positive band intensities, which imply a non-intercalative mode between the DNA and the platinum complex. Furthermore, the study of molecular docking also indicated that the complex binds to DNA via a groove binding mode.     

Synthesis of a new Pt(II) complex containing valganciclovir drug and calf-thymus DNA interaction study using multispectroscopic methods

A new complex, [Pt(valcyte)(DMSO)Cl]Cl, in which valcyte (trade name) served as valganciclovir hydrochloride drug ([2-[(2-amino-6-oxo-3H-purin-9-yl)methoxy]-3-hydroxypropyl](2S)-2-amino-3-methylbutanoate), was synthesized and characterized by different physicochemical methods. Binding interaction of this complex with calf-thymus DNA (ct-DNA) has been investigated by multispectroscopic techniques. The complex displays significant binding properties with ct-DNA. The results of fluorescence and UV–vis absorption spectroscopy indicated that this complex interacted with ct-DNA in a groove-binding mode, and the binding constant was 3.8 × 10⁴ M^?1. Furthermore, the complex induced detectable changes in the CD spectrum of ct-DNA and slightly changed its viscosity which verified the groove-binding mode. Finally, all results indicated that Pt(II) complex interact with DNA via groove-binding mode.     

Synthesis,characterization and comparative DNA interaction studies of new copper(II) and nickel(II) complexes containing mesalamine drug using molecular modeling and multispectroscopic methods

Complexes of copper(II) and nickel(II) containing the drug mesalamine (5-ASA) have been synthesized and characterized by FT-IR, mass and UV–vis spectra, elemental analysis, and theoretical methods. The binding interactions between mesalamine and its Cu(II) and Ni(II) complexes with calf thymus DNA (ct-DNA) were investigated using absorption, fluorescence emission and circular dichroism (CD) spectroscopies, and viscosity measurements. Absorption spectra of 5-ASA, Cu(II) and Ni(II) complexes showed hypochromism. The calculated binding constants (K_b) obtained from UV–vis absorption studies were 1.27 × 10³, 1.6 × 10³, and 1.2 × 10⁴ M^?1 for 5-ASA, Cu(II) and Ni(II) complexes, respectively. The compounds induced detectable changes in the CD spectra of ct-DNA (B → A structural transition, B → C structural transition and stabilization of the right-handed B form, for mesalamine, Cu(II) and Ni(II) complexes, respectively). The competitive binding experiments with Hoechst 33258 indicated that 5-ASA and copper complex could interact as groove binders. Furthermore, Ni complex had no effect on the fluorescence intensity and peak position of MB-DNA system. Finally, the results obtained from experimental and molecular modeling showed that complexes bind to DNA via minor-groove binding.     

DNA binding and nuclease activity of a water-soluble sulfonated manganese(III) corrole

The interaction of a water-soluble sulfonated Mn(III) corrole Mn(tpfc)(SO₃Na)₂ [tpfc = 5,10,15-tris(pentafluorophenyl)corrole] with calf thymus DNA (ct-DNA) has been studied by spectroscopic methods, and the nuclease activity of this complex has also been examined by agarose gel electrophoresis. Mn(tpfc)(SO₃Na)₂ exhibits weak aggregation tendency in buffer solution and can bind to ct-DNA via an outside binding mode with a binding constant of 1.25 × 10⁴ M^?1. The observed increase in Stern–Volmer quenching constant with increasing temperature indicates that the competition of the manganese corrole and ethidium bromide with ct-DNA is a dynamic process. Moreover, the manganese corrole displays good chemical nuclease activity in the presence of hydrogen peroxide via oxidative cleavage of DNA.     

Improving activity of anticancer oxalipalladium analog by the modification of oxalate group with isopentylglycine

In this article, we describe the influence of structure on biological behavior of amino acid-Pd complex and compare it with oxalipalladium. A new water-soluble oxalipalladium analog with formula of [Pd(DACH)(isopentylgly)](NO₃), where DACH is 1R,2R-diaminocyclohexane, has been synthesized and characterized by elemental analysis, conductivity measurements, IR, UV–Vis, and ¹H NMR spectroscopies. The interactions of oxalipalladium and its amino acid derivative with highly polymerized calf-thymus DNA have been extensively studied by spectroscopic methods. The high binding constants of oxalipalladium (0.38 × 10⁴ M^?1) and new amino acid-Pd complex (0.65 × 10⁴ M^?1) were determined using absorption measurements. Also circular dichroism (CD) studies show that Pd complex causes more disturbances on DNA structure rather than oxalipalladium. The experimental results proposed that [Pd(DACH)(isopentylgly)](NO₃) is bound to DNA by groove-binding mode as well as partially covalent interaction, while oxalate analog binds covalently to DNA after hydrolysis. Interaction of the two metal derivative complexes was studied by molecular docking simulation. The results showed that amino acid-Pd complex has higher negative docking energy and higher tendency for interaction with DNA, and exert more structural change on DNA. Finally, the anticancer and growth inhibitory activities of synthesized complexes were investigated against human colon cancer cell line of HCT116 after 24 h incubation time using MTT assay. Results show that the complex [Pd(DACH)(isopentylgly)](NO₃) showed enhanced anticancer and growth inhibitory activities against human colon can cell line HCT116.     

A copper(II) complex of 6-(pyrazin-2-yl)-1,3,5-triazine-2,4-diamine and L-serinate: synthesis,crystal structure,DNA-binding and molecular docking studies

A water-soluble Cu(II) complex, [Cu(pzta)(L-Ser)(ClO₄)]·1.5H₂O (pzta = 6-(pyrazin-2-yl)-1,3,5-triazine-2,4-diamine; L-Ser = L-serinate), was synthesized and characterized by analytical and spectral techniques. In addition, the molecular structure of the complex was confirmed by single-crystal X-ray diffraction, revealing that the central Cu(II) atom was located in a six-coordinate distorted octahedral geometry. Multi-spectroscopic methods, viscosity measurements and thermal denaturation experiments revealed that the complex binds to DNA with apparent binding constant of 2.93 × 10³ M^?1 through a groove binding mode. The positive values of ΔH and ΔS obtained from isothermal titration calorimetry experiments indicated that hydrophobic interactions play an important role in the formation of the complex–DNA adduct. Molecular docking studies were carried out to better understand the binding mode of the complex with DNA.     

Synthesis,structural characterization and DNA-binding studies of a new cobalt (II) complex: (HAcr)<Subscript>4</Subscript>[Co(Sal)<Subscript>3</Subscript>]

A new cobalt (II) coordination compound was synthesized using proton transfer mechanism. The reaction between CoCl₂·2H₂O, Salicylic acid (H₂Sal) and acridine (Acr) gave a new coordination compound formulated as (HAcr)₄[Co(Sal)₃], which was characterized by elemental analysis, NMR, IR and UV/Vis spectroscopies. The interaction of this complex with DNA has been investigated in vitro using UV absorption, fluorescence spectroscopy, viscosity measurements and gel electrophoresis methods. The intrinsic binding constant has been estimated to be 5.8 × 10⁵ M^?1 using UV absorption. The interaction of DNA–Co (II) complex caused quenching in fluorescence. The binding constant, the number of binding site and Stern–Volmer quenching constant have been calculated to be 7.7 × 10⁴ M^?1, 1.143 and 1.5 × 10⁴ Lmol^?1, respectively. The increase in the viscosity of DNA with increasing the concentration of the Co (II) complex and the observations of other experiments suggest that the cobalt (II) complex binds to DNA by partial intercalation binding mode. Furthermore, the interaction of DNA–Co (II) complex was confirmed using gel electrophoresis studies. Moreover, molecular docking technique predicted partial intercalation binding mode for the complex.     

DNA-interaction studies of a copper(II) complex containing ceftobiprole drug using molecular modeling and multispectroscopic methods

Abstract

The interaction of the [Cu(cef)(phen)Cl₂] complex with calf-thymus DNA (ct-DNA) at physiological pH was investigated by UV-visible spectrophotometry, fluorescence measurement, dynamic viscosity measurements, circular dichroism spectroscopy, and molecular modeling. UV-vis spectra showed 5?nm bathochromic shift of the absorption band at 270?nm along with significant hypochromicity for the absorption band of the complex. The binding constant obtained of UV-vis (1?×?10⁵ M^?1) is more in keeping with intercalators and suggests this binding mode. Moreover, thermodynamic parameters indicated that hydrogen bond and van der Waals interactions play main roles in the binding of [Cu(cef)(phen)Cl₂] to ct-DNA. In addition, [Cu(cef)(phen)Cl₂]-DNA docked model is in approximate correlation with the experimental results.     

Synthesis,characterization, crystal structure,and DNA binding of two copper(II)–hydrazone complexes

Two new Cu(II)–hydrazone complexes, [Cu(L)(Hbpe)ClO₄]·ClO₄·[Cu(L)Cl] (1) and [Cu(HL)₂]·1.5ClO₄·0.5OH (2) (where HL?=?(E)-N′-(1-(pyridine-2-yl)ethylidene)benzohydrazide and bpe = trans-1-(2-pyridyl)-2-(4-pyridyl)ethylene), have been synthesized and characterized by physicochemical methods. The structures of the complexes have been established by single-crystal X-ray diffraction direct methods, which reveal that the metal ions have distorted square-pyramidal and square-planar geometries in 1, and a distorted octahedral geometry in 2. DNA binding of HL, 1, and 2, performed by UV–vis titration in tris-buffer medium, yielded binding constants, which are 9.5 × 10³, 1.88 × 10⁴, and 4.66 × 10⁴ M^?1, respectively. Viscosity measurements suggest a surface or groove-binding mode of interaction between CT-DNA with HL, 1, and 2.     

Oxovanadium complex as potential nucleic acid binder

DNA binding study of a vanadium(V) complex, Oxo-chloro-bis-N-phenylbenzohydroxamto-vanadium(V), derived from N-phenylbenzohydroxamic acid(PBHA) form a violet color complex with vanadium (V) in presence of hydrochloric acid is performed using absorption, fluorescence and viscometric techniques. The binding parameters of the PBHA-V(V) complex using calf thymus DNA (ct-DNA) and torula yeast RNA (t-RNA) have been determined. The complex shows the ability of cooperatively minor groove binding with ct-DNA as indicated by remarkable hyperchromicity and a blue shift of the absorption spectra. Quenching of metal complex calculation was carried out with Stern-Volmer equation and K_sv was found to be 2.32 ± 0.18 × 10⁴ M^?1, while in the case of t-RNA, enhancement is observed and that means the compound was not able to displace the Ethidium Bromide(EB)-t-RNA complex. Molecular docking was also applied to predict the mode of interaction of the hydroxamic acid with ct-DNA and t-RNA. DNA binding results of the complex are compared with those of the parent ligand.     

Synthesis,structure and spectroscopic studies on DNA binding,BSA interaction of a nickel(II) complex containing l–methionine Schiff base and 1,10-phenanthroline

A new nickel(II) complex, [Ni(o-van-L-met)(phen)(CH₃OH)] (o-van-L-met = Schiff base derived from o-vanillin and l-methionine, phen = 1,10–phenanthroline), has been synthesized and characterized by elemental analyses, IR spectra, and single-crystal X-ray diffraction. The crystal structure shows nickel is six-coordinate in a distorted octahedral geometry. In this crystal, molecules form a 2-D plane structure via hydrogen bonds and π–π interactions. The interaction of the complex with calf thymus DNA (CT-DNA) was investigated by absorption, fluorescence, circular dichroism (CD), spectroscopies, and viscosity measurement. The complex binds to CT-DNA in an intercalative mode with a binding constant of (4.7 ± 0.5) × 10⁴ M^?1. The interaction of the complex with bovine serum albumin (BSA) was also studied by the multispectroscopic methods. Results illustrated that the nickel(II) complex can effectively quench the intrinsic fluorescence of BSA via a static quenching mechanism and cause conformational changes. The binding constant K_b was (6.3 ± 1.6) × 10⁴ M^?1 and the binding site number n was 0.96 ± 0.04; its bind site was located within subunit IIA of BSA.     

Synthesis and crystal structure of the first dinuclear zinc complex containing 1,4,7-triazacyclononane and biological properties of the protonated ligand

Abstract

A new binuclear complex, [Zn₂L₂Cl₄]·2H₂O {L?=?N-aldehyde-N-(4-(benzyloxy)benzyl)-1,4,7triazacyclononane}, was synthesized and characterized by X-ray, elemental analysis, infrared and electronic spectroscopy, and mass spectrometry. The central ion is bridged by the L and lies in a tetrahedral configuration with Zn···Zn distance of 6.283 Å. The complex crystallizes in the triclinic space group Pī. ESI-MS of the complex indicates that the protonated ligand HL⁺ is the active species. The interaction of HL⁺ with calf thymus–DNA (CT–DNA) and bovine serum albumin (BSA) was studied by means of various spectroscopic methods, which revealed that HL⁺ could interact with CT–DNA through groove-binding mode and could quench the intrinsic fluorescence of BSA in a static quenching process. DNA–cleavage experiments indicate that HL⁺ exhibits efficient DNA–cleavage activity in the presence of H₂O₂, hydroxyl radical (HO^?) may serve as the major cleavage active species, and the pseudo-Michaelis–Menten kinetic parameters (K_cat, K_M, V_max); 2.47?h^?1, 2.70?×?10^?4 M and 6.68?×?10^?4 Mh^?1.     

A rare case for binding a diquat salt by two cyclo[6]aramides

The non-aggregational cyclo[6]aramide has demonstrated 2:1 host–guest complexation towards diquat with very strong binding ability (K₁ = 5.41 × 10⁴ M^? 1, K₂ = 4.33 × 10⁶ M^? 1). The donor–acceptor binding process of the macrocycle and the quaternary salt was investigated by ¹H NMR, ESI mass spectrometry and UV–vis spectroscopy. The binding mode is supported by both experiments and theoretical simulations. This work provides the first example of using recently developed H-bonded aromatic oligoamide macrocycles for binding diquat in solution.     

Metal(II) complexes of bioactive aminonaphthoquinone-based ligand: synthesis,characterization and BSA binding,DNA binding/cleavage,and cytotoxicity studies

An aminonaphthoquinone ligand, L, and its metal complexes of general formula [MLCl₂] {M = Co(II), Ni(II), Cu(II) and Zn(II)} have been synthesized and characterized by analytical and spectral techniques. Tetrahedral geometry has been assigned to Ni(II) and Zn(II) complexes and square planar geometry to Co(II) and Cu(II) complexes on the basis of electronic spectral and magnetic susceptibility data. The binding of complexes with bovine serum albumin (BSA) is relatively stronger than that of free ligand and alters the conformation of the protein molecule. Interaction of these complexes with CT-DNA has been investigated using UV-Vis and fluorescence quenching experiments, which show that the complexes bind strongly to DNA through intercalative mode of binding (K_app 10⁵ M^?1). Molecular docking studies reiterate the mode of binding of these compounds with DNA, proposed by spectral studies. The ligand and its complexes cleave plasmid DNA pUC18 to nicked (Form II) and linear (Form III) forms in the presence of H₂O₂ oxidant. The in vitro cytotoxicity screening shows that Cu(II) complex is more potent against MCF-7 cells and Zn(II) complex exhibits marked cytotoxicity against A-549 cells equal to that of cisplatin. Cell imaging studies suggested apoptosis mode of cell death in these two chosen cell lines.     

Synthesis,characterization and in vitro DNA binding studies of a new copper(II) complex containing an antiviral drug,valganciclovir

A new complex, [Cu(valcyte)₂(NO₃)₂], in which valcyte served as a valganciclovir drug, was synthesized and characterized by different physicochemical methods. Optimization of ligand structures and their complexes with Cu²⁺ were performed by semi-empirical and DFT methods. Binding interaction of this complex with calf-thymus DNA (ct-DNA) was explored by emission, absorption, circular dichroism and viscosity techniques. Additionally, cell line targeting was studied and cytotoxic effects of [Cu(valcyte)₂(NO₃)₂] (0.0–160 μg) on AGS and MCF-7 cell lines were reported. Percentage of Cell Viability and Apoptotic Index were assessed. The complex displayed significant binding properties to ct-DNA. Undertaking fluorometric studies, the binding mode of the complex with ct-DNA was explored utilizing Hoechst as a fluorescence probe, indicating the binding to be of groove mode. The DNA viscosity altered slightly in presence of the complex. Enthalpy and entropy changes during the interaction showed that the process is endothermic, with the complex mainly bound to ct-DNA by hydrophobic attraction. Values of ΔG revealed a spontaneous reaction between DNA and the complex. Optimized docked model of DNA–complex mixture confirmed the experimental results. The results of MMFF94 calculations indicated stability of [Cu(valcyte)₂(NO₃)₂] after docking with the modeled DNA profile, as compared to the DNA profile and valganciclovir results before the docking process. Cytotoxicity studies showed that an increase in [Cu(valcyte)₂(NO₃)₂] may result in a significant decrease in cell viability and increase apoptosis index in the treated cells, as compared to valganciclovir treated cells (p < 0.05). The findings further showed that [Cu(valcyte)₂(NO₃)₂] has potential for use in cancer therapy.     

Inducement and stabilization of G-quadruplex DNA by a thiophene-containing dinuclear ruthenium(II) complex

G-quadruplex structures are attractive targets for the development of anticancer drugs, as their formation in human telomere could impair telomerase activity, thus inducing apoptosis in cancer cells. In this work, a thiophene-containing dinuclear ruthenium(II) complex, [Ru₂(bpy)₄(H₂bipt)]⁴⁺ {bpy = 2,2′-bipyridine, H₂bipt = 2,5-bis[1,10]phenanthrolin[4,5-f]-(imidazol-2-yl)thiophene}, was prepared and the interaction between the complex and human telomeric DNA oligomers 5′-G₃(T₂AG₃)₃-3′ (HTG21) has been investigated by UV-Vis, fluorescence and circular dichroism (CD) spectroscopy, fluorescence resonance energy transfer (FRET) melting assay, polymerase chain reaction (PCR) stop assay, fluorescent intercalator displacement (FID) titrations, Job plot and color reaction studies. The results indicate that the complex can well induce and stabilize the formation of antiparallel G-quadruplex of telomeric DNA in the presence or absence of metal cations, and the ΔT_m value of the G-quadruplex DNA treated with the complex was obtained to be 12.8 °C even at levels of 50-fold molar of duplex DNA (calf-thymus DNA), suggesting that the complex exhibits higher G-quadruplex DNA selectivity over duplex DNA. The complex shows high interaction ability with G-quadruplex DNA at (1.17 ± 0.12) × 10⁷ M^?1 binding affinity using a 2:1 [complex]/[quadruplex] binding mode ratio. A novel visual method has been developed here for making a distinction between G-quadruplex DNA and duplex DNA by our ruthenium complex binding hemin to form the hemin-G-quadruplex DNAzyme.     

Isomeric Effect on the anticancer Behavior of two Zinc (II) complexes based on 3,5‐bis(1‐imidazoly) pyridine: Experimental and Theoretical Approach

Two isomeric Zinc (II) complexes constructed by 3,5‐bis(1‐imidazoly) pyridine has been synthesized and characterized by single crystal X‐ray diffraction, elemental analyses and infrared spectroscopy. The binding mode and ability of complex 1–2 with CT‐DNA were studied by UV and fluorescence spectra. The intrinsic binding constant K_b (K_b1 = 2.305 × 10⁴ M^?1, K_b2 = 3.095 × 10⁴ M^?1) and the observed association constant K_obs (K_obs1 = 1.523*10⁶ M^?1, K_obs2 = 2.057*10⁶ M^?1) indicated that the insertion ability of complex 2 with CT‐DNA is stronger than complex 1. Gel electrophoresis showed that complexes have a good ability to hydrolyze cleavage pBR322 plasmid DNA. The cytotoxicity and apoptosis studies showed that complexes exhibited excellent cytotoxic activity against HeLa cells, especially complex 2 had better growth inhibition than Cisplatin. Molecular docking study simulated the binding model of complexes with DNA (PDB:4av1), showing an imidazole plane of complex 2 can be inserted into a DNA base pair in relative parallel. Both complexes can be used as potential anticancer agents.     

Two new heteroleptic ruthenium(II) dithiocarbamates: synthesis,characterization, DFT calculation and DNA binding

Two ruthenium(II) dithiocarbamates, cis-[Ru(DMP)₂L](BF₄), where L = 4-(4-methoxy-phenyl)piperazine-1-carbodithioate (1) and 4-(3-methoxyphenyl)piperazine-1-carbodithioate (2) and DMP = 2,9-dimethyl-1,10-phenanthroline, have been synthesized and characterized. The DNA-binding affinity of these metal complexes was investigated by UV–visible spectrophotometry with DNA-binding constants of 6.2 × 10⁴ M^?1 (1) and 1.2 × 10⁵ M^?1 (2) and electrostatic binding mode was confirmed by viscometric measurements. For insight into the structural differences, both complexes were studied computationally. B3LYP/LANL2DZ level of Density Functional Theory was used for the computational studies in Gaussian 09. The optimized bond lengths are in agreement with the reported values. Comparative computational studies reveal interesting transformations in bond lengths, angles, Natural Bond Orbital charges, molecular orbitals, Molecular Electro Static Potentials, and global chemical reactivity indices. Based on quantum chemical results a structure–activity relationship has been attempted.     

Synthesis,characterization, and DNA binding of two copper(II) complexes as DNA fluorescent probes

[Cu(DAPT)₂Cl]Cl·H₂O and [Cu(DBM)(DAPT)Cl] [DAPT = 2,4-diamine-6-(pyrazin-2-yl)-1,3,5-triazine] were synthesized and characterized by IR and UV spectroscopy, elemental analysis, TG–DTA, molar conductivity, and LC–MS. The interaction with calf thymus DNA (ct-DNA) of the two complexes has been studied using UV spectra, fluorescent spectra, cyclic voltammetry, and viscosity measurements. The complexes interact with ct-DNA through classical intercalation. Fluorescence intensity changes of 1 and 2 in the absence and presence of ct-DNA have been investigated for quantitative determination of ct-DNA with the limit of detection of 3.8 and 7.7 ng mL^?1, respectively. From the result, the two complexes are potentially sensitive DNA fluorescent probes.     

Aggregation and solution behavior of 5-(1-(4-carboxybutyl) pyridinum-4-yl) 10,15,20-tris (1-methylpyridinium-4-yl) porphyrin: A resonance light scattering, fluorescence and absorption spectroscopic study

Aggregation behavior of water soluble porphyrins, 5-(1-(4-carboxybutyl) pyridinum-4-yl) 10,15,20-tris (1-methylpyridinium-4-yl) porphyrin (5-CBPyP) in the presence of various concentrations of calf thymus DNA (ct-DNA) and sodium chloride were studied in comparison with meso-tetrakis (4-N-methyl pyridinum) porphyrin (TMPyP), by optical absorption, fluorescence and resonance light scattering (RLS) spectroscopies. Both porphyrins obey Beer’s law in extended range of concentration. Optical absorption and RLS measurements demonstrated nonaggregation for both porphyrins under increasing concentration of ct-DNA and NaCl. However, in comparison, 5-CBPyP had less tendency for aggregation that may be taken as an advantage for its probable application in photodynamic therapy of cancer. The trend of changes in absorption spectra of both porphyrins in the presence of ct-DNA indicates the homogeneous intercalation binding mode. The values of (2.81 ± 0.28) × 10⁶ M^?1 and (0.95 ± 0.09) × 10⁶ M^?1 were obtained for apparent binding constant of TMPyP and 5-CBPyP from analysis of optical absorption data, respectively. This indicates the less affinity of 5-CBPyP to ct-DNA in comparison with TMPyP. The binding of both porphyrins to ct-DNA quenches fluorescence emission of Ethidium bromide (EB) that is bound to ct-DNA. The quenching process obeys linear Stern-Volmer relationship indicating the displacement of EB from its binding sites by these porphyrins. The results of this technique also represent the intercalation mode of binding for both porphyrins and higher binding affinity of TMPyP compared with 5-CBPyP.