NUMA1, CPTAC-937 - 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

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-5920 Collapse assay details

Data source: Panorama

Official Gene Symbol

NUMA1

Peptide Modified Sequence

LSQLEEHLS[+79.966331]QLQDNPPQEK

Modification Type

Phospho (ST)

Protein - Site of Modification

396

Peptide - Site of Modification

9

Peptide Start

387

Peptide End

405

CPTAC ID

CPTAC-5920

Peptide Molecular Mass

2,312.0686

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)

Targeted Mass Spectrometry Enables Quantification of Novel Pharmacodynamic Biomarkers of ATM Kinase Inhibition. Whiteaker JR, Wang T, Zhao L, Schoenherr RM, Kennedy JJ, Voytovich U, Ivey RG, Huang D, Lin C, Colantonio S, Caceres TW, Roberts RR, Knotts JG, Kaczmarczyk JA, Blonder J, Reading JJ, Richardson CW, Hewitt SM, Garcia-Buntley SS, Bocik W, Hiltke T, Rodriguez H, Harrington EA, Barrett JC, Lombardi B, Marco-Casanova P, Pierce AJ, Paulovich AG. Cancers (Basel). 2021 Jul 30;13(15):3843. doi: 10.3390/cancers13153843. PMID: 34359745

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument

Sciex 5500 QTRAP

Internal Standard

peptide

Peptide Standard Purity

>95%

Peptide Standard Label Type

13C and 15N at C-terminus K

LC

Eksigent 425

Column Packing

Reprosil

Column Dimensions

75um 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 | | y6 (1+) | 17.7 | 10.8 | 7.5 | 39.5 | 14.6 | 8.4 | 43.3 | 18.2 | 11.3 | 15 | 27 | 15 | | y7 (1+) | 20.6 | 10.8 | 5.8 | 29.3 | 16 | 11.8 | 35.8 | 19.3 | 13.1 | 15 | 27 | 15 | | y8 (1+) | 52 | 15.1 | 6.7 | 51.5 | 20.9 | 9.5 | 73.2 | 25.8 | 11.6 | 15 | 27 | 15 | | b14 (2+) | 23.7 | 13.1 | 7 | 25.4 | 15.5 | 8.8 | 34.7 | 20.3 | 11.2 | 15 | 27 | 15 | | y5 (1+) | 8.1 | 7.1 | 7.9 | 12.5 | 11.9 | 8.9 | 14.9 | 13.9 | 11.9 | 15 | 27 | 15 | | y4 (1+) | 19.8 | 8.2 | 11.3 | 26.5 | 14.2 | 11.2 | 33.1 | 16.4 | 15.9 | 15 | 27 | 15 | | y16-98 (2+) | 36.1 | 15.8 | 6.1 | 47.4 | 18.6 | 10.6 | 59.6 | 24.4 | 12.2 | 15 | 27 | 15 | | sum | 5.8 | 4.7 | 3.9 | 11 | 11.7 | 7.5 | 12.4 | 12.6 | 8.5 | 15 | 27 | 15 |

Additional Resources and Comments

Assay Details for CPTAC-937 Collapse assay details

Data source: Panorama

Official Gene Symbol

NUMA1

Peptide Modified Sequence

VSLEPHQGPGT[+80.0]PESK

Modification Type

Phospho (ST)

Protein - Site of Modification

2000

Peptide - Site of Modification

11

Peptide Start

1990

Peptide End

2004

CPTAC ID

CPTAC-937

Peptide Molecular Mass

1,641.7400

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 | | y11 (2+) | 15.2 | 7.5 | 6.9 | 23 | 7.6 | 8 | 27.6 | 10.7 | 10.6 | 15 | 24 | 15 | | y13 (2+) | 10.1 | 6.6 | 6.8 | 24 | 7 | 8 | 26 | 9.6 | 10.5 | 15 | 24 | 15 | | y14 (2+) | 13 | 8.3 | 8.7 | 26.3 | 9.2 | 10.7 | 29.3 | 12.4 | 13.8 | 15 | 24 | 15 | | sum | 11.8 | 6.8 | 7.3 | 24.2 | 7.2 | 8.8 | 26.9 | 9.9 | 11.4 | 15 | 24 | 15 |

Additional Resources and Comments