PAK4, CPTAC-5891 - 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
PAK4	KIAA1142

Sequence Length (AA)	Molecular Weight (Da)
591	64072

Protein Name
Serine/threonine-protein kinase PAK 4

Sources
UniProt PhosphoSitePlus ® GeneCards	Human Protein Atlas

Protein Sequence hover to view complete sequence

10	20	30	40	50
MFGKRKKRVE	ISAPSNFEHR	VHTGFDQHEQ	KFTGLPRQWQ	SLIEESARRP
60	70	80	90	100
KPLVDPACIT	SIQPGAPKTI	VRGSKGAKDG	ALTLLLDEFE	NMSVTRSNSL
110	120	130	140	150
RRDSPPPPAR	ARQENGMPEE	PATTARGGPG	KAGSRGRFAG	HSEAGGGSGD
160	170	180	190	200
RRRAGPEKRP	KSSREGSGGP	QESSRDKRPL	SGPDVGTPQP	AGLASGAKLA
210	220	230	240	250
AGRPFNTYPR	ADTDHPSRGA	QGEPHDVAPN	GPSAGGLAIP	QSSSSSSRPP
260	270	280	290	300
TRARGAPSPG	VLGPHASEPQ	LAPPACTPAA	PAVPGPPGPR	SPQREPQRVS
310	320	330	340	350
HEQFRAALQL	VVDPGDPRSY	LDNFIKIGEG	STGIVCIATV	RSSGKLVAVK
360	370	380	390	400
KMDLRKQQRR	ELLFNEVVIM	RDYQHENVVE	MYNSYLVGDE	LWVVMEFLEG
410	420	430	440	450
GALTDIVTHT	RMNEEQIAAV	CLAVLQALSV	LHAQGVIHRD	IKSDSILLTH
460	470	480	490	500
DGRVKLSDFG	FCAQVSKEVP	RRKSLVGTPY	WMAPELISRL	PYGPEVDIWS
510	520	530	540	550
LGIMVIEMVD	GEPPYFNEPP	LKAMKMIRDN	LPPRLKNLHK	VSPSLKGFLD
560	570	580	590	591
RLLVRDPAQR	ATAAELLKHP	FLAKAGPPAS	IVPLMRQNRT	R

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-5891 Collapse assay details

Data source: Panorama

Official Gene Symbol: PAK4
Peptide Modified Sequence: RPLS[+79.966331]GPDVGTPQPAGLASGAK
Modification Type: Phospho (ST)
Protein - Site of Modification: 182
Peptide - Site of Modification: 4
Peptide Start: 178
Peptide End: 198

CPTAC ID: CPTAC-5891
Peptide Molecular Mass: 2,055.0150
Species: Homo sapiens (Human)
Assay Type: Enrichment MRM
Enrichment Method: peptide immunoaffinity
Matrix: Cell Lysate
Submitting Laboratory: Fred Hutchinson Cancer Research Center
Submitting Lab PI: Amanda Paulovich

Publication

View Details (opens in a new window)

Targeted Mass Spectrometry Enables Quantification of Novel Pharmacodynamic Biomarkers of ATM Kinase Inhibition. Whiteaker JR, Wang T, Zhao L, Schoenherr RM, Kennedy JJ, Voytovich U, Ivey RG, Huang D, Lin C, Colantonio S, Caceres TW, Roberts RR, Knotts JG, Kaczmarczyk JA, Blonder J, Reading JJ, Richardson CW, Hewitt SM, Garcia-Buntley SS, Bocik W, Hiltke T, Rodriguez H, Harrington EA, Barrett JC, Lombardi B, Marco-Casanova P, Pierce AJ, Paulovich AG. Cancers (Basel). 2021 Jul 30;13(15):3843. doi: 10.3390/cancers13153843. PMID: 34359745

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument: Sciex 5500 QTRAP
Internal Standard: peptide
Peptide Standard Purity: >95%
Peptide Standard Label Type: 13C and 15N at C-terminus K

LC: Eksigent 425
Column Packing: Reprosil
Column Dimensions: 75um x 15cm
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
y11 (1+)	18.6	9.1	8.7	26.6	18.2	18.1	32.5	20.3	20.1	15	27	15
y9 (1+)	7.2	5.3	5.4	15	15	13.3	16.6	15.9	14.4	15	27	15
y7 (1+)	17.6	10.4	12.6	30.9	17.5	14.9	35.6	20.4	19.5	15	27	15
y11 (2+)	13.9	6	7.8	22.9	14.8	11.8	26.8	16	14.1	15	27	15
y9 (2+)	30.5	10.8	10.7	38.2	16.1	16.1	48.9	19.4	19.3	15	27	15
b7 (1+)	39.1	15.1	10.3	41.8	20.1	9	57.2	25.1	13.7	15	27	15
b10 (1+)	18.1	8.2	8.4	24.8	15.1	11.6	30.7	17.2	14.3	15	27	15
sum	5.2	4	3.8	16.6	13.7	11.4	17.4	14.3	12	15	27	15

Additional Resources and Comments

Resources

Download SOPs

View Peptide in Panorama

View Protein in Panorama

View in CPTC Antibody Portal

Comments

Assay Details for CPTAC-3073 Collapse assay details

Data source: Panorama

Official Gene Symbol: PAK4
Peptide Sequence: SYLDNFIK
Modification Type: unmodified
Protein - Site of Modification: N/A
Peptide - Site of Modification: N/A
Peptide Start: 319
Peptide End: 326

CPTAC ID: CPTAC-3073
Peptide Molecular Mass: 998.5073
Species: Homo Sapiens
Assay Type: Direct MRM
Matrix: Tumor Digest
Submitting Laboratory: Washington University in St. Louis
Submitting Lab PI: Reid Townsend