Peptide:
N-glycanase (PNGase) is an enzyme responsible for deglycosylation of misfolded glycoproteins in so-called endoplasmic reticulum-associated degradation (ERAD) system. In this study, we reported the molecular identification and characterization of
SpPNGase (
Schizosaccharomyces pombe PNGase). Enzymatic analysis revealed that
SpPNGase deglycosylated the misfolded glycoproteins and distinguished native and denatured high-mannose glycoproteins
in vitro. The deglycosylation activity was lost with the addition of chelating agent EDTA and was not restored by re-addition of metal ions. By construction of deletion mutant, we confirmed that N-terminal
-helix of
SpPNGase was responsible for the protein–protein interaction. Combining the results from ternary structure prediction and dendrogram analysis, we suggested that the N-terminal
-helices of PNGase are derived from evolutionary motif/peptide fusion.