Show Nav →
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.

FAM129B

Previous Assay Next Assay
Available Assays

Overview Data source: UniProt

Official Gene Symbol Other Aliases
FAM129B C9orf88
Sequence Length (AA) Molecular Weight (Da)
746 84138
Protein Name
Niban-like protein 1
Sources
UniProt
PhosphoSitePlus ®
GeneCards 		Human Protein Atlas

Protein Sequence hover to view complete sequence

10 20 30 40 50
MGDVLSTHLD DARRQHIAEK TGKILTEFLQ FYEDQYGVAL FNSMRHEIEG
60 70 80 90 100
TGLPQAQLLW RKVPLDERIV FSGNLFQHQE DSKKWRNRFS LVPHNYGLVL
110 120 130 140 150
YENKAAYERQ VPPRAVINSA GYKILTSVDQ YLELIGNSLP GTTAKSGSAP
160 170 180 190 200
ILKCPTQFPL ILWHPYARHY YFCMMTEAEQ DKWQAVLQDC IRHCNNGIPE
210 220 230 240 250
DSKVEGPAFT DAIRMYRQSK ELYGTWEMLC GNEVQILSNL VMEELGPELK
260 270 280 290 300
AELGPRLKGK PQERQRQWIQ ISDAVYHMVY EQAKARFEEV LSKVQQVQPA
310 320 330 340 350
MQAVIRTDMD QIITSKEHLA SKIRAFILPK AEVCVRNHVQ PYIPSILEAL
360 370 380 390 400
MVPTSQGFTE VRDVFFKEVT DMNLNVINEG GIDKLGEYME KLSRLAYHPL
410 420 430 440 450
KMQSCYEKME SLRLDGLQQR FDVSSTSVFK QRAQIHMREQ MDNAVYTFET
460 470 480 490 500
LLHQELGKGP TKEELCKSIQ RVLERVLKKY DYDSSSVRKR FFREALLQIS
510 520 530 540 550
IPFLLKKLAP TCKSELPRFQ ELIFEDFARF ILVENTYEEV VLQTVMKDIL
560 570 580 590 600
QAVKEAAVQR KHNLYRDSMV MHNSDPNLHL LAEGAPIDWG EEYSNSGGGG
610 620 630 640 650
SPSPSTPESA TLSEKRRRAK QVVSVVQDEE VGLPFEASPE SPPPASPDGV
660 670 680 690 700
TEIRGLLAQG LRPESPPPAG PLLNGAPAGE SPQPKAAPEA SSPPASPLQH
710 720 730 740 746
LLPGKAVDLG PPKPSDQETG EQVSSPSSHP ALHTTTEDSA GVQTEF

Data source: UniProt

Protein Map Collapse protein map

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

Uniprot Database Entry PhosphoSitePlus ®

Click a point on a node
to view detailed assay information below
All other points link out to UniProt


Phosphorylation Acetylation Ubiquitylation Other

loading

Loader

Assay Details for CPTAC-968 Collapse assay details

Data source: Panorama

Official Gene Symbol
FAM129B
Peptide Modified Sequence
AAPEASS[+80.0]PPASPLQHLLPGK
Modification Type
Phospho (ST)
Protein - Site of Modification
692
Peptide - Site of Modification
7
Peptide Start
686
Peptide End
705
CPTAC ID
CPTAC-968
Peptide Molecular Mass
2,047.0140
Species
Homo sapiens (Human)
Assay Type
Enrichment MRM
Enrichment Method
N/A
Matrix
cell lysate
Submitting Laboratory
Fred Hutchinson Cancer Research Center
Submitting Lab PI
Amanda Paulovich

Publication

View Details (opens in a new window)

Kennedy JJ, Yan P, Zhao L, Ivey RG, Voytovich U, Moore HD, Lin C, Pogosova-Agadjanyan EL, Stirewalt DL, Reding KW, Whiteaker JR, Paulovich AG. Immobilized metal affinity chromatography coupled to multiple reaction monitoring enables reproducible quantification of phospho-signaling. Molecular and Cellular Proteomics. mcp.O115.054940

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
QTrap 5500 (Sciex)
Internal Standard
synthetic peptide
Peptide Standard Purity
Crude
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
nanoLC-2D (Eksigent)
Column Packing
ChromXP C18-CL, 3 µm, 120 Å
Column Dimensions
75 µm x 15cm
Flow Rate
300 nL/min

Chromatograms

Data source: Panorama

view larger image
view larger image
view larger image

Response Curves

Data source: Panorama

view larger image
view larger image
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
y12 (2+) 26.9 39.4 44 36.7 32.2 68.2 45.5 50.9 81.2 14 22 14
y14 (2+) 42.1 17.8 16.1 36.1 18.4 18.4 55.5 25.6 24.4 14 22 14
y15 (2+) 72.2 20.9 10.6 53.4 20.4 18.3 89.8 29.2 21.1 14 22 14
y16 (2+) 41.2 20.6 10.4 25.3 15.8 17.4 48.3 26 20.3 14 22 14
y18 (2+) 70.5 19.7 8.5 43 28 12.1 82.6 34.2 14.8 14 22 14
sum 52 17.1 8.5 30.8 21.8 12.1 60.4 27.7 14.8 14 22 14

Additional Resources and Comments

Resources
Download SOPs
View Peptide in Panorama
View Protein in Panorama
Comments

Assay Details for CPTAC-75 Collapse assay details

Data source: Panorama

Official Gene Symbol
FAM129B
Peptide Sequence
FQELIFEDFAR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
519
Peptide End
529
CPTAC ID
CPTAC-75
Peptide Molecular Mass
1,413.6929
Species
Homo sapiens (Human)
Assay Type
Direct MRM
Matrix
cell line lysate pool
Submitting Laboratory
Fred Hutchinson Cancer Research Center
Submitting Lab PI
Amanda Paulovich

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

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

view larger image
view larger image
view larger image

Response Curves

Data source: Panorama

view larger image
view larger image
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
y9 (1+) 8.7 7.9 7.6 19.5 10.9 14.2 21.4 13.5 16.1 15 25 15
y6 (1+) 7.6 22.2 18.5 17.2 30.1 29.3 18.8 37.4 34.7 15 25 15
y5 (1+) 42.9 15.3 13.4 52.9 17.3 17.3 68.1 23.1 21.9 15 25 15
sum 7.6 14.5 13.3 18.2 20.9 22 19.7 25.4 25.7 15 25 15

Selectivity

Data source: Panorama

view larger image
Slope of Curve Fit for cell line
fragment_ion HCC1187 HCC1419 HCC1954 HCC70 MCF12A MDAMB175VII ZR751 ZR7530
y6 (1+) -0.28 -0.84 -0.48 -0.52 -0.02 -0.14 -1.47 0.08
y9 (1+) -0.6 -0.79 -0.39 -0.34 -0.35 -0.43 -1.2 -0.68
y5 (1+) -0.43 -0.78 -0.19 -0.1 -0.37 -0.48 -0.56 -1.28
sum -0.37 -0.82 -0.41 -0.44 -0.14 -0.25 -1.31 -0.2

Stability

Data source: Panorama

view larger image
Fragment ion / Transition control_intra_CV actual_temp_intra_CV frozen_intra_CV FTx1_intra_CV FTx2_intra_CV
y6 (1+) 20.8 14.2 9.6 NA 4.3
y5 (1+) 10.1 13.1 9.7 NA 16
y9 (1+) 3 3.4 3.1 NA 6.7
sum 12.4 10.6 6 NA 5.7
Fragment ion / Transition all_intra_CV all_inter_CV
y6 (1+) 12.6 11
y5 (1+) 12.4 11.8
y9 (1+) 3.9 5
sum 9.1 7.5

Endogenous

Data source: Panorama

view larger image
Fragment ion / Transition intra_CV inter_CV total_CV
y6 (1+) 6.5 12.3 13.9
y9 (1+) 8.1 11.4 14
y5 (1+) 12.1 15.2 19.4
sum 6.5 11.7 13.4

Additional Resources and Comments

Resources
Download SOPs
View Peptide in Panorama
View Protein in Panorama
Comments