LGALS3BP, CPTAC-534 - 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 |
|---|---|---|---|---|
| MTPPRLFWVW | LLVAGTQGVN | DGDMRLADGG | ATNQGRVEIF | YRGQWGTVCD |
| 60 | 70 | 80 | 90 | 100 |
| NLWDLTDASV | VCRALGFENA | TQALGRAAFG | QGSGPIMLDE | VQCTGTEASL |
| 110 | 120 | 130 | 140 | 150 |
| ADCKSLGWLK | SNCRHERDAG | VVCTNETRST | HTLDLSRELS | EALGQIFDSQ |
| 160 | 170 | 180 | 190 | 200 |
| RGCDLSISVN | VQGEDALGFC | GHTVILTANL | EAQALWKEPG | SNVTMSVDAE |
| 210 | 220 | 230 | 240 | 250 |
| CVPMVRDLLR | YFYSRRIDIT | LSSVKCFHKL | ASAYGARQLQ | GYCASLFAIL |
| 260 | 270 | 280 | 290 | 300 |
| LPQDPSFQMP | LDLYAYAVAT | GDALLEKLCL | QFLAWNFEAL | TQAEAWPSVP |
| 310 | 320 | 330 | 340 | 350 |
| TDLLQLLLPR | SDLAVPSELA | LLKAVDTWSW | GERASHEEVE | GLVEKIRFPM |
| 360 | 370 | 380 | 390 | 400 |
| MLPEELFELQ | FNLSLYWSHE | ALFQKKTLQA | LEFHTVPFQL | LARYKGLNLT |
| 410 | 420 | 430 | 440 | 450 |
| EDTYKPRIYT | SPTWSAFVTD | SSWSARKSQL | VYQSRRGPLV | KYSSDYFQAP |
| 460 | 470 | 480 | 490 | 500 |
| SDYRYYPYQS | FQTPQHPSFL | FQDKRVSWSL | VYLPTIQSCW | NYGFSCSSDE |
| 510 | 520 | 530 | 540 | 550 |
| LPVLGLTKSG | GSDRTIAYEN | KALMLCEGLF | VADVTDFEGW | KAAIPSALDT |
| 560 | 570 | 580 | 585 | |
| NSSKSTSSFP | CPAGHFNGFR | TVIRPFYLTN | SSGVD |
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-670 Collapse assay details
Data source: Panorama
Official Gene Symbol
LGALS3BP
Peptide Modified Sequence
ALGFEN[+1.0]ATQALGR
Modification Type
Deamidated (NQ)
Protein - Site of Modification
69
Peptide - Site of Modification
6
Peptide Start
64
Peptide End
76
CPTAC ID
CPTAC-670
Peptide Molecular Mass
1,347.6782
Species
Homo sapiens (Human)
Assay Type
Enrichment MRM
Enrichment Method
N/A
Matrix
serum
Submitting Laboratory
Johns Hopkins University
Submitting Lab PI
Daniel Chan, Hui Zhang, Zhen Zhang
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
Q-Exactive (ThermoFisher)
Internal Standard
synthetic peptide
Peptide Standard Purity
Crude
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
Dionex UltiMate 3000 RSLCnano LC (ThermoFisher)
Column Packing
Acclaim PepMap100 C18, 5um (Trap); Acclaim PepMap RSLC C18, 2um (Analytical)
Column Dimensions
300um x 5mm (Trap); 75um x 25cm (Analytical)
Flow Rate
0.5 uL/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 |
| y11 (1+) | 6.8 | 4.9 | 6.8 | 7.4 | 5.8 | 6.5 | 10 | 7.6 | 9.4 | 15 | 15 | 15 |
| y9 (1+) | 9 | 5 | 6 | 9.4 | 6.1 | 4.7 | 13 | 7.9 | 7.6 | 15 | 15 | 15 |
| y8 (1+) | 7 | 6 | 5.1 | 6.7 | 6.3 | 5.6 | 9.7 | 8.7 | 7.6 | 15 | 15 | 15 |
| sum | 7.2 | 5.2 | 5.5 | 7.3 | 5.8 | 5.2 | 10.3 | 7.8 | 7.6 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for CPTAC-534 Collapse assay details
Data source: Panorama
Official Gene Symbol
LGALS3BP
Peptide Sequence
ELSEALGQIFDSQR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
138
Peptide End
151
CPTAC ID
CPTAC-534
Peptide Molecular Mass
1,591.7842
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 and 15N at C-terminus R
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
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+) | 19.7 | 22.9 | 13.5 | 23.6 | 25.9 | 19.4 | 30.7 | 34.6 | 23.6 | 15 | 25 | 15 |
| y8 (1+) | 14.2 | 11.4 | 14.4 | 22.2 | 15.1 | 21.9 | 26.4 | 18.9 | 26.2 | 15 | 25 | 15 |
| y7 (1+) | 32.9 | 25.2 | 23.4 | 32.1 | 26.3 | 28.6 | 46 | 36.4 | 37 | 15 | 25 | 15 |
| sum | 14.5 | 13.8 | 12.5 | 21.6 | 16.3 | 19.9 | 26 | 21.4 | 23.5 | 15 | 25 | 15 |
Additional Resources and Comments
Assay Details for CPTAC-535 Collapse assay details
Data source: Panorama
Official Gene Symbol
LGALS3BP
Peptide Sequence
SDLAVPSELALLK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
311
Peptide End
323
CPTAC ID
CPTAC-535
Peptide Molecular Mass
1,354.7708
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 and 15N at C-terminus K
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
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+) | 23.7 | 10 | 6 | 24.5 | 10.1 | 10.1 | 34.1 | 14.2 | 11.7 | 15 | 25 | 15 |
| y9 (1+) | 8.3 | 8.4 | 9.9 | 13.2 | 8.5 | 7.7 | 15.6 | 12 | 12.5 | 15 | 25 | 15 |
| y8 (1+) | 8 | 6.5 | 5 | 16.6 | 7.4 | 9.8 | 18.4 | 9.8 | 11 | 15 | 25 | 15 |
| sum | 7.6 | 6.5 | 5.3 | 15.6 | 7.2 | 9 | 17.4 | 9.7 | 10.4 | 15 | 25 | 15 |
Additional Resources and Comments
Assay Details for non-CPTAC-1125 Collapse assay details
Data source: Panorama
Official Gene Symbol
LGALS3BP
Peptide Sequence
ELSEALGQIFDSQR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
138
Peptide End
151
CPTAC ID
non-CPTAC-1125
Peptide Molecular Mass
1,591.7842
Species
Homo sapiens (Human)
Assay Type
Direct MRM
Matrix
plasma
Submitting Laboratory
UVic-Genome BC Proteomics Centre
Submitting Lab PI
Christoph Borchers
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
6490 Triple Quad (Agilent)
Internal Standard
synthetic peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
1290 LC (Agilent)
Column Packing
Zorbax Eclipse Plus C18, 1.8 µm
Column Dimensions
2.1 x 150 mm
Flow Rate
400 µL/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 |
| b2 (1+) | 19.1 | 9 | 10.3 | 16.3 | 14.6 | 13.1 | 25.1 | 17.2 | 16.7 | 15 | 15 | 15 |
| y8 (2+) | 18 | 3.7 | 2.1 | 24.7 | 30.8 | 16.6 | 30.6 | 31 | 16.7 | 10 | 9 | 7 |
| y3 (1+) | 8.4 | 8 | 9.2 | 10.8 | 16.1 | 11 | 13.7 | 18 | 14.3 | 15 | 15 | 15 |
| y4 (1+) | 14.4 | 7.9 | 3.6 | 13.6 | 16.3 | 11.4 | 19.8 | 18.1 | 12 | 15 | 15 | 15 |
| y5 (1+) | 8.8 | 6.8 | 8.2 | 13.1 | 19.4 | 12.8 | 15.8 | 20.6 | 15.2 | 15 | 15 | 15 |
| sum | 9.3 | 6.2 | 8.6 | 9.7 | 19.4 | 12.8 | 13.4 | 20.4 | 15.4 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for non-CPTAC-2670 Collapse assay details
Data source: Panorama
Official Gene Symbol
LGALS3BP
Peptide Sequence
SDLAVPSELALLK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
311
Peptide End
323
CPTAC ID
non-CPTAC-2670
Peptide Molecular Mass
1,354.7708
Species
Homo sapiens (Human)
Assay Type
Direct MRM
Matrix
plasma
Submitting Laboratory
UVic-Genome BC Proteomics Centre
Submitting Lab PI
Christoph Borchers
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
6490 Triple Quad (Agilent)
Internal Standard
synthetic peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
1290 LC (Agilent)
Column Packing
Zorbax Eclipse Plus C18, 1.8 µm
Column Dimensions
2.1 x 150 mm
Flow Rate
400 µL/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 |
| y8 (1+) | 4.6 | 4.8 | 6.9 | 10.9 | 8 | 9.4 | 11.8 | 9.3 | 11.7 | 15 | 15 | 15 |
| b3 (1+) | 7.5 | 4.5 | 8.5 | 11.1 | 7.5 | 11 | 13.4 | 8.7 | 13.9 | 15 | 15 | 15 |
| b5 (1+) | 6 | 4.6 | 6.5 | 12.4 | 7.7 | 9 | 13.8 | 9 | 11.1 | 15 | 15 | 15 |
| b2 (1+) | 5.5 | 5.3 | 7 | 11.9 | 8.8 | 8.7 | 13.1 | 10.3 | 11.2 | 15 | 15 | 15 |
| b4 (1+) | 4.4 | 5.3 | 7 | 13.3 | 7.2 | 8.6 | 14 | 8.9 | 11.1 | 15 | 15 | 15 |
| sum | 4.8 | 4.1 | 6.7 | 11.5 | 7.4 | 9.2 | 12.5 | 8.5 | 11.4 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for non-CPTAC-3924 Collapse assay details
Data source: Panorama
Official Gene Symbol
Lgals3bp
Peptide Sequence
SELAVSSELDLLK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
311
Peptide End
323
CPTAC ID
non-CPTAC-3924
Peptide Molecular Mass
1,402.7555
Species
Mus musculus (Mouse)
Assay Type
Direct MRM
Matrix
Plasma
Submitting Laboratory
UVic-Genome BC Proteomics Centre
Submitting Lab PI
Christoph Borchers
Publication
View Details (opens in a new window)
Molecular phenotyping of laboratory mouse strains using 500 multiple reaction monitoring mass spectrometry plasma assays. Michaud SA, Sinclair NJ, Petrošová H, Palmer AL, Pistawka AJ, Zhang S, Hardie DB, Mohammed Y Eshghi A1, Richard VR, Sickmann A, Borchers CH. Commun Biol. 2018 Jun 27;1:78. doi: 10.1038/s42003-018-0087-6. eCollection 2018.
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
Agilent 6490/6495 QQQ
Internal Standard
synthetic peptide
Peptide Standard Purity
>80%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
1290 LC (Agilent)
Column Packing
Zorbax Eclipse Plus C18, 1.8 µm
Column Dimensions
2.1 x 150 mm
Flow Rate
400 µL/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 |
| b5 (1+) | 3.8 | 2.4 | 2.3 | 10.3 | 6.2 | 4.9 | 11 | 6.6 | 5.4 | 15 | 15 | 15 |
| y9 (1+) | 6.3 | 3.1 | 2.8 | 6.8 | 4.9 | 6.5 | 9.3 | 5.8 | 7.1 | 15 | 15 | 15 |
| y8 (1+) | 3.5 | 2.1 | 2.8 | 5 | 6.4 | 5.9 | 6.1 | 6.7 | 6.5 | 15 | 15 | 15 |
| b2 (1+) | 3.3 | 2.4 | 2 | 5.6 | 6.9 | 5.6 | 6.5 | 7.3 | 5.9 | 15 | 15 | 15 |
| b3 (1+) | 4 | 2.3 | 2.6 | 7 | 5.6 | 7.1 | 8.1 | 6.1 | 7.6 | 15 | 15 | 15 |
| sum | 2.1 | 0.9 | 1.5 | 5.1 | 5.7 | 5.7 | 5.5 | 5.8 | 5.9 | 15 | 15 | 15 |