DFT investigations of linear Zn3-type complex with compartmental N/O-donor Schiff base: Synthesis, characterizations, crystal structure, fluorescence and molecular docking

Biological and computational investigation of transition metal(II) complexes of 2-phenoxyaniline-based ligands

Aim: In the 21st century, we are witness of continuous onslaughts of various pathogen deformities which are a major cause of morbidity and mortality worldwide. Therefore, to investigate the grave for these deformities, antioxidant, anti-inflammatory and antimicrobial biological activities were carried out against newly synthesized Schiff base ligands and their transition metal complexes, which are based on newly synthesized 2-phenoxyaniline and salicylaldehyde derivatives. Materials & methods: The synthesized compounds were characterized by various physiochemical studies, demonstrating the octahedral stereochemistry of the complexes. Results: The biological assessments revealed that complex 6 (3.01 ± 0.01 μM) was found to be highly active for oxidant ailments whereas complex 14 (7.14 ± 0.05 μM, 0.0041-0.0082 μmol/ml) was observed as highly potent for inflammation and microbial diseases. Conclusion: Overall, the biological and computational studies demonstrate that the nickel(II) complex 14 can act as an excellent candidate for pathogen deformities.

Revealing the incorporation of an NH2 group into the edge of carbon dots for H2O2 sensing via the C-N⋯H hydrogen bond interaction

We investigated hydrogen peroxide (H₂O₂) sensing on NH₂-functionalized carbon dots (Cdots) for three different -NH₂ positions, and the N atom was found to be the active site using a quantum computational approach. B3LYP and 6-31G(d,p) were used for density functional theory (DFT) ground state calculations, whereas CAM-B3LYP and the same basis set were used in time-dependent density functional theory (TD-DFT) excited state calculations. Structural optimization showed that the H₂O₂ is chemisorbed on 1-sim via a C-N⋯H hydrogen bond interaction with an adsorption energy of -10.61 kcal mol^-1. Mulliken atomic charge distributions and electrostatic potential (ESP) analysis were both used to determine reactivity of the molecules at the atomic level. For in-depth analysis of the ground states, we utilized Frontier molecular orbital (FMO) theory, quantum theory of atoms in molecules (QTAIM), and non-covalent interaction (NCI) index analysis. In addition, we also present UV-vis absorption spectra and charge transfer lengths to understand the mechanism of H₂O₂ sensing in excited states. Based on the molecular and electronic properties of the NH₂-Cdots, it was shown that 1-sim is a potential candidate for use as an electrochemical sensor for H₂O₂ sensing. Whereas 3-sim is believed to be a potential candidate for use as an optical sensor of H₂O₂ based on the UV-vis characteristics via photoinduced charge transfer.

Highly regenerative, fast colorimetric response for organo-toxin and oxo-anions in an aqueous medium using a discrete luminescent Cd(II) complex in a heterogeneous manner with theoretical revelation

The highly luminescent complex [CdQ₂(H₂O)₂] (1) shows ultra-selectivity and high sensitivity to the explosive organo-toxin trinitrophenol (TNP). This detection is extremely fast with a high quenching constant (5.3 × 10⁴ M^-1) and a very low limit of detection (LOD) of 137 nM/59 ppb. This motivated us to detect the lethal carcinogenic arsenical drug roxarsone (ROX), which is reported here for the first time. The quenching constant and LOD for ROX using 1 were found to be 4.9 × 10⁴ M^-1 and 86 nM (or 37 ppb), respectively. Moreover, the probe also recognizes three lethal toxic oxo-anions (MnO₄^-, Cr₂O₇^2- and CrO₄^2-) with outstanding quenching constant (2.2 × 10⁴ M^-1, 1.4 × 10⁴ M^-1 and 1.1 × 10⁴ M^-1) and very low LODs (141 nM/61 ppb, 178 nM/78 ppb and 219 nM/95 ppb). Compared to the previously reported homogeneous sensing nature of the discrete complexes, our complex showed the detection of toxic pollutants in a heterogeneous manner, which results in high recyclability and hence multi-cycle sensing capability. Interestingly, 1 shows the possibility for real-time monitoring through naked eye detection by visible colorimetric changes in solid, solution and strip paper methods, i.e., triphasic detection ability. In addition, the sensor also exhibited the cross-sensing ability for these pollutants. The experimental sensing mechanism is strongly supported by the exhaustive theoretical investigation. Based on the fluorescence signal shown by each analyte, an integrated AND-OR logic gate is constructed. Furthermore, the sensing ability of 1 remains intact towards the detection of versatile real field samples including lethal carcinogenic arsenical drug roxarsone in the real food sample.

Marine algal antagonists targeting 3CL protease and spike glycoprotein of SARS-CoV-2: a computational approach for anti-COVID-19 drug discovery

The COVID-19 pandemic has severely destructed human life worldwide, with no suitable treatment until now. SARS-CoV-2 virus is unprecedented, resistance against number of therapeutics and spreading rapidly with high mortality, which warrants the need to discover new effective drugs to combat this situation. This current study is undertaken to explore the antiviral potential of marine algal compounds to inhibit the viral entry and its multiplication using computational analysis. Among the proven drug discovery targets of SARS-CoV-2, spike glycoprotein and 3-chymotrypsin-like protease are responsible for the virus attachment and viral genome replication in the host cell. In this study, the above-mentioned drug targets were docked with marine algal compounds (sulfated polysaccharides, polysaccharide derivatives and polyphenols) using molecular docking tools (AutoDockTools). The obtained results indicate that κ-carrageenan, laminarin, eckol, trifucol and β-D-galactose are the top-ranking compounds showing better docking scores with SARS-CoV-2 targets, than the current experimental COVID-19 antiviral drugs like dexamethasone, remdesivir, favipiravir and MIV-150. Further, molecular dynamic simulation, ADMET and density functional theory calculations were evaluated to substantiate the findings. To the best of our knowledge, this is the first report on in silico analysis of aforesaid algal metabolites against SARS-CoV-2 targets. This study concludes that these metabolites can be curative for COVID-19 in the hour of need after further validations in in vitro and in vivo testings.Communicated by Ramaswamy H. Sarma.

Synthesis, anti-bacterial evaluation, DFT study and molecular docking as a potential 3-chymotrypsin-like protease (3CLpro) of SARS-CoV-2 inhibitors of a novel Schiff bases

New Schiff bases {N'-(phenyl(pyridin-2-yl)methylene) isonicotinohydrazide (L¹H), N¹ -(naphthalen-1-yl)-N² -(phenyl(pyridin-2-yl) methylidene) ethane-1,2-diamine (L²H), N-(6-chlorobenzo[d]thiazol-2-yl)-1-phenyl-1-(pyridin-2-yl) methanimine (L³H)}were synthesized by reaction of 2-benzoylpyridine with different amines (2-amino-6-chlorobenzothiazole, isonicotinohydrazide and N ¹-(naphthalen-1-yl)ethane-1,2-diamine) and characterized by ¹H-NMR, ¹³C-NMR, IR mass spectroscopy and elemental analysis. The compounds were assayed by the disc diffusion method for anti-bacterial against five pathogenic bacteria species (Staphylococcus aureus, Micrococcus luteus, Staphylococcus pyogenes, Bacillus subtilis, and E. coli). All prepared Schiff bases showed good activity compared to positive control (streptomycin), Moreover the L³H showed the highest activity against S. aureus, and M. luteus than the other compounds and streptomycin. In additional molecular docking studies with 3-chymotrypsin-like protease (3CLpro), the essential enzyme for SARS-CoV-2 proliferation. The rest of compounds have shown promising results as 3CLpro inhibitors interacting with the active sites of the enzymes. Finally, DFT 's estimated electrostatic molecular potential results were used to illustrate the molecular docking findings. The DFT calculations showed that L³H has the highest dipole moment and electrophilicity index. Interestingly, L²H of the largest energy gap ∆E = 2.49 eV, there are several hydrophilic interactions that could facilitate the binding with the receptors. All of these parameters could be shared to significantly affect the protein sites of binding affinity with different extent.

Investigation of Some Antiviral N-Heterocycles as COVID 19 Drug: Molecular Docking and DFT Calculations

The novel coronavirus, COVID-19, caused by SARS-CoV-2, is a global health pandemic that started in December 2019. The effective drug target among coronaviruses is the main protease M^pro, because of its essential role in processing the polyproteins that are translated from the viral RNA. In this study, the bioactivity of some selected heterocyclic drugs named Favipiravir (1), Amodiaquine (2), 2'-Fluoro-2'-deoxycytidine (3), and Ribavirin (4) was evaluated as inhibitors and nucleotide analogues for COVID-19 using computational modeling strategies. The density functional theory (DFT) calculations were performed to estimate the thermal parameters, dipole moment, polarizability, and molecular electrostatic potential of the present drugs; additionally, Mulliken atomic charges of the drugs as well as the chemical reactivity descriptors were investigated. The nominated drugs were docked on SARS-CoV-2 main protease (PDB: 6LU7) to evaluate the binding affinity of these drugs. Besides, the computations data of DFT the docking simulation studies was predicted that the Amodiaquine (2) has the least binding energy (-7.77 Kcal/mol) and might serve as a good inhibitor to SARS-CoV-2 comparable with the approved medicines, hydroxychloroquine, and remdesivir which have binding affinity -6.06 and -4.96 Kcal/mol, respectively. The high binding affinity of 2 was attributed to the presence of three hydrogen bonds along with different hydrophobic interactions between the drug and the critical amino acids residues of the receptor. Finally, the estimated molecular electrostatic potential results by DFT were used to illustrate the molecular docking findings. The DFT calculations showed that drug 2 has the highest of lying HOMO, electrophilicity index, basicity, and dipole moment. All these parameters could share with different extent to significantly affect the binding affinity of these drugs with the active protein sites.