IKBKG, CPTAC-806 - 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
| 10 | 20 | 30 | 40 | 50 |
|---|---|---|---|---|
| MNRHLWKSQL | CEMVQPSGGP | AADQDVLGEE | SPLGKPAMLH | LPSEQGAPET |
| 60 | 70 | 80 | 90 | 100 |
| LQRCLEENQE | LRDAIRQSNQ | ILRERCEELL | HFQASQREEK | EFLMCKFQEA |
| 110 | 120 | 130 | 140 | 150 |
| RKLVERLGLE | KLDLKRQKEQ | ALREVEHLKR | CQQQMAEDKA | SVKAQVTSLL |
| 160 | 170 | 180 | 190 | 200 |
| GELQESQSRL | EAATKECQAL | EGRARAASEQ | ARQLESEREA | LQQQHSVQVD |
| 210 | 220 | 230 | 240 | 250 |
| QLRMQGQSVE | AALRMERQAA | SEEKRKLAQL | QVAYHQLFQE | YDNHIKSSVV |
| 260 | 270 | 280 | 290 | 300 |
| GSERKRGMQL | EDLKQQLQQA | EEALVAKQEV | IDKLKEEAEQ | HKIVMETVPV |
| 310 | 320 | 330 | 340 | 350 |
| LKAQADIYKA | DFQAERQARE | KLAEKKELLQ | EQLEQLQREY | SKLKASCQES |
| 360 | 370 | 380 | 390 | 400 |
| ARIEDMRKRH | VEVSQAPLPP | APAYLSSPLA | LPSQRRSPPE | EPPDFCCPKC |
| 410 | 419 | |||
| QYQAPDMDTL | QIHVMECIE |
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-1044 Collapse assay details
Data source: Panorama
Official Gene Symbol
IKBKG
Peptide Modified Sequence
EC[+57.0]QALEGR
Modification Type
Carbamidomethyl Cysteine
Protein - Site of Modification
167
Peptide - Site of Modification
2
Peptide Start
166
Peptide End
173
CPTAC ID
CPTAC-1044
Peptide Molecular Mass
961.4287
Species
Homo sapiens (Human)
Assay Type
Direct PRM
Matrix
Pooled patient derived xenograft breast tumor digest
Submitting Laboratory
Washington University in St. Louis
Submitting Lab PI
Reid Townsend
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
TripleTOF 5600+ (SCIEX)
Internal Standard
Peptide
Peptide Standard Purity
Crude
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
2DPlus nano-LC (Eksigent)
Column Packing
ChromXP C18-CL, 3 µm, 120 Å
Column Dimensions
200 µm x 15 cm
Flow Rate
800 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+) | 6.6 | 5.1 | 5.3 | 10.2 | 5 | 5.5 | 12.1 | 7.1 | 7.6 | 15 | 15 | 15 |
| y5 (1+) | 11.2 | 3.8 | 3.9 | 11.5 | 4.2 | 3.8 | 16.1 | 5.7 | 5.4 | 15 | 15 | 15 |
| y4 (1+) | 6.6 | 5.5 | 5.9 | 8.5 | 6.9 | 5.6 | 10.8 | 8.8 | 8.1 | 15 | 15 | 15 |
| y3 (1+) | 9.7 | 6.1 | 3.3 | 7.9 | 6.4 | 4.7 | 12.5 | 8.8 | 5.7 | 15 | 15 | 15 |
| sum | 5.9 | 2.2 | 2.7 | 6 | 2.9 | 3.2 | 8.4 | 3.6 | 4.2 | 15 | 15 | 15 |
Additional Resources and Comments
Assay Details for CPTAC-806 Collapse assay details
Data source: Panorama
Official Gene Symbol
IKBKG
Peptide Sequence
ELLQEQLEQLQR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
327
Peptide End
338
CPTAC ID
CPTAC-806
Peptide Molecular Mass
1,525.8100
Species
Homo sapiens (Human)
Assay Type
Direct PRM
Matrix
Pooled patient derived xenograft breast tumor digest
Submitting Laboratory
Washington University in St. Louis
Submitting Lab PI
Reid Townsend
Assay Parameters Collapse assay parameters
Data source: Panorama
Instrument
TripleTOF 5600+ (SCIEX)
Internal Standard
Peptide
Peptide Standard Purity
Crude
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
2DPlus nano-LC (Eksigent)
Column Packing
ChromXP C18-CL, 3 µm, 120 Å
Column Dimensions
200 µm x 15 cm
Flow Rate
800 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 |
| y3 (1+) | 10.4 | 17.2 | 10.3 | 24.8 | 16.8 | 13.8 | 26.9 | 24 | 17.2 | 15 | 15 | 15 |
| y4 (1+) | 9.1 | 9.9 | 7.4 | 9.7 | 10.1 | 10 | 13.3 | 14.1 | 12.4 | 15 | 15 | 15 |
| y5 (1+) | 14.6 | 9.7 | 7 | 15.7 | 9.6 | 7.2 | 21.4 | 13.6 | 10 | 15 | 15 | 15 |
| y6 (1+) | 14.8 | 7.9 | 6.8 | 15.9 | 9.1 | 8.6 | 21.7 | 12.1 | 11 | 15 | 15 | 15 |
| y7 (1+) | 10.5 | 10 | 5.8 | 15.8 | 10.2 | 10.1 | 19 | 14.3 | 11.6 | 15 | 15 | 15 |
| y8 (1+) | 7.2 | 6.7 | 7.3 | 9 | 10.3 | 7.1 | 11.5 | 12.3 | 10.2 | 15 | 15 | 15 |
| y9 (1+) | 13.2 | 6.5 | 5.6 | 15.2 | 8.3 | 7.2 | 20.1 | 10.5 | 9.1 | 15 | 15 | 15 |
| y10 (1+) | 25.2 | 8.8 | 11.2 | 26.2 | 9.7 | 14.8 | 36.4 | 13.1 | 18.6 | 15 | 15 | 15 |
| sum | 5.2 | 3.3 | 3.3 | 9 | 5.4 | 5.3 | 10.4 | 6.3 | 6.2 | 15 | 15 | 15 |