Integration of residue-specific acid cleavage into proteomic workflows.
Microwave-accelerated proteolysis using acetic acid has been shown to occur specifically on either or both sides of aspartate residues. This chemical cleavage is applied to the yeast ribosome proteome to evaluate its suitability for incorporation into high-throughput automated workflows. Peptide product mixtures were analyzed using either an HPLC-ESI-LTQ-Orbitrap or an HPLC-MALDI-TOF2. The peptides were readily identified, using MASCOT with a modified enzyme rule, and provided information about 73% of the proteome. Implications are considered of the extended length and the presence of multiple basic residues in these peptides.
Swatkoski
Steven
S
Department of Chemistry and Biochemistry, University of Maryland, College Park, Maryland 20742, USA.
Gutierrez
Peter
P
Ginter
Joy
J
Petrov
Alexey
A
Dinman
Jonathan D
JD
Edwards
Nathan
N
Fenselau
Catherine
C
D000595:Amino Acid Sequence; D002851:Chromatography, High Pressure Liquid; D005656:Fungal Proteins / Q000737:chemistry; D013058:Mass Spectrometry / Q000379:methods; D008872:Microwaves; D008969:Molecular Sequence Data; D010449:Peptide Mapping; D010455:Peptides / Q000737:chemistry*; D020543:Proteome; D040901:Proteomics / Q000379:methods*; D012270:Ribosomes / Q000737:chemistry / Q000378:metabolism; D021241:Spectrometry, Mass, Electrospray Ionization; D014357:Trypsin / Q000737:chemistry
D005656:Fungal Proteins; D010455:Peptides; D020543:Proteome; D014357:Trypsin