The Protein Profile View page lists all proteins, including isoforms, identified by peptides in the assay. Bear in mind that a peptide might map to more than one protein isoform. Use the Parsimony View to explore these relationships.
Click on the protein name to view peptides mapping to that protein.
Use the filter box to limit the table listing to proteins with the string entered. For example, if you are looking for heat shock proteins, start typing HSP or heat shock proteins... to narrow the list.
The columns in the protein profile table are:
Protein Name - the accession value or identifier of the protein, usually a UniPort accession. Hover to see a pop-up of the gene name and description.
log (E-value) - the base 10 log of the Expectation score for the protein. A minimum cutoff of 0.01 (log transformed to -2) is usually applied. Lower values are better. A score of -2 corresponds to a 1 in 100 chance of the assignment occurring by chance.
Intensity - the base 10 log of the intensity of the area under the curve (AUC) of the extracted ion chromtatogram of all unique peptide sequences (and modified peptides) which map to this protein.
Peptides - the number of different peptide sequences mapping to this protein.
Identifications - the number of identifications for this protein. The same peptide may be identified multiple times as a result of sequencing different charge states, identification by different search algorithms or when the peptide is highly abundant and its elution exceeds the exclusion time window applied.
Spectral Counts - the number of mass spectrometer scans leading to a peptide identification.
Coverage - the percent sequence coverage of the protein based on the number of residues present in identified peptides vs. the number not present.
External Links - link outs to Ensembl and UniProt for this protein.