Table 1.

Alternative proteases employed in shotgun proteomics.

Protease	Family	Cleavage Site	Application	Reference
LysC	Serine protease	C-terminal of K	Used in combination with trypsin to improve digestion efficiency	[57]
GluC	Serine protease	C-terminal of E (at pH 4) C-terminal of D (at pH 8)	Analysis of glycated proteins	[42]
Chymotrypsin	Serine protease	C-terminal of F, Y, L, W and M	Analysis of proteins transmembrane regions	[51,52]
LysN	Metalloprotease	N-terminal of K	Analysis of N-terminal modifications	[44]
AspN	Metalloprotease	N-terminal of D	Used in combination with other enzymes to improve digestion efficiency	[49,58]
ArgC	Cysteine protease	C-terminal of R	Used in combination with other enzymes to improve digestion efficiency and analyze C-termini of proteins	[47,50]