Characterization of Nicotine Degradation Associated Proteins in Paenarthrobacter nicotinovorans: An In-Silico Analysis
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Use of nicotine degrading bacteria (NDB) to degrade nicotine from tobacco waste contaminated soil is emerging as the most promising strategy. In the current study, three nicotine degradation associated proteins from NDB Paenarthrobacter nicotinovorans i. e., nicotine dehydrogenase (ndhA), 6-hydroxypseudooxynicotine dehydrogenase (kdhL), and nicotine blue oxidoreductase (nboR) were characterized. For this purpose, coding sequences (CDS) were retrieved from Uniprot database. These sequences were then subjected to analysis via PROTPARAM tool, Multiple Em for Motif Elicitation (MEME) suite, SOPMA, SwissModel, Transmembrane Topology Prediction and Classification (TMHMM), and Peptide cutter software. Characterization revealed values of alpha helix, extended strands, and random coil ranging between (29-44%), (14.49-21.08%), and (40.99-53.65%), respectively. Instability index, aliphatic index, and grand average of hydropathy (GRAVY) were observed as 26.76-44%, 91.06-101.32%, and -0.176- 0.091%, respectively. All the proteins exhibited highly complex 3D configuration and multiple number of conserved protein motifs. The number of cleavage sites analyzed for nghA, kdhL, and nboR was 515, 1313, and 313, respectively. The characteristics explored in the current study might be used to modify these proteins in order to maximize nicotine removal from environmental sources.
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