Abstract
Present study describes the homology modeling and molecular dynamics simulation study of COI gene of a hill stream loach,Balitora brucei. The barcoded sequences of the selected fish species (KY800366; KY867680) were processed by Modeler and 38 related homologs were obtained. Based on the lowest E-Value, 3AQ2A was selected as the best template for the analysis. Among the five models that obtained from the analysis, AQP2.B7777906 was found to be the best model with the smallest DOPE value. ERRAT score of the generated model was found to be 86.818%. The ProQ result shows the LG score of the model as 3.708 which signifies that the model lies in good-quality protein model range.
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Acknowledgements
The laboratory facilities used for this investigation were provided by Dr. Narayan Chandra Talukdar, the former director of the IASST in Guwahati, Assam, to which the authors are grateful. The Bioinformatics Facility (BIF), IASST Research Scholar Mr. Anupam Bhattacharya is also appreciated by the authors for his assistance with the simulation work.
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Kaushik, G., Mahanta, S., Bordoloi, S. (2024). Homology Modeling and Molecular Dynamics (MD) Simulation Study of COI Gene in Gray’s stone loach Balitora Brucei Gray, 1830. In: Shivakumara, P., Mahanta, S., Singh, Y.J. (eds) Proceedings of the NIELIT's International Conference on Communication, Electronics and Digital Technology. NICEDT 2024. Lecture Notes in Networks and Systems, vol 1023. Springer, Singapore. https://doi.org/10.1007/978-981-97-3604-1_25
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