Evaluation Of Curcumin Effects On Bad, Bak, And Bim: A Molecular Dynamics Simulation Study

Authors

  • Fateme D. Asl

DOI:

https://doi.org/10.47750/pnr.2022.13.03.002

Keywords:

Bad, Bak, Bim, Curcumin, Molecular dynamics

Abstract

Curcumin (Cur) is a polyphenol compound with antioxidant and apoptotic effects. It can lead cells to death which is the ultimate goal in
cancer research.
The effect of Cur on three pro-apoptotic factors of Bad, Bak, and Bim was investigated in this molecular dynamic and molecular docking
simulation study. The PDB files of these three factors and the 3-D structure of Cur were obtained from www.rcsb.org and PubChem, respectively.
All files were converted to PDB files by Avogadro v.1.2 software. The water and ion environment in GROMACS 2018 simulation package
was used to conduct molecular dynamic simulation studies. Furthermore, AutoDock v.4.2.6 software performed the docking of Cur as a ligand
and the proteins as receptors. LigPlot+ v.4.5.3 was used to determine the hydrogen and hydrophobic bonds at the binding sites.
Results showed that Cur could bind to Bad with -6.58 kcal/mol binding energy. In addition, the binding of Cur to proteins induced some
changes in molecular dynamic factors such as radius of gyration (Rg), root-mean-square deviation (RMSD), root-mean-square fluctuation
(RMSF), binding energy (BE), estimated inhibition constant (EIC), and their secondary structures. A significant increase in Rg and RMSD and
some variations in RMSF were seen in Bad and Bak after docking with Cur. Considering this study, Cur could bind to the proteins directly,
induce conformational changes, and increase their likelihood of dimerization, leading to activating apoptotic pathways. These results suggested
the apoptotic effects of Cur on cancer cells through influencing these proteins for the first time.

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Published

2022-09-20

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Section

Articles

How to Cite

Evaluation Of Curcumin Effects On Bad, Bak, And Bim: A Molecular Dynamics Simulation Study. (2022). Journal of Pharmaceutical Negative Results, 13(3), 8-14. https://doi.org/10.47750/pnr.2022.13.03.002