Bioactive Fluorenes. Part II. Unprecedented biologically active thiazole derivatives based-2,7-dichlorofluorene as competent DHFR inhibitors: Design,synthesis, and molecular docking approaches

In this study, a new series of (4-(2,7-dichloro-9H-fluoren-4-yl)thiazol-yl)acetamide derivatives was synthesized, and the new heterocycles were completely characterized, evaluated for their antimicrobial activity, and screened for cytotoxic activity against human lung carcinoma (A-549) and human breast carcinoma (MCF-7) cell lines. A molecular docking study was undertaken to identify the possible mode of action of the synthesized compounds, which suggested binding interactions with the dihydrofolate reductase (DHFR) active sites.Most of the synthesized compounds displayed meaningful activity against A-549 and MCF-7 cell lines when compared to 5-fluorouracil (5-FU), which was used as a reference drug. Furthermore, some of the prepared compounds exhibited potent antibacterial and antifungal activities. The highly pronounced biological activities of the compounds under investigation offer such species as promising future drug prospects which may find applications in the fields of biological and medicinal sciences.     

Green synthesis,antibacterial, antiviral and molecular docking studies of α-aminophosphonates

Abstract

An efficient method for the synthesis of α-aminophosphonate derivatives has been developed with different functional groups under catalyst and solvent free conditions at room temperature in both conventional and ultrasonication methods. Ultrasonication method offers excellent yields within shorter reaction times. All the title compounds 4a–l were tested for their antibacterial, antiviral activity using Gram-positive bacteria (Staphylococcus aureus, and Bacillus subtilis), Gram-negative bacteria (Klebsiella pneumoniae and Escherichia coli) and NDV infected embryonated eggs (in ovo) and NDV infected BHK-21 cell lines (in vitro) respectively. Besides, molecular docking studies were also carried out to the title compounds against Hemagglutinin-neuramidase enzyme to determine the therapeutic binding efficacy of the ligands synthesized. The results indicated that, among the title compounds, compounds such as 4f, 4l, 4k, 4b, 4i and 4h have shown high content of antibacterial and antiviral activity than the rest of the compounds and the level activity was high when compared to the standard, ribavirin. Based on the results, it is concluded that, the reported α-aminophosphonates will open new vistas and stands as a new generation of antiviral and antibacterial drug candidates in future.     

Green Synthesis of new Trizole Based Heterocyclic Amino Acids Ligands and their Transition Metal Complexes. Characterization,Kinetics, Antimicrobial and Docking Studies

Two novel amino acids imine ligands (H₂L₁ and H₂L₂) have been synthesized using green condensation reaction from 2‐[3‐Amino‐5‐(2‐hydroxy‐phenyl)‐5‐methyl‐1,5‐dihydro‐[1, 2, 4]triazol‐4‐yl]‐3‐(1H‐indol‐3‐yl)‐propionic acid with benzaldehyde/p‐flouro benzaldehyde (1:1 molar ratio) in the presence of lemon juice as a natural acidic catalyst in aqueous medium. Their transition metal complexes have been prepared in a molar ratio (1:1). Characterization of the ligands and complexes using elemental analysis, spectroscopic studies, ¹HNMR, ¹³CNMR, and thermal analysis has been reported. E*, ΔH*, ΔS* and ΔG* thermodynamic parameters, were calculated to throw more light on the nature of changes accompanying the thermal decomposition process of these complexes. The molar conductance measurement of metal complexes showed nonelectrolyte behavior. The metal complexes of the two ligands have tetrahedral geometry with a general molecular structure [M(H₂L)X_n], where [(M = Mn (II), Co (II), Cu (II) and Zn (II), X = Cl, n = 2]; M = VO (II), X = SO₄, n = 1] for H₂L₁. [M = Co (II), Cu (II), Zn (II)] for H₂L₂. Antibacterial activity of the complexes against (Bacillis subtilis, Micrococcus luteus, Escherichia coli), also antifungal activity against (Aspergillus niger, Candida Glabarta, Saccharomyces cerevisiae) have been screened. The results showed that all complexes have antimicrobial activity higher than free ligands. Molecular docking studies results showed that, all the synthesized compounds having minimum binding energy and have good affinity toward the active pocket, thus, they may be considered as good inhibitor of targeting PDB code: 1SC7 (Human DNA Topo‐isomerase I).     

Synthesis,characterization, DNA binding,cytotoxicity and molecular docking properties of three novel butterfly-like complexes with nitrogen-containing heterocyclic ligands

Three novel complexes, namely [Nd·L₁·HCOO·(H₂O)₄] ( 1 ), [Pr·L₁·HCOO·(H₂O)₄] ( 2 ) and [In·L₂·Cl·(H₂O)₂] ( 3 ) (L₁ = 1,1-bis(5-(pyrazin-2-yl)-1,2,4-triazol-3-yl)methane, L₂ = 1,1-bis(5-(pyrazin-2-yl)-1,2,4-triazol-3-yl)ketone), were synthesized and characterized. The molecular structures of 1 – 3 were confirmed using single-crystal X-ray diffraction. All three obtained complexes are zero-dimensional and connected to each other by hydrogen bonds. In 1 and 2 the metal is surrounded by nine donors and 3 has seven coordination sites. The interaction of 1 – 3 with calf thymus DNA (CT-DNA) was explored using UV absorption spectra and fluorescence spectra. The intrinsic binding constants of 1 – 3 with CT-DNA are about 1.9 × 10⁴, 1.4 × 10⁴ and 1.1 × 10⁴, respectively. Stern–Volmer quenching plots of 1 – 3 have slopes of 0.1508, 0.134 and 0.1205, respectively. The ability of these complexes to cleave pBR322 plasmid DNA was demonstrated using gel electrophoresis assay. Apoptosis studies of the three novel complexes showed a significant inhibitory effect on HeLa cells. Furthermore, MTT assays were used to evaluate the anticancer activity of the three complexes. The cytotoxicity study indicated that complex 1 possesses a higher inhibitory rate of HeLa cells than the other complexes. Especially, the efficacy of 1 was shown to be the highest for cisplatin at 24 h. A further molecular docking technique was introduced to understand the binding of the complexes toward the target DNA.     

Synthesis,cytotoxicity, topoisomerase I inhibition and molecular docking of novel phosphoramide mustard sophoridinic acid analogues

A series of novel phosphoramide mustard sophoridinic acid analogues, consisting of nitrogen mustard group and sophoridinic acid scaffold, have been designed, synthesized and evaluated for their topoisomerase inhibitory activity as well as cytotoxicity against six tumor cell lines (SMMC‐7721, LoVo, MCF‐7, K562, S180 and H22) and a normal cell line (L929). Among the compounds tested, five were found to be potent inhibitors and exhibited potent cytotoxicity against S180 and H22 cell lines with IC₅₀ values of 1–4 μM. Further mechanistic studies showed that this class of compounds acted as novel topoisomerase I (Topo I) catalytic inhibitors by preventing the binding of Topo I to DNA and inhibiting the cleavage of DNA, and molecular docking studies revealed that the binding energy for these compounds was comparable to that for classic Topo I inhibitors CPT and HCPT, indicating that the compounds have an interaction with DNA and Topo I.     

Glutamine: fructose-6-phosphate amidotransferase (GFAT): homology modelling and designing of new inhibitors using pharmacophore and docking based hierarchical virtual screening protocol

Glutamine: fructose-6-phosphate amidotransferase (GFAT), also termed GFPT1 and GFAT1, catalyzes the first committed step of the hexosamine biosynthesis pathway in mammals and consequently plays an important role in type 2 diabetes. In the present study, a combination of pharmacophore modelling, homology modelling, and molecular docking analysis was performed to design new glutamine competitive inhibitors of human GFAT, and to investigate important interaction details of inhibitor molecules. A pharmacophore model of GFAT inhibitors was developed, subsequently validated, and utilized for the screening by the PHASE database to identify new molecules. Afterwards, homology modelling was performed to construct the glutamine-binding site of the GFAT protein. The modelled active site was utilized to dock the studied molecules to investigate important receptor-ligand interactions and to scrutinize database-screened molecules on the basis of essential interactions. This systematic in silico protocol helped us to identify new molecules that would be explored for the treatment of type 2 diabetes and its complications.     

Density functional theory/B3LYP study of nanometric 4‐(2,4‐dihydroxy‐5‐formylphen‐1‐ylazo)‐N‐(4‐methylpyrimidin‐2‐yl)benzenesulfonamide complexes: Quantitative structure–activity relationship,docking, spectral and biological investigations

New metal ion complexes were isolated after coupling with 4‐(2,4‐dihydroxy‐5‐formylphen‐1‐ylazo)‐N ‐(4‐methylpyrimidin‐2‐yl)benzenesulfonamide (H₂L) drug ligand. The structural and molecular formulae of drug derivative and its complexes were elucidated using spectral, analytical and theoretical tools. Vibrational spectral data proved that H₂L behaves as a monobasic bidentate ligand through one nitrogen from azo group and ionized hydroxyl oxygen towards all metal ions. UV–visible and magnetic moment measurements indicated that Fe(III), Cr(III), Mn(II) and Ni(II) complexes have octahedral configuration whereas Cd(II), Zn(II) and Co(II) complexes are in tetrahedral form. The Cu(II)complex has square planar geometry as verified through electron spin resonance essential parameters. X‐ray diffraction data indicated the amorphous nature of all compounds with no regular arrangement for the solid constituents during the precipitation process. Transmission electron microscopy images showed homogeneous metal ion distribution on the surface of the complexes with nanometric particles. Coats–Redfern equations were applied for calculating thermo‐kinetic parameters for suitable thermal decomposition stages. Gaussian09 and quantitative structure–activity relationship modelling studies were used to verify the structural and biological features. Docking study using microorganism protein receptors was implemented to throw light on the biological behaviour of the proposed drug. The investigated ligand and metal complexes were screened for their in vitro antimicrobial activities against fungal and bacterial strains. The resulting data indicated that the investigated compounds are highly promising bactericides and fungicides. The antitumour activities of all compounds were evaluated towards human liver carcinoma (HEPG2) cell line.     

Multispectroscopic DNA interaction and Docking studies

Two new water soluble oxovanadium(IV) complexes with formulae Na[VO(his)(met)SO₄] (1) and Na[VO(gly)(met)SO₄] (2), (gly=glycine his=histidine, and met=metformin) were synthesized and characterized by LCMS, UV‐Visible absorption, infrared spectra, magnetic moment, elemental analysis, thermal analysis and electronic spectral studies. The metal center was found in an octahedral geometry. DNA binding interaction of these complexes with CT DNA has been explored by UV‐Visible absorption, fluorescence, viscosity measurements and cleavage studies. Finally the binding of the complexes with CT‐DNA could be surface binding, mainly in the groove binding. The complexes were docked in to B‐DNA sequence, 5’(D*AP*CP*CP*GP*AP*CP*GP*TP*CP*GP*GP*T)‐3’ retrieved from protein data bank (PDB ID: 423D), using Discovery Studio 2.1 software.     

Synthesis and molecular docking of some new bis-thiadiazoles as anti-hypertensive α-blocking agents

Abstract

Twelve bis-thiadiazole derivatives were synthesized in high yield via the reaction of 2,2′-terephthaloyl bis(N-phenylhydrazine carbothioamide) with a variety of hydrazonoyl chlorides in ethanol containing catalytic amounts of TEA. All the newly synthesized compounds were characterized by physical and chemical tools (FT-IR, ¹H NMR, ¹³C NMR, and Mass spectrometry). Moreover, all the novel synthesized derivatives were screened for their antihypertensive α-blocking efficacy against to assess their pharmaceutical significance. The encouraging promising results obtained from antihypertensive α-blocking activity studies on the newly synthesized derivatives make the synthesis of a new series of these compounds and studying of their pharmaceutical importance an active area for more and more investigations. The molecular docking of the most active derivative 15?b against the human dopamine D3 receptor was performed by the Molecular Operating Environment (MOE 2014. 0901) program.     

The statistical significance of selected sense–antisense peptide interactions

Sense and antisense peptides, encoded by sense and corresponding antisense DNA strands, are capable of specific interactions that could be a driving force to mediate protein–protein or protein–peptide binding associations. The complementary residue hypothesis suggests that these interactions are founded upon the sum of pairwise interactions between amino acids encoded by corresponding sense and antisense codons. Despite many successful experimental results obtained with the hypothesis, however, the physicochemical basis for these interactions is poorly understood. We examined the potential of the hypothesis for general identification of protein–protein interaction sites, and the possible role of the hypothesis in determining folding in a broad set of protein structures. In addition, we performed a structural study to investigate the binding of a complementary peptide to IL‐1F2. Our results suggest that complementary residue pairs are no more frequent or conserved than average in protein–protein interfaces, and are statistically under‐represented amongst contacting residue pairs in folded protein structures. Although our structural results matched experimental observations of binding between the peptide and IL‐1F2, complementary residue interactions do not appear to be dominant in the bound structure. Overall, our data do not allow us to conclude that the complementary residue hypothesis accounts for specific sense–antisense peptide interactions. © 2012 Wiley Periodicals, Inc.