Fig. 1.

Missed cleavages in peptides. A large-scale honey bee LC-MS/MS dataset was acquired on an LTQ-OrbitrapXL as described (5) and searched using MaxQuant against two different protein libraries: (1) all Apis mellifera protein sequences plus sequences from Israeli Acute Paralysis Virus, Kashmir Bee Virus, Black Queen Cell Virus, Invertebrate Iridescent Virus 6, Deformed Wing Virus, and Acute Bee Paralysis Virus, or (2) just the above mentioned virus sequences. The number of missed trypsin cleavages (defined as the count of internal R or K residue except those followed by a P) was then evaluated in the results from these two searches (black bars for search #1, dark grey bars for search #2), as well as the list of peptides provided by Bromenshenk et al. (light grey bars).