Table II

Comparison of protein sequence using different digestion protocols

ProteinTube-Gel digestion with 2% SDSTube-Gel digestion without SDSIn-solution digestion without SDS
Bacteriorhodopsina5 peptides/21%0 peptides/0%0 peptides/0%
Ubiquitinb10 peptides/86%0 peptide/0%0 peptide/0%
Myoglobinc12 peptides/84%6 peptides/52%7 peptides/50%
  • a Bacteriorhodopsin (28 kDa), 400 ng of which was digested and 20 ng (∼700 fmol) of which was analyzed by LC-MS/MS.

  • b Ubiquitin (8.6 kDa), 130 ng of which was digested and 2.6 ng (∼300 fmol) of which was analyzed by LC-MS/MS.

  • c Myoglobin (17 kDa), 1.3 μg of which was digested and 13 ng (∼700 fmol) of which was analyzed by LC-MS/MS.