Identification of Chloroplast Proteins by nanoLC-LTQ-Orbitrap.

aThree independent chloroplast preparations (∼30 plants used for each); S – enriched for chloroplast soluble proteins; T-enriched for thylakoid proteins; LM – low-density membrane fraction; R – denotes technical replicate.
bNumber of un-ambiguous protein identification, i.e. several proteins that have the same set of peptides, are counted as one identification; only one gene model per accession was selected.
cPercent of proteins predicted by TargetP; Chloroplast (C), Signal peptide (S), Mitochondria (M), Other (O).
dNumber of identified unique peptide sequences (ignoring charge state); number of unique peptide sequences (ignoring different charge states) is shown in parentheses for the combined dataset.
eNumber of tandem MS spectra matched to peptide sequences.
fNumber of tandem MS spectra associated with unique peptides; i.e. those peptides that are not shared between different accessions. Peptides representing a protein ambiguous group, which was reported as one identification were considered unique for this group.