NAGA, CPTAC-2228 - 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.
NAGA
Protein Sequence hover to view complete sequence
| 10 | 20 | 30 | 40 | 50 |
|---|---|---|---|---|
| MLLKTVLLLG | HVAQVLMLDN | GLLQTPPMGW | LAWERFRCNI | NCDEDPKNCI |
| 60 | 70 | 80 | 90 | 100 |
| SEQLFMEMAD | RMAQDGWRDM | GYTYLNIDDC | WIGGRDASGR | LMPDPKRFPH |
| 110 | 120 | 130 | 140 | 150 |
| GIPFLADYVH | SLGLKLGIYA | DMGNFTCMGY | PGTTLDKVVQ | DAQTFAEWKV |
| 160 | 170 | 180 | 190 | 200 |
| DMLKLDGCFS | TPEERAQGYP | KMAAALNATG | RPIAFSCSWP | AYEGGLPPRV |
| 210 | 220 | 230 | 240 | 250 |
| NYSLLADICN | LWRNYDDIQD | SWWSVLSILN | WFVEHQDILQ | PVAGPGHWND |
| 260 | 270 | 280 | 290 | 300 |
| PDMLLIGNFG | LSLEQSRAQM | ALWTVLAAPL | LMSTDLRTIS | AQNMDILQNP |
| 310 | 320 | 330 | 340 | 350 |
| LMIKINQDPL | GIQGRRIHKE | KSLIEVYMRP | LSNKASALVF | FSCRTDMPYR |
| 360 | 370 | 380 | 390 | 400 |
| YHSSLGQLNF | TGSVIYEAQD | VYSGDIISGL | RDETNFTVII | NPSGVVMWYL |
| 410 | 411 | |||
| YPIKNLEMSQ | Q |
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-2228 Collapse assay details
Data source: Panorama
Official Gene Symbol
NAGA
Peptide Modified Sequence
LGIYADM[+16.0]GN[+1.0]FTC[+57.0]M[+16.0]GYPGTTLDK
Modification Type
Oxidation (M), Deamidated (N), Carbamidomethyl (C), Oxidation (M)
Protein - Site of Modification
122, 124, 127, 128
Peptide - Site of Modification
7, 9, 12, 13
Peptide Start
116
Peptide End
137
CPTAC ID
CPTAC-2228
Peptide Molecular Mass
2,457.0538
Species
Homo sapiens (Human)
Assay Type
Direct MRM
Matrix
Human ovarian tissue digest
Submitting Laboratory
Johns Hopkins University
Submitting Lab PI
Daniel Chan, Hui Zhang, Zhen Zhang
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
LCMS-8040
Internal Standard
Stable isotope-labeled peptides
Peptide Standard Purity
Crude (~60%)
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
Nexera X2 UHPLC
Column Packing
C18, 3 µm, 300 Å
Column Dimensions
1.0 mm I.D. x 15 cm
Flow Rate
50 µL/min
Assay Multiplexing Expand assay panel
Johns Hopkins University-G
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 |
| y10 (2+) | 50.6 | 17.2 | 16 | 40.8 | 35 | 23.9 | 65 | 39 | 28.8 | 15 | 15 | 15 |
| y11 (2+) | 26 | 18.9 | 12.6 | 36.2 | 19.3 | 11.8 | 44.6 | 27 | 17.3 | 15 | 15 | 15 |
| y7 (1+) | 12.1 | 6.4 | 9.1 | 13 | 7.3 | 7.6 | 17.8 | 9.7 | 11.9 | 15 | 15 | 15 |
| sum | 8.6 | 7.9 | 7.6 | 10.9 | 8.2 | 7.2 | 13.9 | 11.4 | 10.5 | 15 | 15 | 15 |