Identification of phytocompounds from Houttuynia cordata Thunb. as potential inhibitors for SARS-CoV-2 replication proteins through GC–MS/LC–MS characterization,molecular docking and molecular dynamics simulation

The COVID-19 pandemic caused by Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) is a massive viral disease outbreak of international concerns. The present study is mainly intended to identify the bioactive phytocompounds from traditional antiviral herb Houttuynia cordata Thunb. as potential inhibitors for three main replication proteins of SARS-CoV-2, namely Main protease (Mpro), Papain-Like protease (PLpro) and ADP ribose phosphatase (ADRP) which control the replication process. A total of 177 phytocompounds were characterized from H. cordata using GC–MS/LC–MS and they were docked against three SARS-CoV-2 proteins (receptors), namely Mpro, PLpro and ADRP using Epic, LigPrep and Glide module of Schrödinger suite 2020-3. During docking studies, phytocompounds (ligand) 6-Hydroxyondansetron (A104) have demonstrated strong binding affinity toward receptors Mpro (PDB ID 6LU7) and PLpro (PDB ID 7JRN) with G-score of???7.274 and???5.672, respectively, while Quercitrin (A166) also showed strong binding affinity toward ADRP (PDB ID 6W02) with G-score -6.788. Molecular Dynamics Simulation (MDS) performed using Desmond module of Schrödinger suite 2020–3 has demonstrated better stability in the ligand–receptor complexes A104-6LU7 and A166-6W02 within 100 ns than the A104-7JRN complex. The ADME-Tox study performed using SwissADMEserver for pharmacokinetics of the selected phytocompounds 6-Hydroxyondansetron (A104) and Quercitrin (A166) demonstrated that 6-Hydroxyondansetron passes all the required drug discovery rules which can potentially inhibit Mpro and PLpro of SARS-CoV-2 without causing toxicity while Quercitrin demonstrated less drug-like properties but also demonstrated as potential inhibitor for ADRP. Present findings confer opportunities for 6-Hydroxyondansetron and Quercitrin to be developed as new therapeutic drug against COVID-19.

Graphic abstract

     

Unusual monodentate binding mode of 2,2'-dipyridylamine (L) in isomeric trans-(acac)2RuII(L)2, trans-[(acac)2RuIII(L)2]ClO4, and cis-(acac)2RuII(L)2 (acac = acetylacetonate). synthesis, structures, and spectroscopic, electrochemical, and magnetic aspects

The reaction of cis-Ru(acac)2(CH3CN)2 (acac = acetylacetonate) with 2,2'-dipyridylamine (L) in ethanolic medium resulted in facile one-pot synthesis of stable [(acac)2RuIII(L)]ClO4 ([1]ClO4), trans-[(acac)2RuII(L)2] (2), trans-[(acac)2RuIII)L)2]ClO4 ([2]ClO4), and cis-[(acac)2RuII(L)2] (3). The bivalent congener 1 was generated via electrochemical reduction of [1]ClO4. Although in [1]+ the dipyridylamine ligand (L) is bonded to the metal ion in usual bidentate fashion, in 2/[2]+ and 3, the unusual monodentate binding mode of L has been preferentially stabilized. Moreover, in 2/[2]+ and 3, two such monodentate L's have been oriented in the trans- and cis-configurations, respectively. The binding mode of L and the isomeric geometries of the complexes were established by their single-crystal X-ray structures. The redox stability of the Ru(II) state follows the order 1 < 2 < 3. In contrast to the magnetic moment obtained for [1]ClO4, mu = 1.84 muB at 298 K, typical for low-spin Ru(III) species, the compound [2]ClO4 exhibited an anomalous magnetic moment of 2.71 muB at 300 K in the solid state. The variable-temperature magnetic measurements showed a pronounced decrease of the magnetic moment with the temperature, and that dropped to 1.59 muB at 3 K. The experimental data can be fitted satisfactorily using eq 2 that considered nonquenched spin-orbit coupling and Weiss constant in addition to the temperature-independent paramagnetism. [1]ClO4 and [2]ClO4 displayed rhombic and axial EPR spectra, respectively, in both the solid and the solution states at 77 K.     

Synthesis and characterization of cobalt(II), nickel(II), copper(II), palladium(II) and dioxouranium(VI) complexes of the antipyrine Schiff base of 3-formylsalicylic acid

A new Schiff base has been synthesized from 4-aminoantipyrine and 3-formylsalicylic acid. The ligand has a dianionic tetradentate compartmental OONO donor system. The cobalt(II), nickel(II), copper(II) and dioxouranium(VI) complexes exist in phenolato-bridged dinuclear species, while palladium(II) gives a mononuclear complex with free –COOH groups. The complexes have been characterized by elemental analyses, i.r., u.v.-vis, thermal and magnetic measurements.     

Kinetic studies of nonaqueous polymerization of methyl methacrylate initiated by ferric laurate–n-hexyl amine system

The polymerization of methyl methacrylate was studied in carbon tetrachloride medium with ferric laurate, a metal soap, in combination with n-hexyl amine as the initiator system at 60°C. The rate of polymerization was found to be linear with the monomer concentration and proportional to the square root of both ferric ion and amine concentration. A reaction scheme involving initial complex formation between ferric ion and amine and subsequent reaction of the complex with the solvent molecule to produce free radicals responsible for initiation of polymerization has been postulated to account for the observed results.     

The reactivity of the cis-RuCl2 fragment in Ru(P)2(TaiMe)Cl2 with N,O; O,O and S,S-chelators (P = PPh3; TaiMe = 1-methyl-2-(p-tolylazo)imidazole)

Ru(P)₂(TaiMe)Cl₂ [P = PPh₃; TaiMe = 1-methyl-2-(p-tolylazo)imidazole] possesses a cis-RuCl₂ configuration. Dechlorination was carried out in acetone solution by Ag⁺ and the solvated species reacted with N,O-[oxinate (ox), -picolinate (pic)], O,O-[salicylate (sa), 3-formylsalicylate (3-fsa), 5-formylsalicylate (5-fsa)] and S,S-[xanthate (xan), dithiocarbamate (dtc)] chelators to yield [Ru(P)₂(TaiMe)(N,O/O,O/S,S)] (ClO₄) _n (n = 1 for N,O- and S,S-chelators; n = 0 for O,O-chelators). The complexes were characterised by microanalysis, molar conductance, i.r., u.v.–vis. and ¹H-n.m.r. data. Isomeric structures in some complexes were identified by ¹H-n.m.r. spectra. The electronic spectra show a high intensity ( 10⁴) m.l.c.t. transition in the visible region together with a weak shoulder ( 10³) at longer wavelength. Redox studies exhibit a Ru^III/Ru^II couple and quasireversible azo reduction.     

Novel fluorescent probe as aggregation predictor and micro-polarity reporter for micelles and mixed micelles

Aggregational behaviour of micelles sodium dodecyl sulphate (SDS and Triton X-100, TX-100 both in pure and mixed form) and micelle like aggregates such as polymer-surfactant system [polymer poly(vinyl pyrrolidone), PVP]-SDS have been studied by using fluorescence characteristics of a newly synthesized probe. The critical micelle concentration (CMC) values determined at various surfactant compositions are lower than the ideal values indicating a synergistic effect. The value of the interaction parameter for the surfactant mixture has been determined which agrees well with the value calculated according to molecular thermodynamic theory. The total aggregation number of surfactant in mixed micelle shows a drastic variation in the SDS mole fraction range 0 < or = alpha1 < or = 0.3 and beyond the range it remains practically constant. Molar-based partition coefficients for the dye between the micellar and aqueous phase have been determined and a non-linear variation is obtained for the mixed micellar system. Variations of micro-polarity in the mixed micellar region have been investigated as a function of surfactant composition and results have been explained in terms of a suitable realistic model.     

Degradation of rocket insulator at high temperature

The degradation of a rocket insulator compound based on ethylene propylene diene rubber (EPDM) containing asbestor, cork and iron oxide (Fe₂O₃) as fillers has been studied at high temperature (up to 600°) by using differential thermal analysis (DTA) and thermogravimetry (TG). The changes in physical properties on high-temperature aging are also reported. EPDM gum vulcanizates involving different types of diene, namely ethylidene norbornene (ENB), dicyclopentadiene (DCPD) and 1,4-hexadiene (HD), were used. In each case, the kinetic parameters for degradation have been evaluated. From these data, the lifetime of the rocket insulator compound has been found.

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Zusammenfassung Die Zersetzung einer Raketenisolator-Verbindung auf Äthylen-Propylen-Dien-Gummibasis (EPDM) mit Asbest, Kork und Eisenoxid (Fe₂O₃) als Füllstoffe wurden bei hohen Temperaturen (bis 600°) mittels Differentialthermalanalyse (DTA) und Thermogravimetrie (TG) untersucht. Die bei Hochtemperaturen eintretenden Veränderungen der physikalischen Eigenschaften sind ebenfalls angegeben. Verschiedene Typen von Dienen, nämlich Äthyliden-norbornen (ENB), Dicyclopentadien (DCPD) und 1,4-Hexadien (HD) enthaltenden EPDM-Gummivulkanisate waren Gegenstand der Untersuchung. In allen Fällen wurden die kinetischen Parameter der Zersetzung ermittelt. Aus diesen Daten wurde die Lebensdauer der Raketenisolator-Verbindung bestimmt.

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The authors are grateful to the Indian Space Research Organization for funding, and acknowledge the help and suggestions from Mr. T. S. Ram and Mr. Baby John, R.P.P., V.S.S.C., Trivandrum. The authors are also grateful to Prof. S. K. De, Rubber Technology Centre, and Prof. R. Ghosh, Chemistry Department, I.I.T., Kharagpur.

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The authors thank Mr. Asutosh Ghosh, Indian Association for the Cultivation of Science, for experimental assistance.     

Complex series [Ru(tpy)(dpk)(X)]n+ (tpy = 2,2':6',2''-terpyridine; dpk = 2,2'-dipyridyl ketone; X = Cl-, CH3CN, NO2(-), NO+, NO*, NO-): substitution and electron transfer, structure, and spectroscopy

The complex framework [Ru(tpy)(dpk)]2+ has been used to study the generation and reactivity of the nitrosyl complex [Ru(tpy)(dpk)(NO)]3+ ([4]3+). Stepwise conversion of the chloro complex [Ru(tpy)(dpk)(Cl)]+ ([1]+) via [Ru(tpy)(dpk)(CH3CN)]2+ ([2]2+) and the nitro compound [Ru(tpy)(dpk)(NO2)]+ ([3]+) yielded [4]3+; all four complexes were structurally characterized as perchlorates. Electrochemical oxidation and reduction was investigated as a function of the monodentate ligand as was the IR and UV-vis spectroscopic response (absorption/emission). The kinetics of the conversion [4]3+/[3]+ in aqueous environment were also studied. Two-step reduction of [4]3+ was monitored via EPR, UV-vis, and IR (nu(NO), nu(CO)) spectroelectrochemistry to confirm the {RuNO}7 configuration of [4]2+ and to exhibit a relatively intense band at 505 nm for [4]+, attributed to a ligand-to-ligand transition originating from bound NO-.     

Peptide‐poly(ε‐caprolactone) biohybrids by grafting‐from ring‐opening polymerization: Synthesis,aggregation, and crystalline properties

Well‐defined peptide‐poly(ε‐caprolactone) (Pep‐PCL) biohybrids were successfully synthesized by grafting‐from ring‐opening polymerization (ROP) of ε‐caprolactone (CL) using designed amine‐terminated sequence‐defined peptides as macroinitiators. MALDI‐TOF‐MS and ¹H NMR analyses confirmed the successful attachment of peptide to the PCL chain. The gel permeation chromatography (GPC) measurement showed that the Pep‐PCL biohybrids with controllable molecular weights and low polydispersities (PDI <1.5) were obtained by this approach. The aggregation of Pep‐PCL hybrid molecules in THF solution resulted in the formation of micro/nanospheres as confirmed through FESEM, TEM, and DLS analyses. The circular dichroism study revealed that the secondary structure of peptide moiety was changed in the peptide‐PCL biohybrids. The crystallization and melting behavior of Pep‐PCL hybrids were somewhat changed compared with that of neat PCL of comparable molecular weight as revealed by DSC and XRD measurements. In Pep‐PCL biohybrids, extinction rings were observed in the PCL spherulites, in contrast with the normal spherulite morphology of the neat PCL. There was a substantial decrease (4–5 folds) in the spherulitic growth rate after the incorporation of peptide moiety at the end of PCL chain as measured by polarizing optical microscopy. Pseudomonas lipase catalyzed enzymatic degradation was studied for Pep‐PCL hybrids and neat PCL. © 2012 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem, 2012     

A facile synthesis of steroidal D-ring fused pyrazolo[1,5-a]pyrimidines

A facile method for the synthesis of steroidal D-ring fused pyrazolo[1,5-a]pyrimidines through a microwave mediated reaction between steroidal β-bromovinyl aldehydes and pyrazoloamines using palladium(II) catalyst has been described.