Structural and functional analysis of cytochrome b protein of Indian major carps Labeo rohita

Abstract

Mitochondrial Cytochrome b is a monomeric, monoheme protein which is found in eukaryotic cells that facilitate electron transport during cellular respiration. In this present study cytochrome b protein of Labeo rohita was selected for a detailed computational investigation to exploit its physicochemical characteristics, structural properties including 3D model, model quality analysis, phylogenetic assessment and functional analysis using several available standard Bioinformatics tools. Physiochemical characterization was performed for identification of protein by computing theoretical isoelectric point (pI), molecular weight, extinction coefficient, instability index and aliphatic index etc. Secondary structure assessment of cytochrome b protein of Labeo rohita used PSIPRED and revealed a greater percentage of residues as the alpha helix. This protein having an average molecular weight about 42781.76 Da was found thermostable and alkaline and belonging to a metal enzyme. After prediction, the structure has been validated through Ramachandran plot and Rampage validation tools, this homology modelling based structure will provide an in site to its functional aspects. And then we used different standard server for active site prediction and found an active site. After that, we get the protein-protein interaction site through the string server. And finally submit this predicted 3D model in PDBM server and we get an accession no. PMID: PM0081835.