Volume 11, Issue 2 (2020)
JMBS 2020, 11(2): 145-154 |
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Mortazavi M, Torkzadeh-Mahani M, Hosseinkhani S, lotfi S, Rahman E. Molecular docking and bioinformatics study of rare codons in the Lampyroidea maculata luciferase gene. JMBS 2020; 11 (2) :145-154
URL: http://biot.modares.ac.ir/article-22-13152-en.html
URL: http://biot.modares.ac.ir/article-22-13152-en.html
Mojtaba Mortazavi * 
1, Masoud Torkzadeh-Mahani2 , Saman Hosseinkhani3 , Safa Lotfi2 , Emamzadeh Rahman4
1, Masoud Torkzadeh-Mahani2 , Saman Hosseinkhani3 , Safa Lotfi2 , Emamzadeh Rahman4
1- Department of Biotechnology, Institute of Science and High Technology and Environmental Science, Graduate University of Advanced Technology, Kerman, Iran , mortezavimm@kgut.ac.ir
2- Department of Biotechnology, Institute of Science and High Technology and Environmental Science, Graduate University of Advanced Technology, Kerman, Iran
3- Department of Biochemistry, Faculty of Basic Sciences, Tarbiat Modares University, Tehran, Iran, null
4- Department of Biology Faculty of Sciences University of Isfahan
2- Department of Biotechnology, Institute of Science and High Technology and Environmental Science, Graduate University of Advanced Technology, Kerman, Iran
3- Department of Biochemistry, Faculty of Basic Sciences, Tarbiat Modares University, Tehran, Iran, null
4- Department of Biology Faculty of Sciences University of Isfahan
Abstract: (3404 Views)
The bioluminescence process is a widespread phenomenon in Nature. These enzymes are identified in some domains of life, but the luciferases from the lampyridea genus are considered for biological applications. The molecular cloning of a new type of Iranian firefly luciferase from Lampyroidea maculata was reported, previously. In this study, we analyzed the rare codons of the Iranian insect luciferase gene using the computational databases as ATGme, RACC, LaTcOm, and Sherlocc. Also, the structural modeling process of this enzyme was performed. Next, the status of these rare codons in this structural model was studied using SPDBV and PyMOL software. In the following, the substrate binding site was studied using the AutoDock Vina. By molecular modeling, some rare codons were identified that may have a critical role in the structure and function of this luciferase. AutoDock Vina was used in the molecular docking that recognizes Asp531 that yield closely related to luciferin and AMP binding site.. This bioinformatics analyzes play an important role in the design of new drugs.
Article Type: Original Research |
Subject:
Bioinformatics
Received: 2017/08/12 | Accepted: 2019/12/28 | Published: 2020/06/6
Received: 2017/08/12 | Accepted: 2019/12/28 | Published: 2020/06/6
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