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Please include the following statement when referencing the CPTAC Assay Portal
We would like to acknowledge the National Cancer Institute’s Clinical Proteomic Tumor Analysis Consortium (CPTAC) Assay Portal (assays.cancer.gov) for developing assays and establishing criteria for the assays described in this publication.

Overview Data source: UniProt

Official Gene Symbol Other Aliases
PDCD1 PD1
Sequence Length (AA) Molecular Weight (Da)
288 31647
Protein Name
Programmed cell death protein 1
Sources
UniProt
PhosphoSitePlus ®
GeneCards
Human Protein Atlas

Protein Sequence hover to view complete sequence

10 20 30 40 50
MQIPQAPWPV VWAVLQLGWR PGWFLDSPDR PWNPPTFSPA LLVVTEGDNA
60 70 80 90 100
TFTCSFSNTS ESFVLNWYRM SPSNQTDKLA AFPEDRSQPG QDCRFRVTQL
110 120 130 140 150
PNGRDFHMSV VRARRNDSGT YLCGAISLAP KAQIKESLRA ELRVTERRAE
160 170 180 190 200
VPTAHPSPSP RPAGQFQTLV VGVVGGLLGS LVLLVWVLAV ICSRAARGTI
210 220 230 240 250
GARRTGQPLK EDPSAVPVFS VDYGELDFQW REKTPEPPVP CVPEQTEYAT
260 270 280 288
IVFPSGMGTS SPARRGSADG PRSAQPLRPE DGHCSWPL

Data source: UniProt


Position of Targeted Peptide Analytes Relative to SNPs, Isoforms, and PTMs

Uniprot Database Entry PhosphoSitePlus ®

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to view detailed assay information below
All other points link out to UniProt



Phosphorylation Acetylation Ubiquitylation Other

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Assay Details for CPTAC-6208 Collapse assay details

Data source: Panorama

Official Gene Symbol
PDCD1
Peptide Sequence
LAAFPEDR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
7
Peptide Start
79
Peptide End
86
CPTAC ID
CPTAC-6208
Peptide Molecular Mass
917.4607
Species
Homo Sapiens
Assay Type
Enrichment MRM
Enrichment Method
Peptide Immunoaffinity
Matrix
Frozen tissue
Submitting Laboratory
Fred Hutchinson Cancer Research Center
Submitting Lab PI
Amanda Paulovich

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
QTRAP 5500
Internal Standard
Extended heavy peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
Eksigent
Column Packing
Reprosil C18, 3um
Column Dimensions
75µm x 15cm
Flow Rate
0.3 µL/min

Chromatograms

Data source: Panorama


Response Curves

Data source: Panorama

Retrieving Data

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Repeatability

Data source: Panorama

  Average intra-assay CV
(within day CV)
Average inter-assay CV
(between day CV)
Total CV
equation
n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
y4 (1+) 5 2 4.9 5 2.9 16.7 7.1 3.5 17.4 15 15 15
y5 (1+) 4.7 2.1 2.9 4.8 2.6 8.2 6.7 3.3 8.7 15 15 15
b4 (1+) 5 2.9 3.3 5.6 2.7 6.3 7.5 4 7.1 15 15 15
y5 (2+) 5.3 2.6 3.1 5.4 3.2 4.3 7.6 4.1 5.3 15 15 15
sum 4.8 2 3.7 4.9 2.6 11.3 6.9 3.3 11.9 15 15 15


Additional Resources and Comments