In silico sequence analysis, homology modeling and functional annotation of pectate lyase enzyme from Colletotrichum gloeosporioides (Penz.) Penz. & Sacc.

Abstract

Protein structure is more evolutionary conserved than a DNA sequence. To gain more insight into the molecular mechanisms of Colletotrichum gloeosporioides pathogenesis, we analyzed a pectate lyase gene sequence at molecular level using bioinformatics approaches. We evaluated the sequence information of pectate lyase enzyme retrieved from NCBI database. We also interpreted its homology modeling, functional annotation. Based on homology modeling, three dimensional (3D) structure of the gene was constructed and interpreted. Several validation tests were computed to check the reliability of 3D structure. We found conserved domains in pectate lyase protein. These conserved domains have significant role for plant pathogens that use a set of pectate lyases as their main virulence factor and to initiate the symbiosis activity in different organism. The study has clear implications to annotate the role of pectate lyase gene and linked proteins associated. More insights into the structure of the gene will lead to annotate the role of this gene in different biological pathways.

Keywords: Pectate lyase, Colletotrichum gloeosporioides, sequence information, bioinformatics tools