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Overview Data source: UniProt

Official Gene Symbol Other Aliases
PCNA N/A
Sequence Length (AA) Molecular Weight (Da)
261 28769
Protein Name
Proliferating cell nuclear antigen
Sources
UniProt
PhosphoSitePlus ®
GeneCards
Human Protein Atlas

Protein Sequence hover to view complete sequence

10 20 30 40 50
MFEARLVQGS ILKKVLEALK DLINEACWDI SSSGVNLQSM DSSHVSLVQL
60 70 80 90 100
TLRSEGFDTY RCDRNLAMGV NLTSMSKILK CAGNEDIITL RAEDNADTLA
110 120 130 140 150
LVFEAPNQEK VSDYEMKLMD LDVEQLGIPE QEYSCVVKMP SGEFARICRD
160 170 180 190 200
LSHIGDAVVI SCAKDGVKFS ASGELGNGNI KLSQTSNVDK EEEAVTIEMN
210 220 230 240 250
EPVQLTFALR YLNFFTKATP LSSTVTLSMS ADVPLVVEYK IADMGHLKYY
260 261
LAPKIEDEEG S

Data source: UniProt


Position of Targeted Peptide Analytes Relative to SNPs, Isoforms, and PTMs

Uniprot Database Entry PhosphoSitePlus ®

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to view detailed assay information below
All other points link out to UniProt



Phosphorylation Acetylation Ubiquitylation Other

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Assay Details for CPTAC-3243 Collapse assay details

Data source: Panorama

Official Gene Symbol
PCNA
Peptide Sequence
AEDNADTLALVFEAPNQEK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
92
Peptide End
110
CPTAC ID
CPTAC-3243
Peptide Molecular Mass
2,073.9855
Species
Homo sapiens (Human)
Assay Type
Enrichment MRM
Enrichment Method
N/A
Matrix
cell lysate
Submitting Laboratory
Fred Hutchinson Cancer Research Center
Submitting Lab PI
Amanda Paulovich

Publication

View Details (opens in a new window)

A Multiplexed Mass Spectrometry-Based Assay for Robust Quantification of Phosphosignaling in Response to DNA Damage. Whiteaker JR, Zhao L, Saul R, Kaczmarczyk JA, Schoenherr RM, Moore HD, Jones-Weinert C, Ivey RG, Lin C, Hiltke T, Reding KW, Whiteley G, Wang P, Paulovich AG. Radiat Res. 2018 Feb 23. doi: 10.1667/RR14963.1. [Epub ahead of print]


Assay Parameters Collapse assay parameters Test button response curves

Data source: Panorama

Instrument
6500 QTRAP (Sciex)
Internal Standard
synthetic peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
Ultra NanoLC 2D+ (Eksigent)
Column Packing
ReproSil-Pur C18-AQ 3um
Column Dimensions
100 x 0.075 mm
Flow Rate
300 uL/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 CV
equation
n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
y5 (1+) 39.2 16.6 20 16.1 29 37.2 42.4 33.4 42.2 15 15 15
y6 (1+) 42.5 19 21.2 25.2 31.4 36.5 49.4 36.7 42.2 15 15 15
y8 (1+) 44.2 21.8 23.6 28 33.9 34.5 52.3 40.3 41.8 15 15 15
y10 (1+) 34.9 19.3 20.3 29.9 29.5 34.7 46 35.3 40.2 15 15 15
y9 (1+) 32.6 22.8 18 30.6 33.8 34.9 44.7 40.8 39.3 15 15 15
sum 36.1 17.6 19.9 23.2 31.4 34.8 42.9 36 40.1 15 15 15

Additional Resources and Comments


Assay Details for CPTAC-3244 Collapse assay details

Data source: Panorama

Official Gene Symbol
PCNA
Peptide Modified Sequence
DLSHIGDAVVISC[+57.0]AK
Modification Type
Carbamidomethyl Cysteine
Protein - Site of Modification
162
Peptide - Site of Modification
13
Peptide Start
150
Peptide End
164
CPTAC ID
CPTAC-3244
Peptide Molecular Mass
1,583.7977
Species
Homo sapiens (Human)
Assay Type
Enrichment MRM
Enrichment Method
N/A
Matrix
cell lysate
Submitting Laboratory
Fred Hutchinson Cancer Research Center
Submitting Lab PI
Amanda Paulovich

Publication

View Details (opens in a new window)

A Multiplexed Mass Spectrometry-Based Assay for Robust Quantification of Phosphosignaling in Response to DNA Damage. Whiteaker JR, Zhao L, Saul R, Kaczmarczyk JA, Schoenherr RM, Moore HD, Jones-Weinert C, Ivey RG, Lin C, Hiltke T, Reding KW, Whiteley G, Wang P, Paulovich AG. Radiat Res. 2018 Feb 23. doi: 10.1667/RR14963.1. [Epub ahead of print]


Assay Parameters Collapse assay parameters Test button response curves

Data source: Panorama

Instrument
6500 QTRAP (Sciex)
Internal Standard
synthetic peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
Ultra NanoLC 2D+ (Eksigent)
Column Packing
ReproSil-Pur C18-AQ 3um
Column Dimensions
100 x 0.075 mm
Flow Rate
300 uL/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 CV
equation
n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
b9 (1+) 26.5 11.4 11.5 45.2 11.3 13.2 52.4 16.1 17.5 15 15 15
y6 (1+) 21.4 13 7.3 28.2 17.2 11.4 35.4 21.6 13.5 15 15 15
y7 (1+) 23.2 19.9 10.7 47.6 27.1 13.1 53 33.6 16.9 15 15 15
sum 22.5 9.8 8.4 35.6 10.9 11 42.1 14.7 13.8 15 15 15

Additional Resources and Comments


Assay Details for CPTAC-3245 Collapse assay details

Data source: Panorama

Official Gene Symbol
PCNA
Peptide Modified Sequence
DLSHIGDAVVISC[+57.0]AK[+114.0]DGVK
Modification Type
Carbamidomethyl Cysteine, Ubiquitin
Protein - Site of Modification
162, 164
Peptide - Site of Modification
13, 15
Peptide Start
150
Peptide End
168
CPTAC ID
CPTAC-3245
Peptide Molecular Mass
2,097.0525
Species
Homo sapiens (Human)
Assay Type
Enrichment MRM
Enrichment Method
N/A
Matrix
cell lysate
Submitting Laboratory
Fred Hutchinson Cancer Research Center
Submitting Lab PI
Amanda Paulovich

Publication

View Details (opens in a new window)

A Multiplexed Mass Spectrometry-Based Assay for Robust Quantification of Phosphosignaling in Response to DNA Damage. Whiteaker JR, Zhao L, Saul R, Kaczmarczyk JA, Schoenherr RM, Moore HD, Jones-Weinert C, Ivey RG, Lin C, Hiltke T, Reding KW, Whiteley G, Wang P, Paulovich AG. Radiat Res. 2018 Feb 23. doi: 10.1667/RR14963.1. [Epub ahead of print]


Assay Parameters Collapse assay parameters Test button response curves

Data source: Panorama

Instrument
6500 QTRAP (Sciex)
Internal Standard
synthetic peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
Ultra NanoLC 2D+ (Eksigent)
Column Packing
ReproSil-Pur C18-AQ 3um
Column Dimensions
100 x 0.075 mm
Flow Rate
300 uL/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 CV
equation
n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
y9 (1+) 20 13.3 7.5 19.6 15.4 8.9 28 20.3 11.6 15 15 15
y8 (1+) 21.2 23 17.1 24.9 30.7 13.9 32.7 38.4 22 15 15 15
y6 (1+) 24.3 19.1 18.5 41.9 26.3 20.4 48.4 32.5 27.5 15 15 15
y7 (1+) 35.3 14.5 13.8 42.5 17.2 11.4 55.2 22.5 17.9 15 15 15
b8 (1+) 39.5 10.7 13.4 41 19.6 18.5 56.9 22.3 22.8 15 15 15
b9 (2+) 38.6 19.8 12.8 45.6 21 16.7 59.7 28.9 21 15 15 15
sum 12.2 13.8 7.6 15.2 15.1 8.7 19.5 20.5 11.6 15 15 15

Additional Resources and Comments


Assay Details for CPTAC-722 Collapse assay details

Data source: Panorama

Official Gene Symbol
PCNA
Peptide Sequence
LVQGSILK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
6
Peptide End
13
CPTAC ID
CPTAC-722
Peptide Molecular Mass
856.5382
Species
Homo sapiens (Human)
Assay Type
Enrichment MRM
Enrichment Method
N/A
Matrix
plasma
Submitting Laboratory
Fred Hutchinson Cancer Research Center
Submitting Lab PI
Amanda Paulovich

Publication

View Details (opens in a new window)

Anti-peptide monoclonal antibodies generated for immuno-multiple reaction monitoring-mass spectrometry assays have a high probability of supporting Western blot and ELISA. Schoenherr RM, Saul RG, Whiteaker JR, Yan P, Whiteley GR, Paulovich AG. Mol Cell Proteomics. 2015 Feb;14(2):382-98. doi: 10.1074/mcp.O114.043133. Epub 2014 Dec 15. PMID: 25512614


Assay Parameters Collapse assay parameters Test button response curves

Data source: Panorama

Instrument
5500 Qtrap
Internal Standard
synthetic peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
Eksigent NanoLC 2D
Column Packing
ReproSil-Pur C18-AQ 3 um
Column Dimensions
100 mm x 75 um ID
Flow Rate
300 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 CV
equation
n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
b3 (1+) 26.8 8.2 3.3 23.8 8.4 5.5 35.8 11.7 6.4 15 15 15
y7 (2+) 32.6 7.8 2.3 29.5 9.5 4.2 44 12.3 4.8 15 15 15
y4 (1+) 43.7 16.1 5.5 47.7 17.2 5.5 64.7 23.6 7.8 15 15 15
y5 (1+) 17.2 5.1 1.4 19.1 6.7 3 25.7 8.4 3.3 15 15 15
sum 17.6 4.7 1.1 14.2 5.5 3.6 22.6 7.2 3.8 15 15 15

Additional Resources and Comments


Assay Details for CPTAC-3242 Collapse assay details

Data source: Panorama

Official Gene Symbol
PCNA
Peptide Sequence
LVQGSILK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
6
Peptide End
13
CPTAC ID
CPTAC-3242
Peptide Molecular Mass
856.5382
Species
Homo sapiens (Human)
Assay Type
Enrichment MRM
Enrichment Method
N/A
Matrix
cell lysate
Submitting Laboratory
Fred Hutchinson Cancer Research Center
Submitting Lab PI
Amanda Paulovich

Publication

View Details (opens in a new window)

A Multiplexed Mass Spectrometry-Based Assay for Robust Quantification of Phosphosignaling in Response to DNA Damage. Whiteaker JR, Zhao L, Saul R, Kaczmarczyk JA, Schoenherr RM, Moore HD, Jones-Weinert C, Ivey RG, Lin C, Hiltke T, Reding KW, Whiteley G, Wang P, Paulovich AG. Radiat Res. 2018 Feb 23. doi: 10.1667/RR14963.1. [Epub ahead of print]


Assay Parameters Collapse assay parameters Test button response curves

Data source: Panorama

Instrument
6500 QTRAP (Sciex)
Internal Standard
synthetic peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
Ultra NanoLC 2D+ (Eksigent)
Column Packing
ReproSil-Pur C18-AQ 3um
Column Dimensions
100 x 0.075 mm
Flow Rate
300 uL/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 CV
equation
n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
y5 (1+) 19.4 7.4 8.3 19.8 11.3 9 27.7 13.5 12.2 15 15 15
y7 (2+) 47.5 10.4 14.8 31.8 14.9 14.5 57.2 18.2 20.7 15 15 15
y4 (1+) 27.4 21.5 8.9 27.8 22.1 11.5 39 30.8 14.5 15 15 15
sum 17.3 6.8 7.1 15.4 10.4 6.3 23.2 12.4 9.5 15 15 15

Additional Resources and Comments


Assay Details for CPTAC-1224 Collapse assay details

Data source: Panorama

Official Gene Symbol
PCNA
Peptide Modified Sequence
DLSHIGDAVVISC[+57.0]AK
Modification Type
Carbamidomethyl Cysteine
Protein - Site of Modification
162
Peptide - Site of Modification
13
Peptide Start
150
Peptide End
164
CPTAC ID
CPTAC-1224
Peptide Molecular Mass
1,583.7977
Species
Homo sapiens (Human)
Assay Type
Direct MRM
Matrix
Ovarian cancer tumor tissue lysate
Submitting Laboratory
Pacific Northwest National Laboratory
Submitting Lab PI
Tao Liu

Assay Parameters Collapse assay parameters Test button response curves

Data source: Panorama

Instrument
TSQ Vantage
Internal Standard
peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
Waters nanoACQUITY (Part Number 176016000)
Column Packing
Waters BEH C18, 1.7 um 130 Å (Part Number 186007485)
Column Dimensions
100 um x 100 mm
Flow Rate
0.5 uL/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 CV
equation
n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
y4 (1+) 16.5 12.1 19.9 25.9 14.5 15.8 30.7 18.9 25.4 15 15 15
y5 (1+) 13.3 11.9 15.6 13.3 10.8 14.4 18.8 16.1 21.2 15 15 15
y6 (1+) 11.5 6.2 9.6 13.6 10.5 11.6 17.8 12.2 15.1 15 15 15
sum 11 9.3 14.2 13.9 9.2 12.2 17.7 13.1 18.7 15 15 15

Additional Resources and Comments


Assay Details for CPTAC-1225 Collapse assay details

Data source: Panorama

Official Gene Symbol
PCNA
Peptide Sequence
FSASGELGNGNIK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
169
Peptide End
181
CPTAC ID
CPTAC-1225
Peptide Molecular Mass
1,292.6361
Species
Homo sapiens (Human)
Assay Type
Direct MRM
Matrix
Ovarian cancer tumor tissue lysate
Submitting Laboratory
Pacific Northwest National Laboratory
Submitting Lab PI
Tao Liu

Assay Parameters Collapse assay parameters Test button response curves

Data source: Panorama

Instrument
TSQ Vantage
Internal Standard
peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
Waters nanoACQUITY (Part Number 176016000)
Column Packing
Waters BEH C18, 1.7 um 130 Å (Part Number 186007485)
Column Dimensions
100 um x 100 mm
Flow Rate
0.5 uL/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 CV
equation
n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
y6 (1+) 12.5 7.8 8.4 17.7 8.5 10.1 21.7 11.5 13.1 15 15 15
y7 (1+) 12 6.5 10.4 14.1 8.9 9.3 18.5 11 14 15 15 15
y10 (1+) 12.7 6.5 10.5 18 10.2 9.7 22 12.1 14.3 15 15 15
sum 6.4 6.4 9.3 13.3 8.4 9.4 14.8 10.6 13.2 15 15 15

Additional Resources and Comments


Assay Details for CPTAC-558 Collapse assay details

Data source: Panorama

Official Gene Symbol
PCNA
Peptide Modified Sequence
DLSHIGDAVVISC[+57.0]AK
Modification Type
Carbamidomethyl Cysteine
Protein - Site of Modification
162
Peptide - Site of Modification
13
Peptide Start
150
Peptide End
164
CPTAC ID
CPTAC-558
Peptide Molecular Mass
1,583.7977
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 Test button response curves

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

Loader

Repeatability

Data source: Panorama

  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
y7 (1+) 26.6 17.7 9.1 36 19.2 13 44.8 26.1 15.9 25 15 15
y6 (1+) 8.4 18.5 5.9 7.3 15 6.3 11.1 23.8 8.6 25 15 15
y5 (1+) 10.6 16.8 3.4 10.6 15.7 5.2 15 23 6.2 25 15 15
sum 8.8 17.3 4.2 8.3 15.3 4.8 12.1 23.1 6.4 25 15 15

Additional Resources and Comments


Assay Details for CPTAC-559 Collapse assay details

Data source: Panorama

Official Gene Symbol
PCNA
Peptide Sequence
FSASGELGNGNIK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
169
Peptide End
181
CPTAC ID
CPTAC-559
Peptide Molecular Mass
1,292.6361
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 Test button response curves

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

Loader

Repeatability

Data source: Panorama

  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
y10 (1+) 18.7 5.6 4.7 30.8 10 3.9 36 11.5 6.1 15 25 15
y9 (1+) 26.8 7 4.1 26.2 8.1 5.3 37.5 10.7 6.7 15 25 15
y7 (1+) 31.9 5.8 4.9 37.2 6.9 6.8 49 9 8.4 15 25 15
sum 14.6 4.1 3.9 25.7 6.6 4.3 29.6 7.8 5.8 15 25 15

Additional Resources and Comments