PDPK1, CPTAC-1540 - CPTAC Assay Portal | Office of Cancer Clinical Proteomics Research

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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

Protein Map Collapse protein map

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

Uniprot Database Entry PhosphoSitePlus ®

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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

CPTAC-1538: PIK3R2. ALGATFGPLLLR	CPTAC-1539: PIK3R1. FSAASSDNTENLIK	CPTAC-1540: PDPK1. QLLLTEGPHLYYVDPVNK
CPTAC-1541: MAPK1. VADPDHDHTGFLTEYVATR	CPTAC-1542: MAPK3. IADPEHDHTGFLTEYVATR	CPTAC-1543: MAP2K2. ISELGAGNGGVVTK
CPTAC-1544: MAP2K1. ISELGAGNGGVVFK	CPTAC-1545: MAP2K1. LIHLEIKPAIR	CPTAC-1546: RAF1. TISNGFGFK
CPTAC-1547: ARAF. TQHC[+57.0]DPEHFPFPAPANAPLQR	CPTAC-1548: RASA1. LLAITELLQQK	CPTAC-1549: NRAS. SFADINLYR
CPTAC-1550: KRAS. SFEDIHHYR	CPTAC-1551: HRAS. LVVVGAGGVGK	CPTAC-1552: HRAS. SFEDIHQYR
CPTAC-1553: SOS2. LPGYSSAEYR	CPTAC-1554: SOS1. LPSADVYR	CPTAC-1555: SOS1. EYIQPVQLR
CPTAC-1556: PTPN11. SNPGDFTLSVR	CPTAC-1557: GAB1. LTGDPDVLEYYK	CPTAC-1558: GRB2. ATADDELSFK
CPTAC-1559: SHC1. EAISLVC[+57.0]EAVPGAK	CPTAC-1560: EGFR. LTQLGTFEDHFLSLQR	CPTAC-1561: ADAM17. NIYLNSGLTSTK
CPTAC-1562: SHOC2. LDSLTTLYLR	CPTAC-1563: SPRED1. VPHQEENGC[+57.0]ADFFIR	CPTAC-1564: DUSP6. DSTNLDVLEEFGIK
CPTAC-1565: DUSP4. GSVSLEQILPAEEEVR	CPTAC-1566: ERRFI1. NSPSLFPC[+57.0]APLC[+57.0]ER	CPTAC-1567: CBL. GTEPIVVDPFDPR
CPTAC-1568: PEBP1. VLTPTQVK	CPTAC-1569: PTPRE. TGTFIALSNILER	CPTAC-1570: SPRY4. LQHPLTILPIDQVK

Chromatograms

Data source: Panorama

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Response Curves

Data source: Panorama

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Retrieving Data

Repeatability

Data source: Panorama

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	Average intra-assay CV (within day CV)			Average inter-assay CV (between day CV)			Total CV			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

Resources

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View Peptide in Panorama

View Protein in Panorama

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