SLC9A3R1, CPTAC-588 - 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.
Overview Data source: UniProt
| Official Gene Symbol | Other Aliases |
|---|---|
| SLC9A3R1 | NHERF, NHERF1 |
| Sequence Length (AA) | Molecular Weight (Da) |
|---|---|
| 358 | 38868 |
| Protein Name |
|---|
| Na(+)/H(+) exchange regulatory cofactor NHE-RF1 |
| Sources | |
|---|---|
| UniProt PhosphoSitePlus ® GeneCards | Human Protein Atlas |
Protein Sequence hover to view complete sequence
| 10 | 20 | 30 | 40 | 50 |
|---|---|---|---|---|
| MSADAAAGAP | LPRLCCLEKG | PNGYGFHLHG | EKGKLGQYIR | LVEPGSPAEK |
| 60 | 70 | 80 | 90 | 100 |
| AGLLAGDRLV | EVNGENVEKE | THQQVVSRIR | AALNAVRLLV | VDPETDEQLQ |
| 110 | 120 | 130 | 140 | 150 |
| KLGVQVREEL | LRAQEAPGQA | EPPAAAEVQG | AGNENEPREA | DKSHPEQREL |
| 160 | 170 | 180 | 190 | 200 |
| RPRLCTMKKG | PSGYGFNLHS | DKSKPGQFIR | SVDPDSPAEA | SGLRAQDRIV |
| 210 | 220 | 230 | 240 | 250 |
| EVNGVCMEGK | QHGDVVSAIR | AGGDETKLLV | VDRETDEFFK | KCRVIPSQEH |
| 260 | 270 | 280 | 290 | 300 |
| LNGPLPVPFT | NGEIQKENSR | EALAEAALES | PRPALVRSAS | SDTSEELNSQ |
| 310 | 320 | 330 | 340 | 350 |
| DSPPKQDSTA | PSSTSSSDPI | LDFNISLAMA | KERAHQKRSS | KRAPQMDWSK |
| 358 | ||||
| KNELFSNL |
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
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Phosphorylation Acetylation Ubiquitylation Other
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Assay Details for CPTAC-589 Collapse assay details
Data source: Panorama
Official Gene Symbol
SLC9A3R1
Peptide Sequence
LLVVDPETDEQLQK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
88
Peptide End
101
CPTAC ID
CPTAC-589
Peptide Molecular Mass
1,625.8512
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
Data source: Panorama
Instrument
5500 QTRAP (ABSCIEX)
Internal Standard
peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C,15N
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
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 (1+) | 9.1 | 6.7 | 4.9 | 16.6 | 7.1 | 5.3 | 18.9 | 9.8 | 7.2 | 15 | 25 | 15 |
| y9 (1+) | 8.1 | 4.8 | 3.8 | 10.2 | 5.9 | 6.7 | 13 | 7.6 | 7.7 | 15 | 25 | 15 |
| y7 (1+) | 66.6 | 15.4 | 7.3 | 63 | 13.6 | 10.6 | 91.7 | 20.5 | 12.9 | 15 | 25 | 15 |
| sum | 8.4 | 5.2 | 4 | 11.9 | 6.2 | 6.3 | 14.6 | 8.1 | 7.5 | 15 | 25 | 15 |
Additional Resources and Comments
Assay Details for CPTAC-588 Collapse assay details
Data source: Panorama
Official Gene Symbol
SLC9A3R1
Peptide Sequence
LVEVNGENVEK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
59
Peptide End
69
CPTAC ID
CPTAC-588
Peptide Molecular Mass
1,228.6299
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
Data source: Panorama
Instrument
5500 QTRAP (ABSCIEX)
Internal Standard
peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C,15N
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
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 |
| y9 (1+) | 8.8 | 4.8 | 6.5 | 20.4 | 16.2 | 19.1 | 22.2 | 16.9 | 20.2 | 15 | 25 | 15 |
| y8 (1+) | 36.5 | 19.6 | 13.2 | 36.1 | 24 | 16.4 | 51.3 | 31 | 21.1 | 15 | 25 | 15 |
| y7 (1+) | 7.6 | 5.8 | 7.6 | 20.7 | 15.8 | 18.6 | 22.1 | 16.8 | 20.1 | 15 | 25 | 15 |
| sum | 12.2 | 6.3 | 7.4 | 18.2 | 12.8 | 17.2 | 21.9 | 14.3 | 18.7 | 15 | 25 | 15 |