Prajapat, Rajneesh and Jain, Suman (2022) Characterization of SARS-CoV-2 Isolate (MZ558159) Reported from India for in Silico Drug Designing. Journal of Research in Applied and Basic Medical Sciences, 8 (4).
Full text not available from this repository.Abstract
Background & Aims: There is inadequate information available about the genomics and proteomics characterization of SARS-CoV-2 isolates reported from India and other part of the globe. This characterization is important for the in-silico drug designing, as there are no approved medications available to treat SARS-CoV-2 infection. The present study based on the characterization of SARS-CoV-2 (MZ558159) isolate reported from India using homology modeling, validation, and in silico drug designing methods. Materials & Methods: Genome sequence of SARS-CoV-2 (MZ558159) was retrieved from NCBI, and four protein sequences e.g., QXN18496, QXN18498, QXN18504, and QXN18497 were selected for the homology modeling, validation, and in silico drug designing. SWISS-MODEL and UCLA-DOE server were used for homology modeling. Validation for structure model performed using PROCHECK and molecular docking using MCULE-1-Click server. Results: The surface glycoprotein (QXN18496) model corresponding to probability conformation with 93.6%, envelope protein (QXN18498) with 88.9%, nucleocapsid phosphoprotein (QXN18504) with 93.6%, and ORF3a protein (QXN18497) with 91.8% residues in core section of φ-ψ plot that specifies accuracy of prediction models. The corresponding ProSA Z-score score -12.67, -0.01, -4.4, and -2.87 indicates the good quality of the models. Molecular dynamic simulation and docking studies revealed that inhibitor binds effectively at the SARS-CoV-2 (MZ558159) proteins. Predicted inhibitor 2-acetamido-2-deoxy-beta-D-glucopyranose exhibited effective binding affinity against surface glycoprotein (QXN18496). Conclusion: The results of this study established inhibitor 2-Acetamido-2-deoxy-beta-D-glucopyranose as valuable lead molecule with great potential for surface glycoprotein (QXN18496).
| Item Type: | Article |
|---|---|
| Uncontrolled Keywords: | SARS-CoV-2, COVID-19, φ-ψ plot, ProSA |
| Subjects: | R Medicine > R Medicine (General) |
| Depositing User: | Unnamed user with email gholipour.s@umsu.ac.ir |
| Date Deposited: | 21 May 2023 08:49 |
| Last Modified: | 21 May 2023 08:49 |
| URI: | http://eprints.umsu.ac.ir/id/eprint/7065 |
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