Fig. 1.

Sequence coverage and ratio of matched/total fragment ions as a function of ion activation parameters. Fig. 1A and 1B show the sequence coverage for the three standard proteins ubiquitin (8.5 kDa), myoglobin (17 kDa) and carbonic anhydrase (29 kDa) as a function of normalized collision energy and number of laser pulses for HCD and UVPD, respectively. Fig. 1C and 1D show the ratio between matched and total fragment ions as a function of the same parameters for HCD and UVPD, respectively. For each protein, multiple charge states (listed in the Experimental section) were fragmented, and plotted results were obtained by averaging the values relative to each interrogated charge state using a certain fragmentation energy/number of laser pulses. Error bars correspond to standard deviation.