VAMP4, CPTAC-1035 - 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-1035 Collapse assay details

Data source: Panorama

Official Gene Symbol

VAMP4

Peptide Modified Sequence

NLLEDDS[+80.0]DEEEDFFLR

Modification Type

Phospho (ST)

Protein - Site of Modification

30

Peptide - Site of Modification

7

Peptide Start

24

Peptide End

39

CPTAC ID

CPTAC-1035

Peptide Molecular Mass

2,064.8201

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

synthetic peptide

Peptide Standard Purity

Crude

Peptide Standard Label Type

13C and 15N at C-terminus R

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 | | y14 (2+) | 47.6 | 13.2 | 21.7 | 43.4 | 42.8 | 32.1 | 64.4 | 44.8 | 38.7 | 12 | 20 | 13 | | y6 (1+) | 23.9 | 17.3 | 10.6 | 34.6 | 41.1 | 20.5 | 42.1 | 44.6 | 23.1 | 12 | 20 | 13 | | y8 (1+) | 27.8 | 14.5 | 12.3 | 36.6 | 48.4 | 20 | 46 | 50.5 | 23.5 | 12 | 20 | 13 | | sum | 26.6 | 11 | 11.3 | 28.9 | 42.3 | 21.7 | 39.3 | 43.7 | 24.5 | 12 | 20 | 13 |

Additional Resources and Comments