NCL, CPTAC-936 - 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 |
|---|---|---|---|---|
| MVKLAKAGKN | QGDPKKMAPP | PKEVEEDSED | EEMSEDEEDD | SSGEEVVIPQ |
| 60 | 70 | 80 | 90 | 100 |
| KKGKKAAATS | AKKVVVSPTK | KVAVATPAKK | AAVTPGKKAA | ATPAKKTVTP |
| 110 | 120 | 130 | 140 | 150 |
| AKAVTTPGKK | GATPGKALVA | TPGKKGAAIP | AKGAKNGKNA | KKEDSDEEED |
| 160 | 170 | 180 | 190 | 200 |
| DDSEEDEEDD | EDEDEDEDEI | EPAAMKAAAA | APASEDEDDE | DDEDDEDDDD |
| 210 | 220 | 230 | 240 | 250 |
| DEEDDSEEEA | METTPAKGKK | AAKVVPVKAK | NVAEDEDEEE | DDEDEDDDDD |
| 260 | 270 | 280 | 290 | 300 |
| EDDEDDDDED | DEEEEEEEEE | EPVKEAPGKR | KKEMAKQKAA | PEAKKQKVEG |
| 310 | 320 | 330 | 340 | 350 |
| TEPTTAFNLF | VGNLNFNKSA | PELKTGISDV | FAKNDLAVVD | VRIGMTRKFG |
| 360 | 370 | 380 | 390 | 400 |
| YVDFESAEDL | EKALELTGLK | VFGNEIKLEK | PKGKDSKKER | DARTLLAKNL |
| 410 | 420 | 430 | 440 | 450 |
| PYKVTQDELK | EVFEDAAEIR | LVSKDGKSKG | IAYIEFKTEA | DAEKTFEEKQ |
| 460 | 470 | 480 | 490 | 500 |
| GTEIDGRSIS | LYYTGEKGQN | QDYRGGKNST | WSGESKTLVL | SNLSYSATEE |
| 510 | 520 | 530 | 540 | 550 |
| TLQEVFEKAT | FIKVPQNQNG | KSKGYAFIEF | ASFEDAKEAL | NSCNKREIEG |
| 560 | 570 | 580 | 590 | 600 |
| RAIRLELQGP | RGSPNARSQP | SKTLFVKGLS | EDTTEETLKE | SFDGSVRARI |
| 610 | 620 | 630 | 640 | 650 |
| VTDRETGSSK | GFGFVDFNSE | EDAKAAKEAM | EDGEIDGNKV | TLDWAKPKGE |
| 660 | 670 | 680 | 690 | 700 |
| GGFGGRGGGR | GGFGGRGGGR | GGRGGFGGRG | RGGFGGRGGF | RGGRGGGGDH |
| 710 | ||||
| KPQGKKTKFE |
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-936 Collapse assay details
Data source: Panorama
Official Gene Symbol
NCL
Peptide Modified Sequence
GFGFVDFNS[+80.0]EEDAK
Modification Type
Phospho (ST)
Protein - Site of Modification
619
Peptide - Site of Modification
9
Peptide Start
611
Peptide End
624
CPTAC ID
CPTAC-936
Peptide Molecular Mass
1,640.6396
Species
Homo sapiens (Human)
Assay Type
Enrichment MRM
Enrichment Method
IMAC
Matrix
cell lysate
Submitting Laboratory
Fred Hutchinson Cancer Research Center
Submitting Lab PI
Amanda Paulovich
Publication
View Details (opens in a new window)
Kennedy JJ, Yan P, Zhao L, Ivey RG, Voytovich U, Moore HD, Lin C, Pogosova-Agadjanyan EL, Stirewalt DL, Reding KW, Whiteaker JR, Paulovich AG. Immobilized metal affinity chromatography coupled to multiple reaction monitoring enables reproducible quantification of phospho-signaling. Molecular and Cellular Proteomics. mcp.O115.054940
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
QTrap 5500 (Sciex)
Internal Standard
Peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
nanoLC-2D (Eksigent)
Column Packing
ChromXP C18-CL, 3 µm, 120 Å
Column Dimensions
75 µm x 15cm
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 |
| y9 (1+) | 28.7 | 9.8 | 5.2 | 21.7 | 18.8 | 6 | 36 | 21.2 | 7.9 | 15 | 24 | 15 |
| y10-98 (1+) | 39.5 | 8.7 | 7.9 | 29.6 | 20.4 | 8.4 | 49.4 | 22.2 | 11.5 | 15 | 24 | 15 |
| y10 (1+) | 38.5 | 7.9 | 6.6 | 37.4 | 17.2 | 6.4 | 53.7 | 18.9 | 9.2 | 15 | 24 | 15 |
| sum | 29.7 | 7.8 | 5.8 | 21.2 | 18.4 | 5.7 | 36.5 | 20 | 8.1 | 15 | 24 | 15 |