Each results report will contain:
•Chromatogram for sample
•All proteins identified with probability <1.0
Reported as Excel file
•List of peptides identified for each protein
•Amino acid coverage of each protein identified
Example of a chromatogram (peptide with 12.6 min retention time highlighted in red)
Example of proteins identified in sample
1
2
Protein
P
(Probability)
Sf
Score
MW
Accession #
Peptide (Hits)
Tetranectin precursor
2.07 x 10-11
30.56
206.40
22552.3
IPI00009028.1
270 (87 53 49 52 29)
Isoform 1 of Protein
1.16 x 10-3
2.23
52.18
81810.8
IPI00029196.6
kinase C theta type
Probability – lower the number, the higher the probaility of a match
Sf – final score indicates how good the protein match is
Score – Value based on the probability that the peptide is a random match to the spectral data
MW – Molecular weight of the protein
Accession # - Unique protein identification number for the sequence
Peptide (Hits) – Total number of peptide matches
68 (2 4 5 23 34)
Example of amino acid sequence coverage (in red) of a protein identified in sample
Example of Excel file included in a report. Protein parameters are shaded in grey. Includes peptides (partial list shown)
identified for that protein
Protein
Identification
(P) Probability –
lower the number,
the higher the
probaility of a match
Sf – final score
indicates how good
the protein match is
Score – Value based
on the probability
that the peptide is a
random match to the
spectral data
MW – Molecular
weight of the protein
Accession # - Unique
protein identification
number for the
sequence
Peptide (Hits) – Total
number of peptide
matches
Peptide Identification
MH+
P(pep)
Sf
XC
DeltaCn
Sp
RSp
Ions
Protein and peptide parameters of the results
Protein
(grey
shade)
Peptide
P, Probability for
protein (pro) or
peptide (pep) –
lower the
number, the
higher the
probability of a
match
MH+ molecular
weight of the
peptide
Sf – final
score
indicates
how good
the protein
or peptide
match is
Score – Value
based on the
probability
that the
peptide is a
random
match to the
spectral data
XC - Crosscorrelation
value
between
observed and
theoretical
peptide
fragment
mass
spectrum
DeltaCn –
change in
crosscorrelation
between the
first and the
nth peptide
match, where
n = peptide
hit number
MW –
Molecular
weight of the
protein
Accession # Unique
protein
identification
number for
the sequence
Peptide (Hits)
– Total
number of
peptide
matches
Sp –
Preliminary
score, % of
peptide
fragment ions
in MS/MS
spectrum
that match
with the
experimental
data
Rsp – Ranking
of match
during Sp
scoring
Ions –
Matched
ions/Total
number of
theoretical
ions
Count –
Number of
duplicate
entries per
.dta file
MS/MS fragment ion matches for peptide fragment K.NWETEITAQPDGGK.T with 12.6 min
retention time. Specific fragment ion matches can be included in report at your request.
The list of B and Y ions as
they match against the
experimental data
(matched B ions – red,
matched Y ions – blue)
The mass errors
of the
measurement.
MS/MS data of
fragment ions
that matched
theoretical data
of database