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Protein Stability Determination (PSD): A Tool for Proteomics Analysis

[ Vol. 14 , Issue. 1 ]

Author(s):

Anindya Sundar Panja, Akash Nag, Bidyut Bandopadhyay and Smarajit Maiti*   Pages 70 - 77 ( 8 )

Abstract:


Background: Protein Stability Determination (PSD) is a sequence-based bioinformatics tool which was developed by utilizing a large input of datasets of protein sequences in FASTA format. The PSD can be used to analyze the meta-proteomics data which will help to predict and design thermozyme and mesozyme for academic and industrial purposes. The PSD also can be utilized to analyze the protein sequence and to predict whether it will be stable in thermophilic or in the mesophilic environment.

Method and Results: This tool which is supported by any operating system is designed in Java and it provides a user-friendly graphical interface. It is a simple programme and can predict the thermostability nature of proteins with >90% accuracy. The PSD can also predict the nature of constituent amino acids i.e. acidic or basic and polar or nonpolar etc.

Conclusion: PSD is highly capable to determine the thermostability status of a protein of hypothetical or unknown peptides as well as meta-proteomics data from any established database. The utilities of the PSD driven analyses include predictions on the functional assignment to a protein. The PSD also helps in designing peptides having flexible combinations of amino acids for functional stability. PSD is freely available at https://sourceforge.net/projects/protein-sequence-determination.

Keywords:

Proteomics, thermophilic or mesophilic proteins, protein stability determination, amino acid property.

Affiliation:

Post Graduate Department of Biotechnology, Oriental Institute of Science and Technology, Vidyasagar University, Midnapore-721102, West Bengal, Department of Computer science, University of Burdwan, Post Graduate Department of Biotechnology, Oriental Institute of Science and Technology, Vidyasagar University, Midnapore-721102, West Bengal, Post Graduate Department of Biochemistry and Biotechnology, Cell and Molecular Therapeutics Laboratory, Oriental Institute of Science and Technology, Vidyasagar University, Midnapore-721102, West Bengal

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