ABL1, CPTAC-1776 - 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 |
|---|---|---|---|---|
| MLEICLKLVG | CKSKKGLSSS | SSCYLEEALQ | RPVASDFEPQ | GLSEAARWNS |
| 60 | 70 | 80 | 90 | 100 |
| KENLLAGPSE | NDPNLFVALY | DFVASGDNTL | SITKGEKLRV | LGYNHNGEWC |
| 110 | 120 | 130 | 140 | 150 |
| EAQTKNGQGW | VPSNYITPVN | SLEKHSWYHG | PVSRNAAEYL | LSSGINGSFL |
| 160 | 170 | 180 | 190 | 200 |
| VRESESSPGQ | RSISLRYEGR | VYHYRINTAS | DGKLYVSSES | RFNTLAELVH |
| 210 | 220 | 230 | 240 | 250 |
| HHSTVADGLI | TTLHYPAPKR | NKPTVYGVSP | NYDKWEMERT | DITMKHKLGG |
| 260 | 270 | 280 | 290 | 300 |
| GQYGEVYEGV | WKKYSLTVAV | KTLKEDTMEV | EEFLKEAAVM | KEIKHPNLVQ |
| 310 | 320 | 330 | 340 | 350 |
| LLGVCTREPP | FYIITEFMTY | GNLLDYLREC | NRQEVNAVVL | LYMATQISSA |
| 360 | 370 | 380 | 390 | 400 |
| MEYLEKKNFI | HRDLAARNCL | VGENHLVKVA | DFGLSRLMTG | DTYTAHAGAK |
| 410 | 420 | 430 | 440 | 450 |
| FPIKWTAPES | LAYNKFSIKS | DVWAFGVLLW | EIATYGMSPY | PGIDLSQVYE |
| 460 | 470 | 480 | 490 | 500 |
| LLEKDYRMER | PEGCPEKVYE | LMRACWQWNP | SDRPSFAEIH | QAFETMFQES |
| 510 | 520 | 530 | 540 | 550 |
| SISDEVEKEL | GKQGVRGAVS | TLLQAPELPT | KTRTSRRAAE | HRDTTDVPEM |
| 560 | 570 | 580 | 590 | 600 |
| PHSKGQGESD | PLDHEPAVSP | LLPRKERGPP | EGGLNEDERL | LPKDKKTNLF |
| 610 | 620 | 630 | 640 | 650 |
| SALIKKKKKT | APTPPKRSSS | FREMDGQPER | RGAGEEEGRD | ISNGALAFTP |
| 660 | 670 | 680 | 690 | 700 |
| LDTADPAKSP | KPSNGAGVPN | GALRESGGSG | FRSPHLWKKS | STLTSSRLAT |
| 710 | 720 | 730 | 740 | 750 |
| GEEEGGGSSS | KRFLRSCSAS | CVPHGAKDTE | WRSVTLPRDL | QSTGRQFDSS |
| 760 | 770 | 780 | 790 | 800 |
| TFGGHKSEKP | ALPRKRAGEN | RSDQVTRGTV | TPPPRLVKKN | EEAADEVFKD |
| 810 | 820 | 830 | 840 | 850 |
| IMESSPGSSP | PNLTPKPLRR | QVTVAPASGL | PHKEEAGKGS | ALGTPAAAEP |
| 860 | 870 | 880 | 890 | 900 |
| VTPTSKAGSG | APGGTSKGPA | EESRVRRHKH | SSESPGRDKG | KLSRLKPAPP |
| 910 | 920 | 930 | 940 | 950 |
| PPPAASAGKA | GGKPSQSPSQ | EAAGEAVLGA | KTKATSLVDA | VNSDAAKPSQ |
| 960 | 970 | 980 | 990 | 1000 |
| PGEGLKKPVL | PATPKPQSAK | PSGTPISPAP | VPSTLPSASS | ALAGDQPSST |
| 1010 | 1020 | 1030 | 1040 | 1050 |
| AFIPLISTRV | SLRKTRQPPE | RIASGAITKG | VVLDSTEALC | LAISRNSEQM |
| 1060 | 1070 | 1080 | 1090 | 1100 |
| ASHSAVLEAG | KNLYTFCVSY | VDSIQQMRNK | FAFREAINKL | ENNLRELQIC |
| 1110 | 1120 | 1130 | ||
| PATAGSGPAA | TQDFSKLLSS | VKEISDIVQR |
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-1776 Collapse assay details
Data source: Panorama
Official Gene Symbol
ABL1
Peptide Modified Sequence
LMTGDTY[+80.0]TAHAGAK
Modification Type
Phospho (Y)
Protein - Site of Modification
393
Peptide - Site of Modification
7
Peptide Start
387
Peptide End
400
CPTAC ID
CPTAC-1776
Peptide Molecular Mass
1,515.6429
Species
Homo sapiens (Human)
Assay Type
Direct PRM
Matrix
E.coli Lysate
Submitting Laboratory
Johns Hopkins University / Pandey
Submitting Lab PI
Akhilesh Pandey
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
Orbitrap Fusion Lumos
Internal Standard
100fmol
Peptide Standard Purity
>80%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
Easy nLC 1200 System
Column Packing
C18 2um 100A
Column Dimensions
75um i.d. x 50cm
Flow Rate
300nl/min
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 |
| y12 (1+) | 4.8 | 5.5 | 4.5 | 7.4 | 6.5 | 5.7 | 8.8 | 8.5 | 7.3 | 15 | 15 | 15 |
| y11 (1+) | 4.8 | 7.7 | 4.2 | 8.1 | 7.5 | 5.7 | 9.4 | 10.7 | 7.1 | 15 | 15 | 15 |
| y9 (1+) | 6.2 | 8.3 | 2.7 | 8 | 8.2 | 5.4 | 10.1 | 11.7 | 6 | 15 | 15 | 15 |
| y7 (1+) | 6.3 | 7.6 | 4.5 | 7.9 | 7.8 | 7 | 10.1 | 10.9 | 8.3 | 15 | 15 | 15 |
| y5 (1+) | 5.5 | 9.9 | 4.2 | 5.8 | 9.6 | 7.7 | 8 | 13.8 | 8.8 | 15 | 15 | 15 |
| b2 (1+) | 5.3 | 7 | 3.7 | 7.4 | 5.4 | 6.6 | 9.1 | 8.8 | 7.6 | 15 | 15 | 15 |
| sum | 4.2 | 6.8 | 3.1 | 6.3 | 6.7 | 5.5 | 7.6 | 9.5 | 6.3 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for CPTAC-1788 Collapse assay details
Data source: Panorama
Official Gene Symbol
ABL1
Peptide Modified Sequence
LY[+80.0]VSSESR
Modification Type
Phospho (Y)
Protein - Site of Modification
185
Peptide - Site of Modification
2
Peptide Start
184
Peptide End
191
CPTAC ID
CPTAC-1788
Peptide Molecular Mass
1,019.4325
Species
Homo sapiens (Human)
Assay Type
Direct PRM
Matrix
E.coli lysate
Submitting Laboratory
Johns Hopkins University / Pandey
Submitting Lab PI
Akhilesh Pandey
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
Orbitrap Fusion Lumos
Internal Standard
100fmol
Peptide Standard Purity
Crude (~60%)
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
Easy nLC 1200 System
Column Packing
C18 2um 100A
Column Dimensions
75um i.d. x 50cm
Flow Rate
300 nl/min
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 |
| b3 (1+) | NA | 44.5 | 24.3 | NA | 48.5 | 29.3 | NA | 65.8 | 38.1 | 2 | 15 | 15 |
| b2 (1+) | 16.3 | 8.2 | 8 | 11.4 | 9.9 | 8.7 | 19.9 | 12.9 | 11.8 | 15 | 15 | 15 |
| y2 (1+) | 96.4 | 16.7 | 10.2 | 8.7 | 19.9 | 9.2 | 96.8 | 26 | 13.7 | 5 | 15 | 15 |
| y3 (1+) | NA | 0.5 | 34.8 | NA | 25 | 24.2 | NA | 25 | 42.4 | 1 | 5 | 10 |
| y4 (1+) | NA | 47.2 | 17.5 | NA | 59.4 | 19.5 | NA | 75.9 | 26.2 | 2 | 15 | 15 |
| y5 (1+) | 28.4 | 13 | 8.2 | 27.7 | 14.3 | 8.2 | 39.7 | 19.3 | 11.6 | 15 | 15 | 15 |
| y6 (1+) | 10.8 | 9.1 | 5.8 | 10.8 | 8.6 | 7.1 | 15.3 | 12.5 | 9.2 | 15 | 15 | 15 |
| sum | 12.6 | 7.1 | 5 | 12.5 | 7.8 | 5.4 | 17.7 | 10.5 | 7.4 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for CPTAC-3042 Collapse assay details
Data source: Panorama
Official Gene Symbol
ABL1
Peptide Sequence
ATSLVDAVNSDAAK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
934
Peptide End
947
CPTAC ID
CPTAC-3042
Peptide Molecular Mass
1,360.6834
Species
Homo Sapiens
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
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 |
| y10 (1+) | 5.7 | 5.5 | 4.4 | 6.9 | 4.6 | 3.9 | 8.9 | 7.2 | 5.9 | 15 | 15 | 15 |
| y9 (1+) | 5.4 | 5.4 | 2.5 | 7.5 | 4.8 | 2 | 9.2 | 7.2 | 3.2 | 15 | 15 | 15 |
| y6 (1+) | 7.3 | 4.9 | 3.9 | 9.8 | 4.2 | 3.5 | 12.2 | 6.5 | 5.2 | 15 | 15 | 15 |
| sum | 5.3 | 5.2 | 3.2 | 7.4 | 4.4 | 2.7 | 9.1 | 6.8 | 4.2 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for CPTAC-3041 Collapse assay details
Data source: Panorama
Official Gene Symbol
ABL1
Peptide Sequence
LYVSSESR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
184
Peptide End
191
CPTAC ID
CPTAC-3041
Peptide Molecular Mass
939.4662
Species
Homo Sapiens
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 R
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
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 |
| y5 (1+) | 4.5 | 2.4 | 3.2 | 4.5 | 1.8 | 3.4 | 6.4 | 3 | 4.7 | 15 | 15 | 15 |
| y4 (1+) | 6.1 | 3.6 | 4.6 | 6.5 | 3.6 | 4.2 | 8.9 | 5.1 | 6.2 | 15 | 15 | 15 |
| y6 (1+) | 2.7 | 2 | 2.9 | 3.5 | 1.8 | 2.9 | 4.4 | 2.7 | 4.1 | 15 | 15 | 15 |
| sum | 2.4 | 1.8 | 2.9 | 2.9 | 1.3 | 2.9 | 3.8 | 2.2 | 4.1 | 15 | 15 | 15 |