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Please include the following statement when referencing the CPTAC Assay Portal
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.

NFKB2

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Available Assays

Overview Data source: UniProt

Official Gene Symbol Other Aliases
NFKB2 LYT10
Sequence Length (AA) Molecular Weight (Da)
900 96749
Protein Name
Nuclear factor NF-kappa-B p100 subunit
Sources
UniProt
PhosphoSitePlus ®
GeneCards 		Human Protein Atlas

Protein Sequence hover to view complete sequence

10 20 30 40 50
MESCYNPGLD GIIEYDDFKL NSSIVEPKEP APETADGPYL VIVEQPKQRG
60 70 80 90 100
FRFRYGCEGP SHGGLPGASS EKGRKTYPTV KICNYEGPAK IEVDLVTHSD
110 120 130 140 150
PPRAHAHSLV GKQCSELGIC AVSVGPKDMT AQFNNLGVLH VTKKNMMGTM
160 170 180 190 200
IQKLQRQRLR SRPQGLTEAE QRELEQEAKE LKKVMDLSIV RLRFSAFLRA
210 220 230 240 250
SDGSFSLPLK PVISQPIHDS KSPGASNLKI SRMDKTAGSV RGGDEVYLLC
260 270 280 290 300
DKVQKDDIEV RFYEDDENGW QAFGDFSPTD VHKQYAIVFR TPPYHKMKIE
310 320 330 340 350
RPVTVFLQLK RKRGGDVSDS KQFTYYPLVE DKEEVQRKRR KALPTFSQPF
360 370 380 390 400
GGGSHMGGGS GGAAGGYGGA GGGGSLGFFP SSLAYSPYQS GAGPMGCYPG
410 420 430 440 450
GGGGAQMAAT VPSRDSGEEA AEPSAPSRTP QCEPQAPEML QRAREYNARL
460 470 480 490 500
FGLAQRSARA LLDYGVTADA RALLAGQRHL LTAQDENGDT PLHLAIIHGQ
510 520 530 540 550
TSVIEQIVYV IHHAQDLGVV NLTNHLHQTP LHLAVITGQT SVVSFLLRVG
560 570 580 590 600
ADPALLDRHG DSAMHLALRA GAGAPELLRA LLQSGAPAVP QLLHMPDFEG
610 620 630 640 650
LYPVHLAVRA RSPECLDLLV DSGAEVEATE RQGGRTALHL ATEMEELGLV
660 670 680 690 700
THLVTKLRAN VNARTFAGNT PLHLAAGLGY PTLTRLLLKA GADIHAENEE
710 720 730 740 750
PLCPLPSPPT SDSDSDSEGP EKDTRSSFRG HTPLDLTCST KVKTLLLNAA
760 770 780 790 800
QNTMEPPLTP PSPAGPGLSL GDTALQNLEQ LLDGPEAQGS WAELAERLGL
810 820 830 840 850
RSLVDTYRQT TSPSGSLLRS YELAGGDLAG LLEALSDMGL EEGVRLLRGP
860 870 880 890 900
ETRDKLPSTA EVKEDSAYGS QSVEQEAEKL GPPPEPPGGL CHGHPQPQVH

Data source: UniProt

Protein Map Collapse protein map

Position of Targeted Peptide Analytes Relative to SNPs, Isoforms, and PTMs

Uniprot Database Entry PhosphoSitePlus ®

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All other points link out to UniProt


Phosphorylation Acetylation Ubiquitylation Other

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Assay Details for CPTAC-721 Collapse assay details

Data source: Panorama

Official Gene Symbol
NFKB2
Peptide Sequence
IEVDLVTHSDPPR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
91
Peptide End
103
CPTAC ID
CPTAC-721
Peptide Molecular Mass
1,476.7573
Species
Homo sapiens (Human)
Assay Type
Enrichment ImmunoMRM
Enrichment Method
peptide immunoaffinity
Matrix
plasma
Submitting Laboratory
Fred Hutchinson Cancer Research Center
Submitting Lab PI
Amanda Paulovich

Publication

View Details (opens in a new window)

Anti-peptide monoclonal antibodies generated for immuno-multiple reaction monitoring-mass spectrometry assays have a high probability of supporting Western blot and ELISA. Schoenherr RM, Saul RG, Whiteaker JR, Yan P, Whiteley GR, Paulovich AG. Mol Cell Proteomics. 2015 Feb;14(2):382-98. doi: 10.1074/mcp.O114.043133. Epub 2014 Dec 15. PMID: 25512614

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
5500 Qtrap
Internal Standard
synthetic peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
Eksigent NanoLC 2D
Column Packing
ReproSil-Pur C18-AQ 3 um
Column Dimensions
100 mm x 75 um ID
Flow Rate
300 nL/min

Chromatograms

Data source: Panorama

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Response Curves

Data source: Panorama

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Retrieving Data

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Repeatability

Data source: Panorama

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  Average intra-assay CV
(within day CV)		 Average inter-assay CV
(between day CV)		 Total CV
equation		 n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
b10 (2+) 31.3 10 7.3 35.2 11.7 9.6 47.1 15.4 12.1 15 15 15
y12 (2+) 28.3 8.9 3.6 69.5 13.1 8.9 75 15.8 9.6 15 15 15
y3 (1+) 16.4 9.5 3.4 18.5 13.1 4.5 24.7 16.2 5.6 15 15 15
sum 22.6 7.9 2.4 48.2 10.9 5.2 53.2 13.5 5.7 15 15 15

Additional Resources and Comments

Resources
Download SOPs
View Peptide in Panorama
View Protein in Panorama
View in CPTC Antibody Portal
Comments

Assay Details for CPTAC-5970 Collapse assay details

Data source: Panorama

Official Gene Symbol
NFKB2
Peptide Sequence
IEVDLVTHSDPPR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
4
Peptide Start
91
Peptide End
103
CPTAC ID
CPTAC-5970
Peptide Molecular Mass
1,476.7573
Species
Homo sapiens (Human)
Assay Type
Enrichment ImmunoMRM
Enrichment Method
peptide immunoaffinity
Matrix
FFPE tumor tissue lysate pool
Submitting Laboratory
Fred Hutchinson Cancer Research Center
Submitting Lab PI
Amanda Paulovich

Publication

View Details (opens in a new window)

Targeted Mass Spectrometry Enables Multiplexed Quantification of Immunomodulatory Proteins in Clinical Biospecimens.Whiteaker JR, Lundeen RA, Zhao L, Schoenherr RM, Burian A, Huang D, Voytovich U, Wang T, Kennedy JJ, Ivey RG, Lin C, Murillo OD, Lorentzen TD, Thiagarajan M, Colantonio S, Caceres TW, Roberts RR, Knotts JG, Reading JJ, Kaczmarczyk JA, Richardson CW, Garcia-Buntley SS, Bocik W, Hewitt SM, Murray KE, Do N, Brophy M, Wilz SW, Yu H, Ajjarapu S, Boja E, Hiltke T, Rodriguez H, Paulovich AG.Front Immunol. 2021 Nov 11;12:765898. doi: 10.3389/fimmu.2021.765898. eCollection 2021.PMID: 34858420

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
QTRAP 5500
Internal Standard
peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
Eksigent nanoLC 425
Column Packing
3 µm ChromXP C18EP, 120 Å
Column Dimensions
150 x 0.3 mm
Flow Rate
0.3 µL/min

Chromatograms

Data source: Panorama

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view larger image
view larger image

Response Curves

Data source: Panorama

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view larger image

Retrieving Data

Loader

Repeatability

Data source: Panorama

view larger image
  Average intra-assay CV
(within day CV)		 Average inter-assay CV
(between day CV)		 Total CV
equation		 n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
y3 (1+) 14.5 9.8 15.1 25.3 21.5 26.9 29.2 23.6 30.8 13 25 14
y10 (2+) 12.6 6.7 4.5 16.3 12.4 13.6 20.6 14.1 14.3 13 25 14
y12 (2+) 12.5 5.8 3 15.3 12.6 13.7 19.8 13.9 14 13 25 14
sum 11.9 6.1 7.2 14.6 12.4 15.5 18.8 13.8 17.1 13 25 14

Additional Resources and Comments

Resources
Download SOPs
View Peptide in Panorama
View Protein in Panorama
View in CPTC Antibody Portal
Comments