PDK1, CPTAC-2843 - 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
PDK1	PDHK1

Sequence Length (AA)	Molecular Weight (Da)
436	49244

Protein Name
[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 1, mitochondrial

Sources
UniProt PhosphoSitePlus ® GeneCards	Human Protein Atlas

Protein Sequence hover to view complete sequence

10	20	30	40	50
MRLARLLRGA	ALAGPGPGLR	AAGFSRSFSS	DSGSSPASER	GVPGQVDFYA
60	70	80	90	100
RFSPSPLSMK	QFLDFGSVNA	CEKTSFMFLR	QELPVRLANI	MKEISLLPDN
110	120	130	140	150
LLRTPSVQLV	QSWYIQSLQE	LLDFKDKSAE	DAKAIYDFTD	TVIRIRNRHN
160	170	180	190	200
DVIPTMAQGV	IEYKESFGVD	PVTSQNVQYF	LDRFYMSRIS	IRMLLNQHSL
210	220	230	240	250
LFGGKGKGSP	SHRKHIGSIN	PNCNVLEVIK	DGYENARRLC	DLYYINSPEL
260	270	280	290	300
ELEELNAKSP	GQPIQVVYVP	SHLYHMVFEL	FKNAMRATME	HHANRGVYPP
310	320	330	340	350
IQVHVTLGNE	DLTVKMSDRG	GGVPLRKIDR	LFNYMYSTAP	RPRVETSRAV
360	370	380	390	400
PLAGFGYGLP	ISRLYAQYFQ	GDLKLYSLEG	YGTDAVIYIK	ALSTDSIERL
410	420	430	436
PVYNKAAWKH	YNTNHEADDW	CVPSREPKDM	TTFRSA

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-2843 Collapse assay details

Data source: Panorama

Official Gene Symbol: PDK1
Peptide Modified Sequence: HIGSINPNC[+57.0]NVLEVIK
Modification Type: Carbamidomethyl (C)
Protein - Site of Modification: 223
Peptide - Site of Modification: 9
Peptide Start: 215
Peptide End: 230

CPTAC ID: CPTAC-2843
Peptide Molecular Mass: 1,805.9458
Species: Homo sapiens (Human)
Assay Type: Direct PRM
Matrix: Tumor Digest
Submitting Laboratory: Washington University in St. Louis
Submitting Lab PI: Reid Townsend

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument: ThermoFisher, Q-Exactive™
Internal Standard: 25 fmol on column
Peptide Standard Purity: >95%
Peptide Standard Label Type: 13C and 15N at C-terminus K

LC: EASY-nLC™ 1000 Thermo Scientific
Column Packing: C18
Column Dimensions: 75 µm x 50 cm
Flow Rate: 300 nl/min

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
y7 (1+)	30.6	4.7	8.7	45.9	4.4	9.1	55.2	6.4	12.6	15	15	15
b4 (1+)	29.8	4.8	9.6	48.1	5.3	10.7	56.6	7.2	14.4	15	15	15
b6 (1+)	8.6	4	6.1	19	4.6	9.9	20.9	6.1	11.6	15	15	15
sum	12.8	3.9	6.1	25.4	4.4	9.3	28.4	5.9	11.1	15	15	15

Additional Resources and Comments

Resources

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View Peptide in Panorama

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Comments

Assay Details for CPTAC-2889 Collapse assay details

Data source: Panorama

Official Gene Symbol: PDK1
Peptide Sequence: LYAQYFQGDLK
Modification Type: unmodified
Protein - Site of Modification: N/A
Peptide - Site of Modification: N/A
Peptide Start: 364
Peptide End: 374

CPTAC ID: CPTAC-2889
Peptide Molecular Mass: 1,344.6714
Species: Homo Sapiens
Assay Type: Direct PRM
Matrix: Tumor Digest
Submitting Laboratory: Washington University in St. Louis
Submitting Lab PI: Reid Townsend