PRDX3, CPTAC-115 - 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
PRDX3	AOP1

Sequence Length (AA)	Molecular Weight (Da)
256	27693

Protein Name
Thioredoxin-dependent peroxide reductase, mitochondrial

Sources
UniProt PhosphoSitePlus ® GeneCards	Human Protein Atlas

Protein Sequence hover to view complete sequence

10	20	30	40	50
MAAAVGRLLR	ASVARHVSAI	PWGISATAAL	RPAACGRTSL	TNLLCSGSSQ
60	70	80	90	100
AKLFSTSSSC	HAPAVTQHAP	YFKGTAVVNG	EFKDLSLDDF	KGKYLVLFFY
110	120	130	140	150
PLDFTFVCPT	EIVAFSDKAN	EFHDVNCEVV	AVSVDSHFSH	LAWINTPRKN
160	170	180	190	200
GGLGHMNIAL	LSDLTKQISR	DYGVLLEGSG	LALRGLFIID	PNGVIKHLSV
210	220	230	240	250
NDLPVGRSVE	ETLRLVKAFQ	YVETHGEVCP	ANWTPDSPTI	KPSPAASKEY
256
FQKVNQ

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-115 Collapse assay details

Data source: Panorama

Official Gene Symbol: PRDX3
Peptide Sequence: GLFIIDPNGVIK
Modification Type: unmodified
Protein - Site of Modification: N/A
Peptide - Site of Modification: N/A
Peptide Start: 185
Peptide End: 196

CPTAC ID: CPTAC-115
Peptide Molecular Mass: 1,284.7442
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
y9 (1+)	6.7	6.2	3.6	12.3	8.6	7.9	14	10.6	8.7	15	25	15
y8 (1+)	6.5	6.9	3.8	17.7	8.6	11.3	18.9	11	11.9	15	25	15
y7 (1+)	9.2	7	5.1	20.8	9.5	9.5	22.7	11.8	10.8	15	25	15
sum	6	6.6	4	17.6	8.7	9.9	18.6	10.9	10.7	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
y7 (1+)	-0.26	-0.06	-0.17	-0.28	-0.05	-0.02	-0.06	-0.05
y9 (1+)	-0.27	-0.07	-0.15	-0.24	-0.07	-0.08	-0.07	-0.01
y8 (1+)	-0.27	-0.06	-0.16	-0.28	-0.05	-0.03	-0.08	-0.03
sum	-0.27	-0.06	-0.16	-0.27	-0.05	-0.03	-0.07	-0.04

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
y7 (1+)	1.9	1.2	2.5	NA	3.6
y8 (1+)	2.5	2.3	2.4	NA	2
y9 (1+)	3.2	5.5	2.5	NA	7
sum	2.1	1.7	1.6	NA	2

Fragment ion / Transition	all_intra_CV	all_inter_CV
y7 (1+)	2.1	2.6
y8 (1+)	2.3	2
y9 (1+)	4.7	4.4
sum	1.8	1.7

Endogenous

Data source: Panorama

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Fragment ion / Transition	intra_CV	inter_CV	total_CV
y7 (1+)	7.2	9.5	11.9
y9 (1+)	6.4	8.3	10.5
y8 (1+)	7	8.7	11.2
sum	6.8	8.7	11

Additional Resources and Comments

Resources

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View Peptide in Panorama

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