2020
DOI: 10.3390/molecules25173991
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In Silico Analyses and Cytotoxicity Study of Asiaticoside and Asiatic Acid from Malaysian Plant as Potential mTOR Inhibitors

Abstract: Natural products remain a popular alternative treatment for many ailments in various countries. This study aimed to screen for potential mammalian target of rapamycin (mTOR) inhibitors from Malaysian natural substance, using the Natural Product Discovery database, and to determine the IC50 of the selected mTOR inhibitors against UMB1949 cell line. The crystallographic structure of the molecular target (mTOR) was obtained from Protein Data Bank, with Protein Data Bank (PDB) ID: 4DRI. Everolimus, an mTOR inhibit… Show more

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Cited by 23 publications
(16 citation statements)
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“…The atoms of dimethyl fumarate were discarded using Pymol 1.4. Furthermore, AutoDock v.4.2.6 was used to add the hydrogens, to calculate charges, and to merge the non‐polar hydrogens of protein structure(Zulkipli et al., 2020). Next, the protein file was saved in PDBQT format.…”
Section: Methodsmentioning
confidence: 99%
See 1 more Smart Citation
“…The atoms of dimethyl fumarate were discarded using Pymol 1.4. Furthermore, AutoDock v.4.2.6 was used to add the hydrogens, to calculate charges, and to merge the non‐polar hydrogens of protein structure(Zulkipli et al., 2020). Next, the protein file was saved in PDBQT format.…”
Section: Methodsmentioning
confidence: 99%
“…Furthermore, AutoDock v.4.2.6 was used to add the hydrogens, to calculate charges, and to merge the non-polar hydrogens of protein structure (Zulkipli et al, 2020…”
Section: Molecular Docking Of Resveratrol With Keap1mentioning
confidence: 99%
“…To insight into the geometrically stable conformation of the potent avones against COMT-mediated 3-BTD-O-methylation, molecular docking simulations were performed by employing a previously reported S-COMT crystal structure (PDB ID: 3BWY). 26 Notably, the conformation of redocking original ligand 3,5-dinitrophenol well coincided with that of crystallographic structure, with a RMSD value of 0.56Å, implying that a desirable accuracy of the docking procedure. Based on Fig.…”
Section: Molecular Docking Simulationsmentioning
confidence: 64%
“…Many amino acid residues of linearized-microcystinase, including ARG 331 , ASP 499 , ILE 324 , VAL 299 , PHE 119 , TYR 158 , VAL 415 , and so on, were involved in forcing linearized MC-LR into tetrapeptide. Molecular docking has emerged as a powerful tool to explore the molecular mechanisms of the protein–ligand, protein–nucleotide, and protein–protein interactions, and this technique is often applied to predicted possible binding pattern of the substrates against its bioactive molecule ( Pingaew et al, 2018 ; Zulkipli et al, 2020 ). Before simulation of molecular docking with computers, we need to get the structure of linearized-microcystinase.…”
Section: Discussionmentioning
confidence: 99%
“…It was possible to use this template for further analysis. After docking, the calculated docking score for the linearized-microcystinase model and linearized MC-LR was -8.5 kcal/mol, which indicated a good binding affinity between them ( Zulkipli et al, 2020 ). Generally, the interaction between the ligands and receptors probably included hydrogen bonds, Van der Waals forces, electrostatic forces, hydrophobic interactions, steric contact, and so on ( Leckband, 2000 ; Hou et al, 2019 ).…”
Section: Discussionmentioning
confidence: 99%