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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.

CPNE1

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Available Assays

Overview Data source: UniProt

Official Gene Symbol Other Aliases
CPNE1 CPN1
Sequence Length (AA) Molecular Weight (Da)
537 59059
Protein Name
Copine-1
Sources
UniProt
PhosphoSitePlus ®
GeneCards 		Human Protein Atlas

Protein Sequence hover to view complete sequence

10 20 30 40 50
MAHCVTLVQL SISCDHLIDK DIGSKSDPLC VLLQDVGGGS WAELGRTERV
60 70 80 90 100
RNCSSPEFSK TLQLEYRFET VQKLRFGIYD IDNKTPELRD DDFLGGAECS
110 120 130 140 150
LGQIVSSQVL TLPLMLKPGK PAGRGTITVS AQELKDNRVV TMEVEARNLD
160 170 180 190 200
KKDFLGKSDP FLEFFRQGDG KWHLVYRSEV IKNNLNPTWK RFSVPVQHFC
210 220 230 240 250
GGNPSTPIQV QCSDYDSDGS HDLIGTFHTS LAQLQAVPAE FECIHPEKQQ
260 270 280 290 300
KKKSYKNSGT IRVKICRVET EYSFLDYVMG GCQINFTVGV DFTGSNGDPS
310 320 330 340 350
SPDSLHYLSP TGVNEYLMAL WSVGSVVQDY DSDKLFPAFG FGAQVPPDWQ
360 370 380 390 400
VSHEFALNFN PSNPYCAGIQ GIVDAYRQAL PQVRLYGPTN FAPIINHVAR
410 420 430 440 450
FAAQAAHQGT ASQYFMLLLL TDGAVTDVEA TREAVVRASN LPMSVIIVGV
460 470 480 490 500
GGADFEAMEQ LDADGGPLHT RSGQAAARDI VQFVPYRRFQ NAPREALAQT
510 520 530 537
VLAEVPTQLV SYFRAQGWAP LKPLPPSAKD PAQAPQA

Data source: UniProt

Protein Map Collapse protein map

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 non-CPTAC-6085 Collapse assay details

Data source: Panorama

Official Gene Symbol
CPNE1
Peptide Sequence
GTITVSAQELK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
125
Peptide End
135
CPTAC ID
non-CPTAC-6085
Peptide Molecular Mass
1,145.6292
Species
Homo sapiens (Human)
Assay Type
Direct MRM-MS
Matrix
Bovine Serum Albumin
Submitting Laboratory
McGill University
Submitting Lab PI
Christoph H. Borchers, Gerald Batist

Publication

View Details (opens in a new window)

mTORC1-driven protein translation correlates with clinical benefit of capivasertib within a genetically preselected cohort of PIK3CA-altered tumours. Constance A Sobsey, Bjoern C Froehlich, Georgia Mitsa, Sahar Ibrahim, Robert Popp, Rene P Zahedi, Elza C de Bruin, Christoph H Borchers, Gerald Batist

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
Agilent 6495B QQQ-MS
Internal Standard
Standard Isotope labeled internal standard peptides with 13Cx, 15Ny (R+10 or K+8)
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
Infinity 1290
Column Packing
commercial (Agilent ZORBAX Eclipse Plus C18)
Column Dimensions
4.6 mm × 150 mm, (5 µm)
Flow Rate
0.4 mL/min

Chromatograms

Data source: Panorama

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Response Curves

Data source: Panorama

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Retrieving Data

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Repeatability

Data source: Panorama

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  Average intra-assay CV
(within day CV)		 Average inter-assay CV
(between day CV)		 Total CV
equation		 n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
b4 (1+) 12.2 12.8 8 16.5 14.2 9.6 20.5 19.1 12.5 16 16 17
y5 (1+) 15.6 9.9 7.6 15.6 10.1 5.4 22.1 14.1 9.3 16 16 17
y6 (1+) 10.6 6.3 5.4 10.8 6.7 5.6 15.1 9.2 7.8 16 16 17
y7 (1+) 19.5 10.1 8.9 20.3 11 8.5 28.1 14.9 12.3 16 16 17
y8 (1+) 14.7 5.7 7.5 13.4 9.9 6.7 19.9 11.4 10.1 16 16 17
sum 3.4 3 2.9 4.2 4.4 2.7 5.4 5.3 4 16 16 17

Stability

Data source: Panorama

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Fragment ion / Transition control_intra_CV actual_temp_intra_CV frozen_intra_CV FTx1_intra_CV FTx2_intra_CV
b4 (1+) 8 5 9.5 7.8 9.2
y5 (1+) 10.3 7.1 9.1 3.8 4.5
y6 (1+) 7 4.6 9.8 9.2 4.2
y7 (1+) 10.8 10.6 6.8 7.2 11.7
y8 (1+) 12.9 7.6 11.8 8.6 10.6
sum 5.5 2.8 4.4 5.7 3.3
Fragment ion / Transition all_intra_CV all_inter_CV
b4 (1+) 7.4 8.1
y5 (1+) 7 8.4
y6 (1+) 6.6 7.4
y7 (1+) 9.6 7.8
y8 (1+) 9.9 11.7
sum 4.1 4.5

Endogenous

Data source: Panorama

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Fragment ion / Transition intra_CV inter_CV total_CV
b4 (1+) 25.9 71.8 76.3
y5 (1+) 5 79.5 79.7
y6 (1+) 17.3 37.5 41.3
y7 (1+) 52.1 96.6 109.8
y8 (1+) 39 73.6 83.3
sum 2.7 41.3 41.4

Additional Resources and Comments

Resources
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Assay Details for CPTAC-484 Collapse assay details

Data source: Panorama

Official Gene Symbol
CPNE1
Peptide Sequence
GTITVSAQELK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
125
Peptide End
135
CPTAC ID
CPTAC-484
Peptide Molecular Mass
1,145.6292
Species
Homo sapiens (Human)
Assay Type
Direct MRM-MS
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

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Response Curves

Data source: Panorama

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Retrieving Data

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Repeatability

Data source: Panorama

view larger image
  Average intra-assay CV
(within day CV)		 Average inter-assay CV
(between day CV)		 Total CV
equation		 n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
y8 (1+) 14.6 5.2 9 14.9 8.6 9.4 20.9 10 13 15 25 15
y7 (1+) 6.8 7.3 9.8 13.5 11.5 11.3 15.1 13.6 15 15 25 15
y6 (1+) 11.9 9.5 8.4 21.3 11.1 9.4 24.4 14.6 12.6 15 25 15
sum 9 6 7.4 14.8 9.1 7.3 17.3 10.9 10.4 15 25 15

Additional Resources and Comments

Resources
Download SOPs
View Peptide in Panorama
View Protein in Panorama
Comments

Assay Details for CPTAC-485 Collapse assay details

Data source: Panorama

Official Gene Symbol
CPNE1
Peptide Sequence
SDPFLEFFR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
158
Peptide End
166
CPTAC ID
CPTAC-485
Peptide Molecular Mass
1,156.5553
Species
Homo sapiens (Human)
Assay Type
Direct MRM-MS
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

view larger image
view larger image
view larger image

Response Curves

Data source: Panorama

view larger image
view larger image
view larger image

Retrieving Data

Loader

Repeatability

Data source: Panorama

view larger image
  Average intra-assay CV
(within day CV)		 Average inter-assay CV
(between day CV)		 Total CV
equation		 n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
y6 (1+) 27 6 4.5 37.6 8.7 6.9 46.3 10.6 8.2 15 25 15
y5 (1+) 27.6 6 3.5 36.6 8.8 7.4 45.8 10.7 8.2 15 25 15
y4 (1+) 29.6 6.2 4 39.7 8.5 8.7 49.5 10.5 9.6 15 25 15
sum 25.6 5.5 3.8 36.5 8.5 7.4 44.6 10.1 8.3 15 25 15

Additional Resources and Comments

Resources
Download SOPs
View Peptide in Panorama
View Protein in Panorama
Comments