Structural and Functional analysis of Interferon Gamma From Bos taurus by Bioinformatic Tools
Anila Hoda, Lorena Hysi, Vilson Bozgo, Lumturi Sena
Abstract: Interferon gamma is a dimerized soluble cytokine that is the only member of the type II class of
interferons. Interferon, IFN gamma plays an important role in generating immunity against viruses and intracellular infections. A total of 17 full-length protein sequences from different farm animals were retrieved from NCBI database. Sequence analysis such as multiple sequence alignment (MSA), conserved motif identification, computation of amino acid composition, and phylogenetic tree construction were performed on these primary sequences. Phylogenetic tree indicated three subclusters comprising ruminant species, animals from equidae genius and swine individuals respectively. In silico analysis of interferon gamma from Bos taurus revealed that it is a thermostable, alkaline protein having molecular weight of about 20 kDa, having mainly two predicted conserved domains that belong to the Interferon gamma superfamily and to PKc_like superfamily. Prediction of motifs, patterns, disulphide bridges and secondary structure were performed for functional characterization. The 3D structure and protein model were developed by the use of Swiss Model, iTAsser, Phyre2 and RaptorX, and were validated using protein structure checking tools PROCHECK, ERRAT and QMEAN, which indicated that the model generated by Swiss Model was more acceptable
interferons. Interferon, IFN gamma plays an important role in generating immunity against viruses and intracellular infections. A total of 17 full-length protein sequences from different farm animals were retrieved from NCBI database. Sequence analysis such as multiple sequence alignment (MSA), conserved motif identification, computation of amino acid composition, and phylogenetic tree construction were performed on these primary sequences. Phylogenetic tree indicated three subclusters comprising ruminant species, animals from equidae genius and swine individuals respectively. In silico analysis of interferon gamma from Bos taurus revealed that it is a thermostable, alkaline protein having molecular weight of about 20 kDa, having mainly two predicted conserved domains that belong to the Interferon gamma superfamily and to PKc_like superfamily. Prediction of motifs, patterns, disulphide bridges and secondary structure were performed for functional characterization. The 3D structure and protein model were developed by the use of Swiss Model, iTAsser, Phyre2 and RaptorX, and were validated using protein structure checking tools PROCHECK, ERRAT and QMEAN, which indicated that the model generated by Swiss Model was more acceptable
Keywords: in silico analysis; phylogeny; protein model; structure validation
Date published: 2020-10-02
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