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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
PDPK1 PDK1
Sequence Length (AA) Molecular Weight (Da)
556 63152
Protein Name
3-phosphoinositide-dependent protein kinase 1
Sources
UniProt
PhosphoSitePlus ®
GeneCards
Human Protein Atlas

Protein Sequence hover to view complete sequence

10 20 30 40 50
MARTTSQLYD AVPIQSSVVL CSCPSPSMVR TQTESSTPPG IPGGSRQGPA
60 70 80 90 100
MDGTAAEPRP GAGSLQHAQP PPQPRKKRPE DFKFGKILGE GSFSTVVLAR
110 120 130 140 150
ELATSREYAI KILEKRHIIK ENKVPYVTRE RDVMSRLDHP FFVKLYFTFQ
160 170 180 190 200
DDEKLYFGLS YAKNGELLKY IRKIGSFDET CTRFYTAEIV SALEYLHGKG
210 220 230 240 250
IIHRDLKPEN ILLNEDMHIQ ITDFGTAKVL SPESKQARAN SFVGTAQYVS
260 270 280 290 300
PELLTEKSAC KSSDLWALGC IIYQLVAGLP PFRAGNEYLI FQKIIKLEYD
310 320 330 340 350
FPEKFFPKAR DLVEKLLVLD ATKRLGCEEM EGYGPLKAHP FFESVTWENL
360 370 380 390 400
HQQTPPKLTA YLPAMSEDDE DCYGNYDNLL SQFGCMQVSS SSSSHSLSAS
410 420 430 440 450
DTGLPQRSGS NIEQYIHDLD SNSFELDLQF SEDEKRLLLE KQAGGNPWHQ
460 470 480 490 500
FVENNLILKM GPVDKRKGLF ARRRQLLLTE GPHLYYVDPV NKVLKGEIPW
510 520 530 540 550
SQELRPEAKN FKTFFVHTPN RTYYLMDPSG NAHKWCRKIQ EVWRQRYQSH
556
PDAAVQ

Data source: UniProt


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

Uniprot Database Entry PhosphoSitePlus ®

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All other points link out to UniProt



Phosphorylation Acetylation Ubiquitylation Other

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Assay Details for CPTAC-1540 Collapse assay details

Data source: Panorama

Official Gene Symbol
PDPK1
Peptide Sequence
QLLLTEGPHLYYVDPVNK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
475
Peptide End
492
CPTAC ID
CPTAC-1540
Peptide Molecular Mass
2,098.1099
Species
Homo sapiens (Human)
Assay Type
Direct MRM or SRM
Matrix
Ovarian cancer tumor tissue lysate
Submitting Laboratory
Pacific Northwest National Laboratory
Submitting Lab PI
Tao Liu

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
TSQ Vantage
Internal Standard
peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
Waters nanoACQUITY (Part Number 176016000)
Column Packing
Waters BEH C18, 1.7 um 130 Å (Part Number 186007485)
Column Dimensions
100 um x 100 mm
Flow Rate
0.5 uL/min

Assay Multiplexing Expand assay panel

Pacific Northwest National Laboratory-DirectSRM2


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+) 5.5 4.8 3.3 14.3 5.4 11.3 15.3 7.2 11.8 15 15 15
y16 (2+) 5.8 3.1 3.7 15.2 4.6 10.3 16.3 5.5 10.9 15 15 15
y15 (2+) 10.7 3.5 4.1 17.7 3.7 11.1 20.7 5.1 11.8 15 15 15
y14 (2+) 5.6 4.1 1.8 17.3 6 12 18.2 7.3 12.1 15 15 15
sum 3.8 3.5 2.2 15.4 4.8 11.1 15.9 5.9 11.3 15 15 15


Additional Resources and Comments


Assay Details for CPTAC-1052 Collapse assay details

Data source: Panorama

Official Gene Symbol
PDPK1
Peptide Modified Sequence
ANS[+80.0]FVGTAQYVSPELLTEK
Modification Type
Phospho (ST)
Protein - Site of Modification
241
Peptide - Site of Modification
3
Peptide Start
239
Peptide End
257
CPTAC ID
CPTAC-1052
Peptide Molecular Mass
2,133.0031
Species
Homo sapiens (Human)
Assay Type
Direct MRM or SRM
Matrix
Pooled patient derived xenograft breast tumor digest
Submitting Laboratory
Washington University in St. Louis
Submitting Lab PI
Reid Townsend

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
TripleTOF 5600+ (SCIEX)
Internal Standard
Peptide
Peptide Standard Purity
Crude
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
2DPlus nano-LC (Eksigent)
Column Packing
ChromXP C18-CL, 3 µm, 120 Å
Column Dimensions
200 µm x 15 cm
Flow Rate
800 nL/min

Assay Multiplexing Expand assay panel

Pacific Northwest National Laboratory-DirectSRM2


Chromatograms

Data source: Panorama


Response Curves

Data source: Panorama

Retrieving Data

Loader

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
y9 (1+) 76 29.6 20 81.5 41 17.4 111.4 50.6 26.5 15 15 15
y6 (1+) 67.2 36.8 18.6 72.5 39.6 30 98.9 54.1 35.3 15 15 15
y5 (1+) 48.5 23.2 20.7 49.7 37.4 21.9 69.4 44 30.1 15 15 15
sum 36.7 16.3 10.7 44.4 26.2 12.8 57.6 30.9 16.7 15 15 15


Additional Resources and Comments