Molecular docking investigation of calotropone as a potential natural therapeutic agent against pancreatic cancer

Antioxidant and phytometabolite profiles of ethanolic extract from the cascara pulp of Coffea arabica collected from Gayo Highland: A study for potential anti-photoaging agent

Background: As the most abundant coffee by-product, cascara pulp has been considered a good source of antioxidants which could be used to prevent photoaging. The aim of this study was to determine the phytometabolite profiles, antioxidant and photoaging properties of the ethanolic extract of Coffea arabica cascara pulp. Methods: Ethanolic maceration was performed on the fine powder of C. arabica cascara pulp collected from Gayo Highland, Aceh Province, Indonesia. The filtrate obtained was evaluated for its 2,2-diphenyl-1-picrylhydrazyl (DPPH) scavenging activity, total phenolic content (TPC), and total flavonoid content (TFC). The phytometabolite profiling was conducted qualitatively using reagents and quantitatively using gas chromatography-mass spectroscopy (GC-MS). The potential of the cascara pulp phytometabolites in inhibiting activator protein-1 (AP-1) was evaluated through molecular docking. Results: The extract had TPC and TFC of 2.04 mg gallic acid equivalent/g extract and 91.81 mg quercetin equivalent/g extract, respectively. The half-maximal inhibitory concentration (IC 50) for the DPPH inhibition reached as low as 9.59 mg/L. Qualitative phytocompound screening revealed the presence of alkaloids, saponins, tannins, flavonoids, steroids, quinones, polyphenols, and triterpenoids. GC-MS revealed the extract containing 5-hydroxy-methylfurfural (22.31%); 2,5-dimethyl-4-hydroxy-3(2H)-furanone (0.74%); and caffeine (21.07%), which could form interaction with AP-1 with binding energies of -172.8, -150.8, and -63.188 kJ/mol, respectively. Conclusion: Ethanolic extract from C. arabica cascara pulp potentially have anti-photoaging properties which is worthy for further investigations in the future.

Phytocompounds of Nigella sativa seeds extract and their neuroprotective potential via EGR1 receptor inhibition: A molecular docking study

Bioactivity of Nigella sativa seed extract has the potential as a neuro-protector, offering its promising utility in the clinical setting for brain injury management. This study aimed to identify the phytocompounds contained in the extract of N. sativa seeds and further screen their respective neuronal anti-inflammatory activities in silico. The extract of N. sativa seeds was prepared through successive maceration using non-polar to polar solvents (n-hexane and ethanol, respectively). The phytocompounds in the ethanolic extract were initially identified through qualitative analysis and further analyzed with gas chromatography-mass spectrometry (GC-MS). The spectral data were compared with the compound library for identification. The identified phytocompounds were then simulated computationally for their binding affinities toward the active pocket of early growth response-1 (EGR1) receptor (PDB: 14r2a). We found that the ethanolic extract of N. sativa seeds were predominantly constituted of hexadecanoic acid, ethyl ester (17.15%); linoleic acid ethyl ester (15.0%); octadecanoic acid (13.26%); and ethyl oleate (10.38%). The binding affinity of the phytocompounds ranged from -7.49 kcal/mol (methyl palmitoleate) to -14.31 kcal/mol (9-hexadecanoic acid, methyl ester), with 12 compounds having binding affinity < -10 kcal/mol. In conclusion, ethanolic extract of N. sativa seeds are rich with fatty acids that have active as anti-inflammatory and may exert neuronal protection by inhibiting EGR1 receptor. Studies using animal models to confirm the activity are warranted.

Probing antibacterial drugs for Fusobacterium nucleatum subsp. nucleatum ATCC 25586 targeting UDP-N-acetylglucosamine 1-carboxyltransferase

Fusobacterium nucleatum is a Gram-negative anaerobic bacteria that is commonly found in oral cavities and is associated with connective tissue destruction in periodontitis. UDP-N-acetylglucosamine 1-carboxyltransferase with enzyme commission number 2.5.1.7 is a transferases enzyme that plays a role in bacterial pathogenesis. Inhibiting binding sites of UDP-N-acetylglucosamine 1-carboxyltransferase is needed to find potential antibiotic candidates for periodontitis treatment. Hence, the research aimed to present potential UDP-N-acetylglucosamine 1-carboxyltransferase inhibiting compounds through molecular docking simulation by in silico analysis. DrugBank database was used to obtain the antibacterial candidates, which were further screened computationally using the AutoDock Vina program on Google Colab Pro. The top nine compounds yielded binding affinity ranging from -12.1 to -12.8 kcal/mol, with conivaptan as one of the three compounds having the highest binding affinity. Molecular dynamic study revealed that the ligand-protein complex for conivaptan had root-mean-square deviation values of 0.05-1.1 nm, indicating likeliness for stable interaction. Our findings suggest that conivaptan is the potent UDP-N-acetylglucosamine 1-carboxyltransferase inhibitor, hence its efficacy against periodontitis-causing bacteria.

Bioactive phytoconstituents of ethanolic extract from Chromolaena odorata leaves interact with vascular endothelial growth factor and cyclooxygenase-2: A molecular docking study

Chromolaena odorata is an invasive plant with a broad spectrum of medicinal properties, including wound healing. This study aimed to evaluate the interaction of the already identified bioactive phytoconstituents from ethanolic extracts of C. odorata leaves with two angiogenesis-related proteins - vascular endothelial growth factor (VEGF) and cyclooxygenase-2 (COX-2) in silico. A molecular docking protocol was performed on AutoDock Vina employing the molecular structure of VEGF (3HNG) and COX-2 (3LN1) downloaded from the Protein Data Bank. The results reveal that most of the phytoconstituents possess strong binding affinity, where β-tocopherol and squalene have the highest values. In conclusion, it is highly possible that the phytoconstituents of C. odorata from the ethanolic leaf extract perform an interaction with VEGF and COX-2 and affect their activities.

Cytotoxicity and phytochemical profiles of Phyllanthus emblica stem barks with in silico drug-likeliness: Focusing on antidiabetic potentials

Out of numerous reported medicinal plants, Phyllanthus emblica has been reported to possess a strong antidiabetic potential and other pharmacological effects. This research aimed to identify the phytoconstituents in the extracts of P. emblica stem barks and hypothesize their antidiabetic potentials based on in silico drug-likeliness. Simplicia of P. emblica powder was sequentially macerated at room temperature (24 h) using n-hexane, ethyl acetate, and methanol solvents. Phytochemical profiles of the extract were investigated qualitatively using reagents, followed by gas chromatography-mass spectrometry (GC-MS) analysis. All phytocompounds were then analyzed for their pharmacological properties and predicted bioactivities on molinspiration. Cytotoxicity of each extract was evaluated using the brine shrimp lethality test. As many as 18 compounds (from GC-MS), were identified in all extract samples from P. emblica stem barks. Based on in silico drug-likeliness, methanol extract contained the most potentially bioactive compounds (16α-hydroxycleroda-3,13 (14) Z-dien-15,16-olide; 14-. beta.-H-pregna; and isochiapin B). Isochiapin B was revealed as the only compound that had no violation of the rule of five. All three compounds could hypothetically contribute to the antidiabetic activity of the methanol extract from P. emblica stem barks by inhibiting diabetes-related enzymes and interacting with nuclear receptors. Moderate cytotoxicity of ethyl acetate and methanol extract, respectively, further suggests their bioactivities.

Antioxidant and antiproliferative activities of n-hexane extract and its fractions from Blumea balsamifera L. leaves

Blumea balsamifera is a plant species that has been popularly used to treat a broad spectrum of diseases. In efforts of tackling the increasing threat of cancers, B. balsamifera has been studied for its anticancer potentials. Hence, through this research, we aimed to evaluate the antioxidant and antiproliferative activities of n-hexane extract from B. balsamifera L. leaves along with its fractionation products. After the n-hexane extract has been obtained, the sample was column chromatographed using gradient elution with n-hexane:ethyl acetate solvent. All the isolation protocols produced 1 n-hexane extract and 10 different fractions (fractions 1-10). Antioxidant and antiproliferative effects of the samples were assessed based on 2,2-diphenyl-1-picrylhydrazyl and brine shrimp lethality test assay, respectively. None of the samples have a strong antioxidant level because all samples yielded IC50 of more than 100 ppm - the best of them was fraction 8 with IC50 = 113.716 ppm. On contrary, most of the samples were observed to have a potent antiproliferative effect, especially fraction 8 with LC50 = 2.00 ppm. Taken altogether, fraction 8 from the n-hexane extract of B. balsamifera L. leaves is the most potential candidate for proliferative disease therapy, where further studies confirming the results are required.