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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.

ABAT

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Available Assays

Overview Data source: UniProt

Official Gene Symbol Other Aliases
ABAT GABAT
Sequence Length (AA) Molecular Weight (Da)
500 56439
Protein Name
4-aminobutyrate aminotransferase, mitochondrial
Sources
UniProt
PhosphoSitePlus ®
GeneCards 		Human Protein Atlas

Protein Sequence hover to view complete sequence

10 20 30 40 50
MASMLLAQRL ACSFQHSYRL LVPGSRHISQ AAAKVDVEFD YDGPLMKTEV
60 70 80 90 100
PGPRSQELMK QLNIIQNAEA VHFFCNYEES RGNYLVDVDG NRMLDLYSQI
110 120 130 140 150
SSVPIGYSHP ALLKLIQQPQ NASMFVNRPA LGILPPENFV EKLRQSLLSV
160 170 180 190 200
APKGMSQLIT MACGSCSNEN ALKTIFMWYR SKERGQRGFS QEELETCMIN
210 220 230 240 250
QAPGCPDYSI LSFMGAFHGR TMGCLATTHS KAIHKIDIPS FDWPIAPFPR
260 270 280 290 300
LKYPLEEFVK ENQQEEARCL EEVEDLIVKY RKKKKTVAGI IVEPIQSEGG
310 320 330 340 350
DNHASDDFFR KLRDIARKHG CAFLVDEVQT GGGCTGKFWA HEHWGLDDPA
360 370 380 390 400
DVMTFSKKMM TGGFFHKEEF RPNAPYRIFN TWLGDPSKNL LLAEVINIIK
410 420 430 440 450
REDLLNNAAH AGKALLTGLL DLQARYPQFI SRVRGRGTFC SFDTPDDSIR
460 470 480 490 500
NKLILIARNK GVVLGGCGDK SIRFRPTLVF RDHHAHLFLN IFSDILADFK

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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Phosphorylation Acetylation Ubiquitylation Other

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Assay Details for CPTAC-3 Collapse assay details

Data source: Panorama

Official Gene Symbol
ABAT
Peptide Sequence
ALLTGLLDLQAR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
414
Peptide End
425
CPTAC ID
CPTAC-3
Peptide Molecular Mass
1,282.7609
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

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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
y9 (1+) 8.9 14.3 6.5 13.5 26.5 22.1 16.2 30.1 23 15 25 15
y8 (1+) 19.4 11.1 11.4 28 21.2 20.2 34.1 23.9 23.2 15 25 15
y6 (1+) 15.4 17.1 10.4 19.8 28.8 38.9 25.1 33.5 40.3 15 25 15
sum 9.9 11.7 8.4 15.9 23.8 24 18.7 26.5 25.4 15 25 15

Selectivity

Data source: Panorama

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Slope of Curve Fit for cell line
fragment_ion HCC1187 HCC1419 HCC1954 HCC70 MCF12A MDAMB175VII ZR751 ZR7530
y6 (1+) -15.76 -9.55 -21.39 -64.31 -49.7 -2.77 -0.06 -0.55
y9 (1+) -46.91 -6.99 -14.58 -63.43 -136.88 -3.34 -0.05 -0.54
y8 (1+) -5.36 -3.73 -8.01 -8.12 -15.41 -1.71 -0.03 -0.35
sum -11.23 -5.86 -10.67 -20.1 -32.56 -2.42 -0.04 -0.46

Stability

Data source: Panorama

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Fragment ion / Transition control_intra_CV actual_temp_intra_CV frozen_intra_CV FTx1_intra_CV FTx2_intra_CV
y6 (1+) 22.5 36.3 4.6 NA 22.3
y8 (1+) 17.1 24.4 3.3 NA 21.6
y9 (1+) 12.2 4.4 5.9 NA 14.7
sum 14.7 21.1 3.2 NA 19.6
Fragment ion / Transition all_intra_CV all_inter_CV
y6 (1+) 24.4 22.2
y8 (1+) 18.2 15.2
y9 (1+) 8.3 12.3
sum 15.9 13.8

Endogenous

Data source: Panorama

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Fragment ion / Transition intra_CV inter_CV total_CV
y8 (1+) 11.7 21.1 24.1
y9 (1+) 14.2 25.8 29.4
y6 (1+) 15.9 26.7 31.1
sum 11.7 22.9 25.7

Additional Resources and Comments

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

Assay Details for CPTAC-4 Collapse assay details

Data source: Panorama

Official Gene Symbol
ABAT
Peptide Modified Sequence
GTFC[+57.0]SFDTPDDSIR
Modification Type
Carbamidomethyl Cysteine
Protein - Site of Modification
440
Peptide - Site of Modification
4
Peptide Start
437
Peptide End
450
CPTAC ID
CPTAC-4
Peptide Molecular Mass
1,616.6777
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
y10 (1+) 18.9 12.9 10.5 22.4 14.9 12.3 29.3 19.7 16.2 15 25 15
y9 (1+) 18.8 14.1 17.3 25.9 16.9 18.4 32 22 25.3 15 25 15
y8 (1+) 33.6 16 16.9 33.3 15.9 21.5 47.3 22.6 27.3 15 25 15
sum 23.7 9.6 9 24.3 11.5 10.6 33.9 15 13.9 15 25 15

Additional Resources and Comments

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