2.3.4 ǀ Prediction of post-translational modifications (PTMs) in cpOAS1
Online prediction servers available at the center for biological sequence analysis (CBS), Technical University of Denmark (http://www.cbs.dtu.dk/) were used to predict C-mannosylation sites (NetCGlyc 1.0 server)39, N-terminal acetylationsites40 (NetAcet 1.0 server), glycosylphosphatidylinositol anchoring41(GPI-anchoring or glypiation; NetGPI-1.1 server), N-linked glycosylation sites (NetNGlyc1.0 server; http://www.cbs.dtu.dk/services/NetNGlyc/), mucin-type GalNAc O-glycosylation sites42 (NetOGlyc - 4.0), Glycation of amino groups of lysines43 (NetGlycate 1.0 server), phosphorylation sites44 (both generic and kinase-specific predictions; NetPhos-3.1 server) and arginine and lysine propeptide cleavage sites45 (ProP 1.0 server). Prediction of acetylation on internal lysines (PAIL) of cpOAS1 protein was done using PAIL software46. The fourth-generation GPS algorithm integrated with the particle swarm optimization (PSO)47 method was employed for the prediction of sumoylation sites in the cpOAS1 protein. Disulfide bridges were predicted in the cpOAS1 protein sequence using CYS_REC (http://www.softberry.com/cgi-bin/ programs/propt/cys_rec) tool.