JAK1, CPTAC-1251 - CPTAC Assay Portal (original) (raw)
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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.
Protein Sequence hover to view complete sequence
| 10 | 20 | 30 | 40 | 50 |
|---|---|---|---|---|
| MQYLNIKEDC | NAMAFCAKMR | SSKKTEVNLE | APEPGVEVIF | YLSDREPLRL |
| 60 | 70 | 80 | 90 | 100 |
| GSGEYTAEEL | CIRAAQACRI | SPLCHNLFAL | YDENTKLWYA | PNRTITVDDK |
| 110 | 120 | 130 | 140 | 150 |
| MSLRLHYRMR | FYFTNWHGTN | DNEQSVWRHS | PKKQKNGYEK | KKIPDATPLL |
| 160 | 170 | 180 | 190 | 200 |
| DASSLEYLFA | QGQYDLVKCL | APIRDPKTEQ | DGHDIENECL | GMAVLAISHY |
| 210 | 220 | 230 | 240 | 250 |
| AMMKKMQLPE | LPKDISYKRY | IPETLNKSIR | QRNLLTRMRI | NNVFKDFLKE |
| 260 | 270 | 280 | 290 | 300 |
| FNNKTICDSS | VSTHDLKVKY | LATLETLTKH | YGAEIFETSM | LLISSENEMN |
| 310 | 320 | 330 | 340 | 350 |
| WFHSNDGGNV | LYYEVMVTGN | LGIQWRHKPN | VVSVEKEKNK | LKRKKLENKH |
| 360 | 370 | 380 | 390 | 400 |
| KKDEEKNKIR | EEWNNFSYFP | EITHIVIKES | VVSINKQDNK | KMELKLSSHE |
| 410 | 420 | 430 | 440 | 450 |
| EALSFVSLVD | GYFRLTADAH | HYLCTDVAPP | LIVHNIQNGC | HGPICTEYAI |
| 460 | 470 | 480 | 490 | 500 |
| NKLRQEGSEE | GMYVLRWSCT | DFDNILMTVT | CFEKSEQVQG | AQKQFKNFQI |
| 510 | 520 | 530 | 540 | 550 |
| EVQKGRYSLH | GSDRSFPSLG | DLMSHLKKQI | LRTDNISFML | KRCCQPKPRE |
| 560 | 570 | 580 | 590 | 600 |
| ISNLLVATKK | AQEWQPVYPM | SQLSFDRILK | KDLVQGEHLG | RGTRTHIYSG |
| 610 | 620 | 630 | 640 | 650 |
| TLMDYKDDEG | TSEEKKIKVI | LKVLDPSHRD | ISLAFFEAAS | MMRQVSHKHI |
| 660 | 670 | 680 | 690 | 700 |
| VYLYGVCVRD | VENIMVEEFV | EGGPLDLFMH | RKSDVLTTPW | KFKVAKQLAS |
| 710 | 720 | 730 | 740 | 750 |
| ALSYLEDKDL | VHGNVCTKNL | LLAREGIDSE | CGPFIKLSDP | GIPITVLSRQ |
| 760 | 770 | 780 | 790 | 800 |
| ECIERIPWIA | PECVEDSKNL | SVAADKWSFG | TTLWEICYNG | EIPLKDKTLI |
| 810 | 820 | 830 | 840 | 850 |
| EKERFYESRC | RPVTPSCKEL | ADLMTRCMNY | DPNQRPFFRA | IMRDINKLEE |
| 860 | 870 | 880 | 890 | 900 |
| QNPDIVSEKK | PATEVDPTHF | EKRFLKRIRD | LGEGHFGKVE | LCRYDPEGDN |
| 910 | 920 | 930 | 940 | 950 |
| TGEQVAVKSL | KPESGGNHIA | DLKKEIEILR | NLYHENIVKY | KGICTEDGGN |
| 960 | 970 | 980 | 990 | 1000 |
| GIKLIMEFLP | SGSLKEYLPK | NKNKINLKQQ | LKYAVQICKG | MDYLGSRQYV |
| 1010 | 1020 | 1030 | 1040 | 1050 |
| HRDLAARNVL | VESEHQVKIG | DFGLTKAIET | DKEYYTVKDD | RDSPVFWYAP |
| 1060 | 1070 | 1080 | 1090 | 1100 |
| ECLMQSKFYI | ASDVWSFGVT | LHELLTYCDS | DSSPMALFLK | MIGPTHGQMT |
| 1110 | 1120 | 1130 | 1140 | 1150 |
| VTRLVNTLKE | GKRLPCPPNC | PDEVYQLMRK | CWEFQPSNRT | SFQNLIEGFE |
| 1154 | ||||
| ALLK |
Data source: UniProt
Position of Targeted Peptide Analytes Relative to SNPs, Isoforms, and PTMs
Uniprot Database Entry PhosphoSitePlus ®
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Phosphorylation Acetylation Ubiquitylation Other
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Assay Details for CPTAC-6216 Collapse assay details
Data source: Panorama
Official Gene Symbol
JAK1
Peptide Sequence
LSDPGIPITVLSR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
7
Peptide Start
737
Peptide End
749
CPTAC ID
CPTAC-6216
Peptide Molecular Mass
1,366.7820
Species
Homo Sapiens
Assay Type
Enrichment MRM or SRM
Enrichment Method
N/A
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
Assay Multiplexing Expand assay panel
Pacific Northwest National Laboratory-DirectMRM2
Chromatograms
Data source: Panorama
Response Curves
Data source: Panorama
Retrieving Data
Repeatability
Data source: Panorama
| | 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+) | 10.8 | 6.9 | 5.4 | 11.5 | 10.3 | 13.8 | 15.8 | 12.4 | 14.8 | 15 | 15 | 15 |
| y10 (1+) | 8.8 | 5.1 | 7.7 | 14.8 | 5 | 9 | 17.2 | 7.1 | 11.8 | 15 | 15 | 15 |
| b5 (1+) | 10.3 | 7 | 4 | 15.7 | 6.1 | 6.3 | 18.8 | 9.3 | 7.5 | 15 | 15 | 15 |
| b6 (1+) | 13.3 | 6 | 4.4 | 14.9 | 6.3 | 7.7 | 20 | 8.7 | 8.9 | 15 | 15 | 15 |
| sum | 9.9 | 5.5 | 2.7 | 12.1 | 7.4 | 9.1 | 15.6 | 9.2 | 9.5 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for CPTAC-1251 Collapse assay details
Data source: Panorama
Official Gene Symbol
JAK1
Peptide Sequence
QLASALSYLEDK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
697
Peptide End
708
CPTAC ID
CPTAC-1251
Peptide Molecular Mass
1,336.6874
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-DirectMRM2
Chromatograms
Data source: Panorama
Response Curves
Data source: Panorama
Retrieving Data
Repeatability
Data source: Panorama
| | 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+) | 11.8 | 3.7 | 8.9 | 23.6 | 7.2 | 17 | 26.4 | 8.1 | 19.2 | 15 | 15 | 15 |
| y6 (1+) | 7.6 | 6.2 | 3.9 | 14.4 | 10.3 | 13.1 | 16.3 | 12 | 13.7 | 15 | 15 | 15 |
| y7 (1+) | 7 | 7.1 | 4.3 | 14.3 | 11.8 | 15.4 | 15.9 | 13.8 | 16 | 15 | 15 | 15 |
| sum | 3.3 | 5.6 | 4 | 13.6 | 10 | 14.3 | 14 | 11.5 | 14.8 | 15 | 15 | 15 |
Selectivity
Data source: Panorama
| Slope of Curve Fit for cell line | ||||||
|---|---|---|---|---|---|---|
| fragment_ion | 1 | 2 | 3 | 4 | 5 | 6 |
| y7 (1+) | 6.67 | 6.98 | 5.85 | 5.37 | 7.53 | 5.96 |
| y6 (1+) | 7.38 | 7.21 | 6.28 | 5.73 | 7.95 | 6.02 |
| y4 (1+) | 6.19 | 6.25 | 5.67 | 5.19 | 6.75 | 5.15 |
| sum | 6.93 | 6.99 | 6.03 | 5.51 | 7.61 | 5.87 |
Stability
Data source: Panorama
| Fragment ion / Transition | control_intra_CV | actual_temp_intra_CV | frozen_intra_CV | FTx1_intra_CV | FTx2_intra_CV |
|---|---|---|---|---|---|
| y4 (1+) | 5.1 | 7.4 | 5.9 | 7 | 8.2 |
| y6 (1+) | 3.2 | 3.3 | 2 | 2.4 | 7.5 |
| y7 (1+) | 3.5 | 3.5 | 2.4 | 4.1 | 2.5 |
| sum | 2.3 | 3.6 | 1.6 | 1.3 | 5.2 |
| Fragment ion / Transition | all_intra_CV | all_inter_CV |
|---|---|---|
| y4 (1+) | 6.8 | 8.2 |
| y6 (1+) | 3.6 | 4.3 |
| y7 (1+) | 3.2 | 3.9 |
| sum | 2.9 | 3.6 |
Endogenous
Data source: Panorama
| Fragment ion / Transition | intra_CV | inter_CV | total_CV |
|---|---|---|---|
| y6 (1+) | 43.2 | 54.2 | 69.3 |
| y4 (1+) | 67.8 | 65.3 | 94.1 |
| y7 (1+) | 61.7 | 107.3 | 123.8 |
| sum | 55.3 | 67.3 | 87.1 |
Additional Resources and Comments
Assay Details for CPTAC-3186 Collapse assay details
Data source: Panorama
Official Gene Symbol
JAK1
Peptide Modified Sequence
C[+57.0]WEFQPSNR
Modification Type
Carbamidomethyl (C)
Protein - Site of Modification
1132
Peptide - Site of Modification
1
Peptide Start
1131
Peptide End
1139
CPTAC ID
CPTAC-3186
Peptide Molecular Mass
1,222.5189
Species
Homo Sapiens
Assay Type
Direct MRM or SRM
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 R
LC
Easy-nLC 1000 Thermo Scientific
Column Packing
C18
Column Dimensions
75 µm x 50 cm
Flow Rate
300 nL/min
Assay Multiplexing Expand assay panel
Pacific Northwest National Laboratory-DirectMRM2
Chromatograms
Data source: Panorama
Response Curves
Data source: Panorama
Retrieving Data
Repeatability
Data source: Panorama
| | 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+) | 4.1 | 4.8 | 2.9 | 6.1 | 4.6 | 3 | 7.3 | 6.6 | 4.2 | 15 | 15 | 15 |
| y7 (1+) | 12.6 | 6.4 | 2.7 | 21.8 | 6.6 | 2.7 | 25.2 | 9.2 | 3.8 | 15 | 15 | 15 |
| y6 (1+) | 6.7 | 4 | 3.6 | 8.1 | 4.9 | 3.8 | 10.5 | 6.3 | 5.2 | 15 | 15 | 15 |
| sum | 6.2 | 5.1 | 2.6 | 9.6 | 5.3 | 2.9 | 11.4 | 7.4 | 3.9 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for CPTAC-3185 Collapse assay details
Data source: Panorama
Official Gene Symbol
JAK1
Peptide Sequence
KPATEVDPTHFEK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
860
Peptide End
872
CPTAC ID
CPTAC-3185
Peptide Molecular Mass
1,497.7464
Species
Homo Sapiens
Assay Type
Direct MRM or SRM
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
Assay Multiplexing Expand assay panel
Pacific Northwest National Laboratory-DirectMRM2
Chromatograms
Data source: Panorama
Response Curves
Data source: Panorama
Retrieving Data
Repeatability
Data source: Panorama
| | 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+) | 22.6 | 5.5 | 6.5 | 27.3 | 5.6 | 7.8 | 35.4 | 7.8 | 10.2 | 15 | 15 | 15 |
| y5 (1+) | 16.5 | 4.8 | 6.7 | 18.1 | 9.6 | 8.3 | 24.5 | 10.7 | 10.7 | 15 | 15 | 15 |
| y6 (2+) | 5.3 | 4.2 | 5 | 7.9 | 5.3 | 6.3 | 9.5 | 6.8 | 8 | 15 | 15 | 15 |
| sum | 7.9 | 4 | 4.5 | 9.3 | 5.7 | 6.1 | 12.2 | 7 | 7.6 | 15 | 15 | 15 |