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Table 1 Characteristics of peptide products following digestion of the yeast proteome with different agents.

From: In silico proteome analysis to facilitate proteomics experiments using mass spectrometry

 

Endo AspN

CNBr

Chymotrypsin

Trypsin* (no missed cleavages)

Trypsin (zero or one missed cleavages)

Trypsin (zero, one or two missed cleavages)

Trypsin and chymo-trypsin

Total number of peptides in proteome

150,427

59,702

216,969

291,203

593,88

930,613

411,401

Mean peptide mass (isotopic)

2192.5

5554.2

1496.7

1229.2

1637.4

2078.5

614.1

Mean number of peptides per protein

24.2

9.6

35.0

41.9

95.7

150.0

66.3

  1. *Idealized digestion criteria were used (in the laboratory, the rules governing cleavage may be more complex – for instance trypsin rarely cuts after arginine or lysine when the distal residue is proline). Here, the criteria used were: EndoAspN (X-D), CNBr (X-M), Chymotrypsin (X-L, X-F, X-Y, X-W), trypsin (K-X, R-X).
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Proteome Science

ISSN: 1477-5956