Absorption, Distribution, Metabolism, Excretion And Toxicity Research Articles

Synthesis of 1,4 Naphthoquinone Derivatives and Their In-silico Evaluations

In this study, we explored the arylation of 1,4-naphthoquinone with the help of Palladium acetate (Pd oAC). The synthesized compounds was characterized by using Proton NMR,and HR-Mass spectrometry and were subjected to molecular at this strategic position to evaluate its biological efficacy against anti-inflammation the parasitic target of the protein receptor 1W3R.The docking studies using the 1W3R protein structure to assess their binding affinities and interactions, comparing them to the clinically used drug, metronidazole. Results from the docking studies showed that the arylated 1,4-naphthoquinone derivatives exhibited stronger binding interactions at the active site of 1W3R than metronidazole, suggesting enhanced inhibition potential. Additionally, ADMET (absorption, distribution, metabolism, excretion, and toxicity) profiles were evaluated to assess the pharmacokinetics and safety of the compounds. The arylated derivatives displayed favorable ADMET properties, including good oral bioavailability and low toxicity, which further supports their potential as therapeutic agents. These findings suggest that second-position arylated 1,4-naphthoquinones may serve as promising leads for potential advantages over metronidazole. Further experimental validation and optimization of these compounds are recommended to fully harness their therapeutic potential.This research highlights the importance of scaffold functionalization in drug discovery and the potential of 1,4-naphthoquinone derivatives in developing new targeted Anti-inflammation therapies.

Curcuma Longa Phytocompounds: An in Silico Analysis Aimed at Targeting the EGFR Protein as a Potential Anti-cancer Agent

>Background: Curcumin, a well-known phytocompound in turmeric, has demonstrated anti-cancer properties. However, its therapeutic efficacy is often limited. Additionally, Epidermal Growth Factor Receptor (EGFR) is frequently overexpressed in various cancers, making it a promising target for novel drug development. This study aims to utilise in silico analysis to identify potential anti-cancer agents within the phytocompounds of Curcuma longa (turmeric) that target the EGFR protein. The objective of this research is to investigate the binding interactions between curcumin and other Curcuma longa phytocompounds with the EGFR protein through computational modelling. Methods: Curcumin and paclitaxel (standard drug) were chosen as ligands and retrieved from PubChem. The researchers obtained the 3D structure of the EGFR protein from the Protein Data Bank (PDB) and prepared it for docking simulations. To assess curcumin’s drug-likeness and potential safety profile, online tools were utilised: SWISSADME analysed its ADMET (absorption, distribution, metabolism, excretion, and toxicity) properties, and ProTox-II evaluated its predicted toxicity. Finally, molecular docking simulations using Pyrx software were performed to predict how curcumin interacts with the EGFR protein. This computational approach helps predict how well a small molecule (ligand) like curcumin binds to a larger molecule (protein) like the EGFR receptor. Results: In silico analysis predicted favourable drug-like properties and a potentially safer profile for curcumin compared to paclitaxel. Curcumin exhibited high gastrointestinal absorption, adhered to Lipinski’s rule, and lacked predicted hepatotoxicity or carcinogenicity. The molecular docking binding energy for curcumin was –5.64 as compared to –3.85 for paclitaxel. Conclusion: This in silico investigation identified the potential for curcumin to target the EGFR protein, a promising strategy for cancer treatment. Curcumin displayed favourable drug-like properties and a potentially safer profile compared to the reference drug paclitaxel. However, in-vitro and in-vivo experiments are crucial to validate these findings and assess curcumin’s efficacy as a potential anti-cancer agent.

Exploring potential therapeutic candidates against COVID-19: a molecular docking study

The COVID-19 pandemic, caused by SARS-CoV-2, has made it urgently necessary to develop effective therapeutic options, and in recent years, computational biological tool assisted to achieve this goal. We conducted MD simulations using six SARS-CoV-2 proteins and 31 ligands to identify possible inhibitors as well as evaluate the binding efficiency of them. Post simulation study showed that 6VSB-Dactinomycin complex reveals the most stable binding, protein flexibility, and robust structural integrity, making it a promising model for therapeutic studies. Our study assessed the therapeutic potential of antiviral candidates against covid-19 virus using computational and experimental method, including the flexibility and stability of twelve docked protein–ligand complexes using normal mode analysis (NMA) and molecular dynamics (MD) simulations. After MD simulation, Dactinomycin and Ivermectin showed significant deformability and high binding affinities for Spike protein and RNA-dependent RNA polymerase, respectively. Remarkably, Dactinomycin showed greater binding to the Helicase protein, but Hesperidin and Epigallocatechin gallate (EGCG) exhibited encouraging interactions with the Nucleocapsid protein and Main protease. Analysis of docking experiments and ADMET (Absorption, Distribution, Metabolism, Excretion, and Toxicity) showed the toxicity profiles and binding affinity of various drugs with key viral proteins. Toxicity of major drugs exhibited low to moderate although Dactinomycin, Ivermectin and vitamin-D exhibited higher degree of toxicity. Carcinogenicity observed in Quercetin, Baricitinib, Luteolin, Berberine, and Favipiravir while hepatotoxicity was not found in most case. Although EGCG and Hesperidin exhibit potential, more studies are required to evaluate effectiveness against approved drugs such as Remdesivir. This integrated approach shows that an integration of computational predictions with experimental data can help to support the development of antiviral drugs by adding novel perspectives in the safety profiles and efficiency of potential drugs.

Physicochemical properties, GC–MS profiling, and antibacterial potential of Allium sativum essential oil: In vitro and in silico approaches

Antibiotic resistance remains a critical challenge for public health. In this study, we investigate the antibacterial potential of Moroccan Allium sativum L. essential oil (EO) through both in vitro and in silico approaches. The EO was extracted using hydrodistillation, and its physicochemical properties were analyzed alongside its chemical composition via gas chromatography-mass spectrometry (GC/MS). We assessed antibacterial efficacy through disk diffusion assays targeting Escherichia coli (E. coli), methicillin-resistant Staphylococcus aureus (MRSA), and Pseudomonas aeruginosa (P. aeruginosa), and determined the minimum inhibitory concentration (MIC) and minimum bactericidal concentration (MBC) values. Finally, an in silico molecular docking analysis and ADMET (absorption, distribution, metabolism, excretion, and toxicity) prediction were performed. Our analysis identified 13 sulfur-based compounds within the EO, with diallyl disulfide (42.85 %), methylallyl disulfide (18.84 %), methylallyl trisulfide (15.38 %), and diallyl trisulfide (13.11 %) as major constituents. The EO demonstrated robust activity against MRSA, with an inhibition zone of 22 mm and an MIC of 0.75 mg/mL, whereas E. coli exhibited lower sensitivity, with an MIC of 1.51 mg/mL. Molecular docking analysis suggested that the primary sulfur compounds may effectively inhibit bacterial resistance-related enzymes. These findings highlight the potential of Allium sativum L. EO as a natural antibacterial agent, attributed largely to its sulfur compound content. This activity is likely linked with the EO's interaction with the complex structures of bacterial cell membranes, offering promise in combating resistant bacterial strains.

Investigating the Antiproliferative Activity of Novel 4-Chloro-8-Nitro-1,2-Dihydro-3-Quinoline Acylhydrazones on Human Cervical Cancer Cell Lines.

A new series of acyl hydrazones have been synthesized from 4-chloro-8-nitro-1,2-dihydroquinoline-3-carbaldehyde. These compounds were characterized using various spectroscopic techniques. Density functional theoretical (DFT) studies were conducted to understand the correlation between electronic parameters and biological activity. The biological activity of the compounds was theoretically examined through molecular docking and ADMET (Absorption, Distribution, Metabolism, Excretion, and Toxicity) analysis. The compounds demonstrated high absorption rates and were found to be non-hepatotoxic. Preliminary cytotoxicity screenings against HeLa cell lines identified compound 7 as the most potent, with an IC50 value of 18.8 μM. This compound was further selected for bioimaging studies. The results indicate that compound 7 induces apoptosis at its IC50 concentration, suggesting its potential as an anticancer agent.

MolE: a foundation model for molecular graphs using disentangled attention

Models that accurately predict properties based on chemical structure are valuable tools in the chemical sciences. However, for many properties, public and private training sets are typically small, making it difficult for models to generalize well outside of the training data. Recently, this lack of generalization has been mitigated by using self-supervised pretraining on large unlabeled datasets, followed by finetuning on smaller, labeled datasets. Inspired by these advances, we report MolE, a Transformer architecture adapted for molecular graphs together with a two-step pretraining strategy. The first step of pretraining is a self-supervised approach focused on learning chemical structures trained on ~842 million molecular graphs, and the second step is a massive multi-task approach to learn biological information. We show that finetuning models that were pretrained in this way perform better than the best published results on 10 of the 22 ADMET (absorption, distribution, metabolism, excretion and toxicity) tasks included in the Therapeutic Data Commons leaderboard (c. September 2023).

One-pot synthesis of tricyclic pyrano[3.2-c]chromene derivatives and their evaluation through in vitro immunomodulatory activity against T cells; Molecular docking investigations and ADME-Tox prediction studies

The aim of this work is the in vitro determination of the immunomodulation effect of pyrano[3,2-c]chromenes on the proliferation of T lymphocyts. These tricyclic heterocycles were prepared at room temperature via a one-pot, three-component condensation reaction involving 4‑hydroxy-2H-chromen-2-one, aromatic aldehydes, and malononitrile, using morpholine as a catalyst in a 1:1 ethanol/water mixture. This multicomponent reaction affords the product in high yields, in accordance with the criteria of green chemistry. The structure elucidation was accomplished by spectral data, IR, NMR (1H, 13C, 2D). We determined the in vitro effects of 2-amino-4-(3‑hydroxy-5-methoxyphenyl)-5-oxo-4H,5H-pyrano[3,2-c]chromene-3-carbonitrile (AC09) the 2-amino-5-oxo-4-(thiophen-2-yl)-4H,5H-pyrano[3,2-c]chromene-3-carbonitrile (AC11) derivatives, on the proliferative responses of human T lymphocyts cells, cytokine secretion and intracellular redox status. The study revealed that compounds AC09 and AC11 are efficient immunostimulants in a dose-dependent manner.Human lymphocytes were less sensitive to AC11 at high concentrations compared to the potency of AC09. Human lymphocyte IL-2, IFNγ and IL-4 secretions were significantly enhanced by those pyrano[3,2-c]chromenes derivatives in a dose-dependent manner. The levels of intracellular lymphocytes glutathione (GSH), were unaffected by AC09 and AC11 at any concentrations. AC09 and AC11 induce a significant increase in hydroperoxide and carbonyl protein contents at high concentrations. Conversely, a computational study using molecular modelling revealed that compounds AC09 and AC11 exhibit a strong affinity for the active site residues of Interferon-γ (IFN-γ; PDB ID: 6E3K) target. This is confirmed by the low score energy value and the formation of different types of interactions such as: hydrogen bonds, hydrophobic interactions, and van der Waals forces. Moreover, all Drug likeness's rules were validated, and no toxicity is presented by these compounds. Finally, in vitro studies, molecular docking techniques and ADME-T (Absorption, Distribution, Metabolism, Excretion and Toxicity) evaluations were successfully conducted, aiding in the identification of new IFN-γ target inhibitors. A comparative analysis /or studies was then carried out to highlight the complementary effects of the two approaches.

A new chalcone derivative: Synthesis, crystal structure, Hirshfeld surface, quantum chemical investigations, Druggability and human Cathepsin D inhibitory activity

This paper presents the synthesis of a novel chalcone derivative, and its molecular structure has been determined by NMR and single-crystal X-ray diffraction analysis. The molecules are connected via OH⋅⋅⋅O, CH⋅⋅⋅O, and CH⋅⋅⋅S hydrogen bonds along with CH⋅⋅⋅π and π⋅⋅⋅π interactions. Hirshfeld surface studies have been conducted to comprehensively quantify the patterns of intermolecular interactions. DFT calculations provided insights into the nature of the molecule, including frontier molecular orbital, ADCH charge, Molecular Electrostatic Potential and Natural Bond Orbitals analysis using the optimized structure by B3LYP/6–311 G (d, p) level. The calculated HOMO-LUMO gap (3.23 eV) indicates decent softness and reactivity of the target molecule. The molecular docking studies reveal that the target compound exhibits a high binding affinity with Human Cathepsin D (CatD), with a docking score of -7.58 kcal/mol. The assessment of drug-likeness properties and ADMET (absorption, distribution, metabolism, excretion, and toxicity) profiles further support its potential as a potent CatD inhibitor candidate for medication development.

Design, synthesis, characterization, and theoretical calculations, along with in silico and in vitro antimicrobial proprieties of new isoxazole-amide conjugates

Abstract Functionalized isoxazoles provide valuable structural motifs, opening up a wide range of uses in the medicinal, pharmacological, and pharmaceutical fields. Within this scope, an efficient approach has been adopted to synthesize a novel series of functionalized isoxazole derivatives, starting from aza-aurone, providing reproducible access to the desired isoxazoles in excellent yields. All synthesized compounds were structurally elucidated through the use of various spectroscopic techniques and mass spectrometry. The derivatives generated were screened for their antimicrobial potential against the fungus Candida albicans as well as three bacterial strains. The results show that almost all of the tested isoxazole derivatives were found to be significantly potent against the fungus C. albicans. The functionalized isoxazoles were also computed using the Gaussian software package with the 6-31++G(d,p) basis set at B3LYP, HF, and M062X levels, and their chemical activities were compared. Moreover, the molecular docking studies of tested isoxazole compounds were performed against the C. albicans receptor. The results suggest that the newly synthesized compounds exhibit docking scores ranging from −10.29 to −15.08 kcal/mol, revealing a high affinity for the target enzyme (5V5Z). Lastly, drug similarity studies and ADMET (absorption, distribution, metabolism, excretion, and toxicity) properties assessments indicate that isoxazole derivatives have favorable absorption, distribution, and metabolism properties associated with a proven lack of toxicity.

Combined machine learning models, docking analysis, ADMET studies and molecular dynamics simulations for the design of novel FAK inhibitors against glioblastoma

Gliomas, particularly glioblastoma (GBM), are highly aggressive brain tumors with poor prognosis and high recurrence rates. This underscores the urgent need for novel therapeutic approaches. One promising target is Focal adhesion kinase (FAK), a key regulator of tumor progression currently in clinical trials for glioma treatment. Drug development, however, is both challenging and costly, necessitating efficient strategies. Computer-Aided Drug Design (CADD), especially when combined with machine learning (ML), streamlines the processes of virtual screening and optimization, significantly enhancing the efficiency and accuracy of drug discovery. Our study integrates ML, docking analysis, ADMET (absorption, distribution, metabolism, elimination, and toxicity) studies to identify novel FAK inhibitors specific to GBM. Predictive models showed strong performance, with an R2 of 0.892, MAE of 0.331, and RMSE of 0.467 using protein-level IC50 data in combined CDK, CDK extended fingerprints, and substructure fingerprint counts derived from 1280 FAK inhibitors. Another model, based on IC50 data from 2608 compounds tested on U87-MG cells, achieved an R2 of 0.789, MAE of 0.395, and RMSE of 0.536. Using these models, we efficiently identified 275 potentially active compounds out of 5107 candidates. Subsequent ADMET analysis narrowed this down to 16 potential FAK inhibitors that meet the established drug-likeness criteria. Moreover, molecular dynamics (MD) simulations validated the stable binding interactions between the selected compounds and the FAK protein. This study highlights the effectiveness of combining ML, docking analysis, and ADMET studies to rapidly identify potential FAK inhibitors from large databases, providing valuable insights for the systematic design of FAK inhibitors.

Exploring the properties of antituberculosis drugs through QSPR graph models and domination-based topological descriptors

Tuberculosis (TB) is a global health concern caused by the bacterium Mycobacterium tuberculosis. This infectious disease primarily affects the lungs but can also impact other organs. Effective TB control involves early diagnosis, appropriate treatment with a combination of antibiotics, and public health measures to prevent transmission. However, ongoing challenges include drug-resistant strains and socioeconomic factors influencing its prevalence. Drugs such as isoniazid, pyrazinamide, ethambutol, ethionamide, linezolid, and levofloxacin are approved for the treatment of drug-susceptible tuberculosis. The properties and other activities of the drug, can be analyzed by modelling its chemical structure in terms of a molecular graph \\documentclass[12pt]{minimal} \\usepackage{amsmath} \\usepackage{wasysym} \\usepackage{amsfonts} \\usepackage{amssymb} \\usepackage{amsbsy} \\usepackage{mathrsfs} \\usepackage{upgreek} \\setlength{\\oddsidemargin}{-69pt} \\begin{document}$$G=\\left(V,E\\right)$$\\end{document}, by considering the atoms as the vertex set \\documentclass[12pt]{minimal} \\usepackage{amsmath} \\usepackage{wasysym} \\usepackage{amsfonts} \\usepackage{amssymb} \\usepackage{amsbsy} \\usepackage{mathrsfs} \\usepackage{upgreek} \\setlength{\\oddsidemargin}{-69pt} \\begin{document}$$V\\left(G\\right)$$\\end{document} and the bonds between the two atoms as the edge set \\documentclass[12pt]{minimal} \\usepackage{amsmath} \\usepackage{wasysym} \\usepackage{amsfonts} \\usepackage{amssymb} \\usepackage{amsbsy} \\usepackage{mathrsfs} \\usepackage{upgreek} \\setlength{\\oddsidemargin}{-69pt} \\begin{document}$$E\\left(G\\right)$$\\end{document}. A molecular descriptor or topological index of \\documentclass[12pt]{minimal} \\usepackage{amsmath} \\usepackage{wasysym} \\usepackage{amsfonts} \\usepackage{amssymb} \\usepackage{amsbsy} \\usepackage{mathrsfs} \\usepackage{upgreek} \\setlength{\\oddsidemargin}{-69pt} \\begin{document}$$G$$\\end{document} represents the corresponding chemical molecule as a numerical value. Domination is one of the key concepts in the molecular structure used to analyze the properties of atoms. In this article, the domination distance-based topological indices of the drugs isoniazid, pyrazinamide, ethambutol, ethionamide, linezolid, and levofloxacin are computed to conduct QSPR (Quantitative Structure–Property Relationship) analysis, exploring their physicochemical and ADMET (Absorption, Distribution, Metabolism, Excretion, and Toxicity) properties. Quadratic regression is then used in the QSPR analysis to examine the physicochemical and ADMET properties of these drugs. The results of this analysis indicate that the domination Schultz index and domination SM index are the indices most strongly correlated with the majority of the physicochemical and ADMET properties. The QSPR analysis can also be extended to analogs of these drugs and to other treatment drugs, such as rifampin and rifapentine, to further explore their properties.

In Silico exploration for potent phytochemicals targeting Helicobacter pylori: assessment of ADMET profiles and molecular docking analysis

Treatment of Helicobacter pylori (H. pylori) infections faces challenges such as drug adherence, drug resistance, and re-infection. Surface antigens like BabA and SabA cause the disease, while phytochemicals like glycyrrhizin and cinnamaldehyde in liquorice and cinnamon are highly absorbed by H. pylori. Other molecules like coumarin can disrupt H. pylori adherence. Optimizing pharmacokinetics of certain drugs remain a challenge. Plant-derived chemical compounds can overcome treatment restrictions using molecular docking research, drug compatibility, and ADMET (Absorption, Distribution, Metabolism, Excretion, and Toxicity) examinations. These tools help to determine the appropriate usage of phytochemicals in bacteria. Our work aims to explore the potential of phytochemicals (glycyrrhizin, cinnamaldehyde, coumarin) as a treatment for H. pylori disease using molecular docking (BabA, SabA, CagA, VacA and urease) and ADMET analysis by in silico approaches. Glycyrrhizin has the most favorable binding energies with both CagA (− 8.9 kcal/mol) and VacA (− 8.4 kcal/mol), indicating stable interactions. Cinnamaldehyde and coumarin show weaker binding energies, suggesting less stability. Amoxicillin and clarithromycin showed moderate binding energy. Glycyrrhizin, cinnamaldehyde, and coumarin showed non-toxicity in assays, while amoxicillin and clarithromycin displayed toxicity, underscoring the importance of thorough safety assessments in drug development by ADMET study. Compounds meeting Lipinski's Rule of Five criteria, including cinnamaldehyde and coumarin, demonstrate potential for good oral bioavailability. Despite these difficulties, substances like coumarin, glycyrrhizin, and cinnamondehyde can be useful in the treatment of H. pylori. In-depth safety evaluations and continuous research are essential for improving medication development and promoting more effective H. pylori treatment.Graphical

Bioefficacy, chromatographic profiling and drug-likeness analysis of flavonoids and terpenoids as potential inhibitors of H1N1 influenza viral proteins

Considering medicinal plants, natural products present in these plants are the best sources of medications for combating viral infection. The possible drug target against viral H1N1 influenza proteins lead to identification of selected secondary metabolites from potential plants Tinospora cordifolia, Ocimum sanctum, and Piper nigrum. On analysis of in vitro cell based antiviral activity of the selected plant extracts, an indication for a possible lead compound against neuraminidase activity was evident. Potent ligands were selected using drug docking and ADMET analysis, and the screened lead metabolites were ultimately identified as terpenoid (Columbin) and, flavonoid (Cubebin, and Apigenin). Among the selected ligands, the drug binding activity of Cubebin with all the 6 proteins of H1N1 influenza type A virus, HA (4r8w), NA (4qn7), M2 (3lbw), PA (4wsb), PB1 (2znl) and PB2 (3wil), was pronounced. In addition, physicochemical and pharmacokinetic parameters linked to absorption, distribution, metabolism, excretion and toxicity (ADMET) have been evaluated and corroborate with our in vitro results. Molecular dynamics modelling indicated Cubebin can be a potential phytochemical in a drug discovery pipeline for the development of neuraminidase inhibitors. Further studies can provide a possibility for an alternative therapy against Influenza viruses.

Investigation of spectroscopic characterization, crystal structure, and antitumor activity of a novel 2ATP molecule

In this section, the spectroscopic characteristics of 2-amino-toysl-pyridine (2ATP) are fully examined, using both experimental and computational investigations guided by density functional theory (DFT). It will facilitate our computational research using the B3LYP approach to use the basis set 6–311++G(d,p). Comprehensive assignments of vibrational modes were obtained from the vibrational spectra, which comprised FT-Raman and FT-IR spectroscopy and were recorded in the region of 3500–400 cm−1 and 4000–500 cm-1, respectively, using the Vibrational Energy Distribution Analysis (VEDA) approach. The net atomic charges inside the molecule were ascertained by using Mulliken population analysis, natural atomic charges, and electrostatic potentials (CHELPG). The structural conformations of 2ATP were determined using NMR spectroscopy in a CDCl3 solvent. The donor-acceptor interactions of the 2ATP molecule at the 6–311++G(d,p) level were studied by means of a Natural Bond Orbital (NBO) study. Studies of the ultraviolet (UV) spectrum in ethanol were used to assess the effects of the solvent. An assessment was made of the energy difference between the lowest unoccupied molecular orbital (LUMO) and the highest occupied molecular orbital (HOMO) in order to understand charge transfer processes that suggest the molecule may have biological activity. Molecular electrostatic potential (MEP) surfaces were used to predict the nucleophilic and electrophilic sites in molecules. The non-covalent interactions were evaluated using the reduced density gradient (RDG) approach. The Multiwfn software was used to analyze the topological properties of the 2ATP, including the Localized Orbital Locator (LOL) and Electron Localization Function (ELF). Further attention was drawn to the compound's exceptional pharmacological potential when its ADMET (Absorption, Distribution, Metabolism, Excretion, and Toxicity) characteristics were evaluated. Not to add, molecular docking experiments were carried out to evaluate the feasibility of 2ATP as a bioactive material with possible uses in the pharmaceutical business.

Synthesis and Anticancer Evaluation of Tryptanthrin‐1,2,3‐Triazole Hybrids

ABSTRACTSynthesis of 18 tryptanthrin‐triazole hybrid molecules by employing Cu(I)‐catalyzed azide‐alkyne [3 + 2] cycloaddition (CuAAC) between tryptanthrin oxime O‐propargyl ether and aromatic azides is described here. The exclusive formation of E‐triazoles was confirmed by theoretical studies using the M06‐2x/6–311++G(d,p) level. From the synthesized triazoles, four of them have been selected and were subjected to in vitro anticancer activity studies against selected cell lines. Furthermore, in silico studies have been conducted for the most active compound, 5h, and it suggested that various noncovalent interactions and one conventional hydrogen bond enhance the stability of the complex (binding affinity = −11.29 kcal/mol). ADMET (Absorption, Distribution, Metabolism, Excretion and Toxicity) studies also prove the increased biological potency of 5h.

Antihypertensive Activity of Peptides Derived from Toman Fish Albumin (Channa micropeltes): In-silico Angiotensin-Converting Enzyme Inhibitory Study.

The peptides from protein hydrolysis can be as bioactive peptides. Currently, the process of protein hydrolysis can be done in-silico technique, an alternative to bioactive peptide identification more effectively and efficiently. This study aims to predict bioactive peptides in-silico technique of albumin hydrolysis from Toman Fish (Channa micropeltes), which had the potential as an antihypertensive drug. Toman fish albumin sequence (A0A191TFW5) was obtained from the UniProt database. The identification of bioactive peptides was performed by simulating enzymatic hydrolysis with three human digestive enzymes: trypsin, chymotrypsin, and pepsin. The hydrolysis simulation of albumin was conducted using the ExPASy PeptideCutter program. The generated peptides’ potential activities, solubility, and ADMET (absorption, distribution, metabolism, excretion, and toxicity) properties were predicted using various online prediction tools. Molecular docking was performed on the bioactive peptides to determine the Gibbs free energy (∆G) and to illustrate the interaction between the bioactive peptides and the active site of the Angiotensin Converting Enzyme (ACE) as a comparison was used captopril which was a commercial ACE inhibitor. The results showed that bioactive peptide candidates were AI, VL and LVP. These peptides were potentially a candidate for alternative antihypertensive drugs.

Cellulase exhibited a therapeutic potential to inhibit Salmonella enterica serovar Typhi biofilm by targeting multiple regulatory proteins of biofilm

Biofilm-mediated Salmonella enterica serovar Typhi (Salmonella Ser. Typhi) infections are a growing global health issue due to the formation of antibiotic resistance. The study aimed to discover some of the druggable target proteins of Salmonella Ser. Typhi biofilm and antibiofilm enzyme to prevent Salmonella Ser. Typhi biofilm-mediated infection. Enzymatic therapy has demonstrated effective therapeutic results against bacterial infections due to its specificity and high binding capacity to the target. Therefore, this study focused on the computational interaction between the cellulase enzyme and Salmonella Ser. Typhi biofilm targets proteins with help of the various computational experiments such as ADMET (absorption, distribution, metabolism, excretion, and toxicity), protein-protein interactions, MMGBSA, etc. Further, in vitro validations of the typhoidal biofilm and cellulose presence in Salmonella Ser. Typhi biofilm was conducted using Scanning Electron Microscopy (SEM), Fourier transform infrared spectroscopy, and Raman analysis. Additionally, a minimum biofilm inhibitory concentration assay for cellulase was conducted and find out the optimized cellulase concentration which showed its inhibitory effect on the Salmonella Ser. Typhi. The cellulase antibiofilm effect was analyzed with the help of SEM analysis. Further, the cellulose content in Salmonella Ser. Typhi was quantified before and after treatment of cellulase enzyme. As a result, 58.82 % cellulose content was decreased due to cellulase treatment in Salmonella Ser. Typhi. From the seven selected typhoidal biofilm regulatory proteins of Salmonella Ser. Typhi, we identified only five potential druggable targets: BcsA, CsgE, OmpR, CsgF, and CsgD. The BcsA protein is responsible for cellulose production in Salmonella Ser. Typhi biofilm. Consequently, cellulose worked as a fascinating drug target in Salmonella Ser. Typhi biofilm. Therefore, we used cellulase as a potential antibiofilm enzyme for target-based disruption of biofilm. The cellulase showed a high binding affinity with all five identified target proteins [BcsA(-205.62 kcal/mol) > CsgE(-108.20 kcal/mol) > OmpR(-107.58 kcal/mol) > CsgF(-73.74 kcal/mol) > CsgD(-66.61 kcal/mol)] in the protein-protein interaction analysis. Our computational analysis suggests that the cellulase enzyme may be used as a potential antibiofilm enzyme against Salmonella Ser. Typhi biofilm.

Chemical Profiling, In Silico Pharmacokinetics Analysis and Molecular Docking Study of Phytocompounds of Homeopathy Medicine Echinacea angustifolia Q against Suppurative Bacterial Proteins

Background Computer-aided drug design is the emerging field for identification of drug action on its target organs. The pharmacokinetic study helps find out drug ADMET (absorption, distribution, metabolism, excretion, and toxicity) and drug likeness properties. PyRx software helps with molecular docking of the bioactive compounds on their target organ within a short period of time. In homeopathy, Echinacea angustifolia is one of the most commonly used drugs for microbial infective skin lesions used in internal administration as well as an external application. Objective This study was aimed at identifying the compounds present in Echinacea angustifolia Q through liquid chromatography mass spectrometry (LC-MS), ADMET, and drug likeness properties, followed by molecular docking by PyRx software to recognize the interaction between drug compounds against 12 target microbial proteins of commonly infective suppurative bacteria. Materials and Methods An analysis of the phytoconstituents of Echinacea angustifolia Q was performed using the Agilent 1290 Infinity LC system coupled to the Agilent 6545 Accurate Mass Quadrupole Time-of-Flight (QTOF) with Agilent Jet Stream Thermal Gradient Technology. In silico ADMET and drug likeness properties were assessed by free online tools, followed by a detailed docking study by PyRx software. The drug compounds with the lower glide docking score are considered to have the best binding affinity. Result The five compounds of Echinacea angustifolia Q satisfy all properties of ADMET and drug likeness. The three compounds of Echinacea angustifolia Q have low glide score of >-7.0 kcal/mol against the three microbial target proteins of Salmonella enterica, Proteus mirabilis, and Staphylococcus aureus. Conclusion Echinacea angustifolia Q has fulfilled the ADMET and drug-likeness properties for internal administration as well as external application for various suppurative bacterial infective disorders, which were confirmed through molecular docking. Therefore, Echinacea angustifolia Q may function as a potential therapeutic agent for the treatment of illnesses associated with antimicrobial resistance.

Synthesis, DFT investigation, antioxidant, molecular docking and ADME-T properties of N′-(1-benzylpiperidin-4-ylidene) furan-2-carbohydrazide derivatives against SARS-CoV-2 spike proteins

ABSTRACT A novel synthetic reaction was used to produce a piperidine derivative, specifically N′-(1-benzylpiperidin-4-ylidene)furan-2-carbohydrazide (BPFC). The structure of the synthesised compound was confirmed through FT-IR, 1H-NMR and 13C-NMR spectral analysis. DFT calculations were performed to optimise structural parameters and investigate Natural Bond Orbital (NBO) analysis, Frontier Molecular Orbitals (FMOs), Molecular Electrostatic Potentials, Mulliken Charge Analysis, and Non-linear Optical properties. The predicted chemical shift values align well with the expected results. The antioxidant properties of the newly synthesised compound were assessed using DPPH, ABTS, and H2O2 radical scavenging assays. Molecular docking studies were also carried out to explore the binding mechanism of the compound with COVID-19-related proteins, particularly 6WCF and 6LU7. Additionally, the synthesised compound was assessed for drug-likeness and ADMET (Absorption, Distribution, Metabolism, Excretion, and Toxicity) properties, revealing favourable pharmacokinetic profiles without any signs of toxicity.

Exploration of newly synthesized transition metal(II) complexes for infectious diseases.

Aim: In the annals of human history, infectious diseases significantly influencing the collective well-being of people worldwide. Consequently, to identify effective agents for infectious ailments, the octahedral Co(II), Ni(II), Cu(II), Zn(II) complexes of 4-(3-methoxyphenyl)pyrimidin-2-amine and 2-methoxy-1-napthaldehyde based ligand were synthesized and well characterized in the current investigation.Results & methodology: The synthesized compounds were evaluated for anti-TB, anti-inflammatory, antibacterial, antifungal activities by microplate Alamar blue, bovine serum albumin, serial dilution assays. The [Zn(L1)2(H2O)2] complex (5) demonstrates robust potency with 0.0040±0.0007 and 0.0038μmol/ml MIC value in anti-tuberculosis and antimicrobial activities, correspondingly while 06.57±0.03μM IC50 value in anti-inflammatory investigation.Conclusion: Complex (5) show promising potential as targets for pathogen deformities, supported by rigorous biological and computational investigations including pharmacophore modelling, molecular docking (binding score -121.018 and -59.8662kcal/mol for 6H53 and 1CX2 proteins, respectively), DFT (Density functional theory), MESP (MolecularElectrostaticPotential) and ADMET (absorption, distribution, metabolism, excretion and toxicity).