Prion protein family interactome in mouse neuroblastoma cells.

aCandidate interactors are listed in order, with the position of a given protein in the table reflecting the percentage of primary structure corresponding to the combined unique CID spectra. In instances where a subset of CID spectra were matched to more than one isoform or member of a protein family, only the highest scoring entry was selected unless an independent identification was supported by at least two unique CID spectra. Proteins were sorted into specific versus unspecific binder categories based on their iTRAQ distribution, i.e. proteins were considered unspecific interactors if their derived CID spectra revealed iTRAQ114 signature mass peak signal intensities which exceeded 15% of combined and normalized (100%) intensities for iTRAQ114-117 mass peaks. Only specific interactors are shown in this table. The complete dataset can be viewed in Table S1.
bOnly CID spectra underlying different peptides were considered, i.e. if the same peptide was identified with different charge states or modifications it counted as one hit.
cTotal number of unique CID spectra. Please note that the same peptide was only counted more than once if it was identified with different charge states or modifications.
dPercent sequence coverage based on the presence of peptides for which no higher ranked assignment to other proteins could be made.
eFor the calculation of iTRAQ values the intensity of individual peptide associated iTRAQ signature peaks was normalized to combine to 100% per peptide and subsequently averaged. Standard deviations were determined and are listed in Table S1.
Bait proteins are shown in bold font.