LCN2, CPTAC-681 - 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.
LCN2
Protein Sequence hover to view complete sequence
| 10 | 20 | 30 | 40 | 50 |
|---|---|---|---|---|
| MPLGLLWLGL | ALLGALHAQA | QDSTSDLIPA | PPLSKVPLQQ | NFQDNQFQGK |
| 60 | 70 | 80 | 90 | 100 |
| WYVVGLAGNA | ILREDKDPQK | MYATIYELKE | DKSYNVTSVL | FRKKKCDYWI |
| 110 | 120 | 130 | 140 | 150 |
| RTFVPGCQPG | EFTLGNIKSY | PGLTSYLVRV | VSTNYNQHAM | VFFKKVSQNR |
| 160 | 170 | 180 | 190 | 198 |
| EYFKITLYGR | TKELTSELKE | NFIRFSKSLG | LPENHIVFPV | PIDQCIDG |
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-681 Collapse assay details
Data source: Panorama
Official Gene Symbol
LCN2
Peptide Modified Sequence
SYN[+1.0]VTSVLFR
Modification Type
Deamidated (NQ)
Protein - Site of Modification
85
Peptide - Site of Modification
3
Peptide Start
83
Peptide End
92
CPTAC ID
CPTAC-681
Peptide Molecular Mass
1,185.6030
Species
Homo sapiens (Human)
Assay Type
Enrichment PRM
Enrichment Method
N-linked glycopeptide solid phase extraction
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
Assay Multiplexing Expand assay panel
Johns Hopkins University-A
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+) | 11.1 | 6.9 | 6.6 | 11.9 | 7.4 | 6.4 | 16.3 | 10.1 | 9.2 | 15 | 15 | 15 |
| y7 (1+) | 11.7 | 9.6 | 9.9 | 12.3 | 9.6 | 12.4 | 17 | 13.6 | 15.9 | 15 | 15 | 15 |
| y6 (1+) | 6.3 | 6.6 | 6.4 | 6.2 | 7 | 6.7 | 8.8 | 9.6 | 9.3 | 15 | 15 | 15 |
| sum | 4.6 | 4.4 | 4.9 | 5.8 | 4.6 | 5.1 | 7.4 | 6.4 | 7.1 | 15 | 15 | 15 |