PAFAH1B3, CPTAC-246 - CPTAC Assay Portal | Office of Cancer Clinical Proteomics Research

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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
PAFAH1B3	PAFAHG

Sequence Length (AA)	Molecular Weight (Da)
231	25734

Protein Name
Platelet-activating factor acetylhydrolase IB subunit gamma

Sources
UniProt PhosphoSitePlus ® GeneCards	Human Protein Atlas

Protein Sequence hover to view complete sequence

10	20	30	40	50
MSGEENPASK	PTPVQDVQGD	GRWMSLHHRF	VADSKDKEPE	VVFIGDSLVQ
60	70	80	90	100
LMHQCEIWRE	LFSPLHALNF	GIGGDGTQHV	LWRLENGELE	HIRPKIVVVW
110	120	130	140	150
VGTNNHGHTA	EQVTGGIKAI	VQLVNERQPQ	ARVVVLGLLP	RGQHPNPLRE
160	170	180	190	200
KNRQVNELVR	AALAGHPRAH	FLDADPGFVH	SDGTISHHDM	YDYLHLSRLG
210	220	230	231
YTPVCRALHS	LLLRLLAQDQ	GQGAPLLEPA	P

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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Assay Details for CPTAC-246 Collapse assay details

Data source: Panorama

Official Gene Symbol: PAFAH1B3
Peptide Sequence: AIVQLVNER
Modification Type: unmodified
Protein - Site of Modification: N/A
Peptide - Site of Modification: N/A
Peptide Start: 119
Peptide End: 127

CPTAC ID: CPTAC-246
Peptide Molecular Mass: 1,040.5978
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

Repeatability

Data source: Panorama

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	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+)	3.6	4.4	5.3	8.2	4.7	4.6	9	6.4	7	15	25	15
y5 (1+)	7.5	4	5.2	6.6	4.6	4.4	10	6.1	6.8	15	25	15
y6 (2+)	17.9	10.3	5.5	16	9.7	6.4	24	14.1	8.4	15	25	15
sum	4.7	4	4.9	5.9	4.2	4.1	7.5	5.8	6.4	15	25	15

Additional Resources and Comments

Resources

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View Peptide in Panorama

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