UBAP2L, CPTAC-599 - CPTAC Assay Portal (original) (raw)

Please include the following statement when referencing the CPTAC Assay Portal

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
MMTSVGTNRA RGNWEQPQNQ NQTQHKQRPQ ATAEQIRLAQ MISDHNDADF
60 70 80 90 100
EEKVKQLIDI TGKNQDECVI ALHDCNGDVN RAINVLLEGN PDTHSWEMVG
110 120 130 140 150
KKKGVSGQKD GGQTESNEEG KENRDRDRDY SRRRGGPPRR GRGASRGREF
160 170 180 190 200
RGQENGLDGT KSGGPSGRGT ERGRRGRGRG RGGSGRRGGR FSAQGMGTFN
210 220 230 240 250
PADYAEPANT DDNYGNSSGN TWNNTGHFEP DDGTSAWRTA TEEWGTEDWN
260 270 280 290 300
EDLSETKIFT ASNVSSVPLP AENVTITAGQ RIDLAVLLGK TPSTMENDSS
310 320 330 340 350
NLDPSQAPSL AQPLVFSNSK QTAISQPASG NTFSHHSMVS MLGKGFGDVG
360 370 380 390 400
EAKGGSTTGS QFLEQFKTAQ ALAQLAAQHS QSGSTTTSSW DMGSTTQSPS
410 420 430 440 450
LVQYDLKNPS DSAVHSPFTK RQAFTPSSTM MEVFLQEKSP AVATSTAAPP
460 470 480 490 500
PPSSPLPSKS TSAPQMSPGS SDNQSSSPQP AQQKLKQQKK KASLTSKIPA
510 520 530 540 550
LAVEMPGSAD ISGLNLQFGA LQFGSEPVLS DYESTPTTSA SSSQAPSSLY
560 570 580 590 600
TSTASESSST ISSNQSQESG YQSGPIQSTT YTSQNNAQGP LYEQRSTQTR
610 620 630 640 650
RYPSSISSSP QKDLTQAKNG FSSVQATQLQ TTQSVEGATG SAVKSDSPST
660 670 680 690 700
SSIPPLNETV SAASLLTTTN QHSSSLGGLS HSEEIPNTTT TQHSSTLSTQ
710 720 730 740 750
QNTLSSSTSS GRTSTSTLLH TSVESEANLH SSSSTFSTTS STVSAPPPVV
760 770 780 790 800
SVSSSLNSGS SLGLSLGSNS TVTASTRSSV ATTSGKAPPN LPPGVPPLLP
810 820 830 840 850
NPYIMAPGLL HAYPPQVYGY DDLQMLQTRF PLDYYSIPFP TPTTPLTGRD
860 870 880 890 900
GSLASNPYSG DLTKFGRGDA SSPAPATTLA QPQQNQTQTH HTTQQTFLNP
910 920 930 940 950
ALPPGYSYTS LPYYTGVPGL PSTFQYGPAV FPVAPTSSKQ HGVNVSVNAS
960 970 980 990 1000
ATPFQQPSGY GSHGYNTGVS VTSSNTGVPD ISGSVYSKTQ QSFEKQGFHS
1010 1020 1030 1040 1050
GTPAASFNLP SALGSGGPIN PATAAAYPPA PFMHILTPHQ QPHSQILHHH
1060 1070 1080 1087
LQQDGQTGSG QRSQTSSIPQ KPQTNKSAYN SYSWGAN

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-599 Collapse assay details

Data source: Panorama

Official Gene Symbol

UBAP2L

Peptide Sequence

DGSLASNPYSGDLTK

Modification Type

unmodified

Protein - Site of Modification

N/A

Peptide - Site of Modification

N/A

Peptide Start

850

Peptide End

864

CPTAC ID

CPTAC-599

Peptide Molecular Mass

1,523.7104

Species

Homo sapiens (Human)

Assay Type

Direct MRM

Matrix

cell line lysate pool

Submitting Laboratory

Seoul National University / Korea Institute of Science and Technology and FHCRC

Submitting Lab PI

Youngsoo Kim

Publication

View Details (opens in a new window)

Demonstrating the feasibility of large-scale development of standardized assays to quantify human proteins. Kennedy JJ, Abbatiello SE, Kim K, Yan P, Whiteaker JR, Lin C, Kim JS, Zhang Y, Wang X, Ivey RG, Zhao L, Min H, Lee Y, Yu MH, Yang EG, Lee C, Wang P, Rodriguez H, Kim Y, Carr SA, Paulovich AG. Nat Methods. 2014 Feb;11(2):149-55. doi: 10.1038/nmeth.2763. Epub 2013 Dec 8. PMID: 24317253

Response curves acquired at Seoul National University / Korea Institute of Science and Technology. Repeatability data acquired at Fred Hutchinson Cancer Research Center.

Response curves acquired at Seoul National University / Korea Institute of Science and Technology. Repeatability data acquired at Fred Hutchinson Cancer Research Center.

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument

5500 QTRAP (ABSCIEX)

Internal Standard

peptide

Peptide Standard Purity

>95%

Peptide Standard Label Type

13C,15N

LC

nanoLC-Ultra 2D, cHiPLC-nanoflex (Eksigent)

Column Packing

ChromXP C18-CL, 3 um, 120A

Column Dimensions

150 x 0.075 mm

Flow Rate

500 nL / min

Chromatograms

Data source: Panorama

Response Curves

Data source: Panorama

Retrieving Data

Loader

Repeatability

Data source: Panorama

| | Average intra-assay CV(within day CV) | Average inter-assay CV(between day CV) | Total CVequation | n= | | | | | | | | | | | ---------------------------------------- | -------------------------------------- | --------------------------------------------------------------------------------- | -------- | ------- | ------- | -------- | ------- | ------- | -------- | ------- | ------- | -------- | | Fragment ion / Transition | Low | Med | High | Low | Med | High | Low | Med | High | Low | Med | High | | y11 (1+) | 20.8 | 7.1 | 6.4 | 25 | 7.8 | 10.1 | 32.5 | 10.5 | 12 | 15 | 25 | 15 | | y10 (1+) | 16 | 6.4 | 9.4 | 18.7 | 7.5 | 9.8 | 24.6 | 9.9 | 13.6 | 15 | 25 | 15 | | y8 (1+) | 16.4 | 5.1 | 4.6 | 22.7 | 5.9 | 5.3 | 28 | 7.8 | 7 | 15 | 25 | 15 | | sum | 14.8 | 4 | 4.2 | 15.7 | 5.5 | 5 | 21.6 | 6.8 | 6.5 | 15 | 25 | 15 |

Additional Resources and Comments

Assay Details for CPTAC-600 Collapse assay details

Data source: Panorama

Official Gene Symbol

UBAP2L

Peptide Sequence

TATEEWGTEDWNEDLSETK

Modification Type

unmodified

Protein - Site of Modification

N/A

Peptide - Site of Modification

N/A

Peptide Start

239

Peptide End

257

CPTAC ID

CPTAC-600

Peptide Molecular Mass

2,239.9393

Species

Homo sapiens (Human)

Assay Type

Direct MRM

Matrix

cell line lysate pool

Submitting Laboratory

Seoul National University / Korea Institute of Science and Technology and FHCRC

Submitting Lab PI

Youngsoo Kim

Publication

View Details (opens in a new window)

Demonstrating the feasibility of large-scale development of standardized assays to quantify human proteins. Kennedy JJ, Abbatiello SE, Kim K, Yan P, Whiteaker JR, Lin C, Kim JS, Zhang Y, Wang X, Ivey RG, Zhao L, Min H, Lee Y, Yu MH, Yang EG, Lee C, Wang P, Rodriguez H, Kim Y, Carr SA, Paulovich AG. Nat Methods. 2014 Feb;11(2):149-55. doi: 10.1038/nmeth.2763. Epub 2013 Dec 8. PMID: 24317253

Response curves acquired at Seoul National University / Korea Institute of Science and Technology. Repeatability data acquired at Fred Hutchinson Cancer Research Center.

Response curves acquired at Seoul National University / Korea Institute of Science and Technology. Repeatability data acquired at Fred Hutchinson Cancer Research Center.

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument

5500 QTRAP (ABSCIEX)

Internal Standard

peptide

Peptide Standard Purity

>95%

Peptide Standard Label Type

13C,15N

LC

nanoLC-Ultra 2D, cHiPLC-nanoflex (Eksigent)

Column Packing

ChromXP C18-CL, 3 um, 120A

Column Dimensions

150 x 0.075 mm

Flow Rate

500 nL / min

Chromatograms

Data source: Panorama

Response Curves

Data source: Panorama

Retrieving Data

Loader

Repeatability

Data source: Panorama

| | Average intra-assay CV(within day CV) | Average inter-assay CV(between day CV) | Total CVequation | n= | | | | | | | | | | | ---------------------------------------- | -------------------------------------- | --------------------------------------------------------------------------------- | -------- | ------- | ------- | -------- | ------- | ------- | -------- | ------- | ------- | -------- | | Fragment ion / Transition | Low | Med | High | Low | Med | High | Low | Med | High | Low | Med | High | | y10 (1+) | 8.2 | 10.9 | 9.2 | 10.5 | 14.3 | 12.4 | 13.3 | 18 | 15.4 | 25 | 15 | 15 | | y8 (1+) | 12.9 | 9.9 | 17.5 | 17.7 | 14.3 | 24.1 | 21.9 | 17.4 | 29.8 | 25 | 15 | 15 | | y6 (1+) | 18.6 | 20.1 | 10.9 | 20.6 | 25.7 | 23.3 | 27.8 | 32.6 | 25.7 | 25 | 15 | 15 | | sum | 7.8 | 10 | 8.5 | 10.6 | 10.7 | 14.4 | 13.2 | 14.6 | 16.7 | 25 | 15 | 15 |

Additional Resources and Comments