PCR Amplification and In-Silico Analysis of Putative Boiling Stable Protein Encoding Genes from Invasive Alien Plant Lantana camara

Abstract

Lantana camara, a noxious weed flourishing worldwide is one of the world’s 10 worst weed causing biological pollution. In this study, we amplified and sequenced stress responsive boiling stable protein encoding genes from leaves of L. camara. We also describe in-silico characterization and molecular modeling of LCDHY hydrophilic protein through homology search, secondary structure prediction, active site prediction and 3D structure analysis. Clustal W analysis showed the presence of conserved amino acid sequence. 3D structure was predicted using Swiss-model server and homology modeling. Structure was refined by energy minimization and stereo-chemical qualities validated with PROCHECK, VADAR, QMEAN servers. Active sites were predicted form target protein structure. NEST analysis revealed structural motifs in functionally important regions of protein structure. Based on gene ontology (GO) terms in ProFunc server, putative functions of modeled LCDHY protein were predicted.