Research Article of American Journal of Biotechnology and Bioinformatics
Comparison of Sequence with Cluster based analysis for molecular properties and composition of Glutathione Peroxidase family proteins
Shailesh Kumar1*, Sumit Govil2, Vikram Kumar1
ICMR-National Institute of Cholera and Enteric Diseases, Indian Council of Medical Research, P 33 CIT Road, Scheme XM< Beliaghata, Kolkata 700010, West Bengal, India
Glutathione peroxidase (GPx) is very important protein helps in eradication of exogenous materials from the body of human reported to do the same work in other organisms. The selenocysteine amino acid contributes to the structure of this protein. Here a comparative study on sequence based methods and property based methods is carried out on all curated sequences of Glutathione Peroxidase for Human. Swiss Prot database was explored and only 65 protein of GPx family was obtained out of which 18 curated sequences were used for further analysis. Sequence based Distance method of Multiple Sequence Analysis is used for finding similar groups. Then all 18 sequences were studied for number of cleavage sites analysis followed by hierarchical clustering which represents cleavage sites based similar groups. Further, these sequences were computed to find amino acid composition and various properties like theoretical PI, Instability Index, Alipahtic Index and Hydropathy, followed by Hierarchical clustering. The interesting fact obtained in this study is that on comparison with the cleavage sites based clustering and amino acid composition with properties based clustering is having similar type of groups. These similar groups are having no relation sequence based methods groups. Hence, we conclude that for finding functional similarity between various sequences clustering of property based methods are more reliable as compared to sequence based methods phylogenetic methods.
Keywords: Glutathione Peroxidase; computational analysis; hierarchical clustering; curated; hydropathy.
How to cite this article:
Shailesh Kumar, Sumit Govil, and Vikram Kumar. Comparison of Sequence with Cluster based analysis for molecular properties and composition of Glutathione Peroxidase family proteins. American Journal of Biotechnology and Bioinformatics, 2018; 2:6 . DOI: 10.28933/ajobb-2018-01-0401
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