Shotgun collision-induced dissociation of peptides using a time of flight mass analyzer.
Parallel collision-induced dissociation (CID) of peptides rather than serial, as is customary, results in loss of the obvious parent-fragment ion lineage available from CID on a single ion. We report proof-of-principle results suggesting the feasibility of parallel peptide CID, referred to here as shotgun CID, for protein identification when using the measured mass accuracies available from a time of flight mass analyzer and currently available search routines such as SEQUEST. Additionally, we report that parent-fragment ion lineage may be reconstructed from information encoded in the chromatographic single ion current traces of peptides.
Purvine
Samuel
S
The Institute for Systems Biology, Seattle, WA 98105, USA.
Eppel
Jason-Thomas
JT
Yi
Eugene C
EC
Goodlett
David R
DR
D005240:Feasibility Studies; D013058:Mass Spectrometry / Q000379:methods; D010446:Peptide Fragments / Q000737:chemistry; D010455:Peptides / Q000737:chemistry*; D029701:Saccharomyces cerevisiae Proteins / Q000302:isolation & purification; D019032:Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / Q000379:methods*
D010446:Peptide Fragments; D010455:Peptides; D029701:Saccharomyces cerevisiae Proteins