SCARB2, CPTAC-128 - 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
SCARB2	CD36L2, LIMP2, LIMPII

Sequence Length (AA)	Molecular Weight (Da)
478	54290

Protein Name
Lysosome membrane protein 2

Sources
UniProt PhosphoSitePlus ® GeneCards	Human Protein Atlas

Protein Sequence hover to view complete sequence

10	20	30	40	50
MGRCCFYTAG	TLSLLLLVTS	VTLLVARVFQ	KAVDQSIEKK	IVLRNGTEAF
60	70	80	90	100
DSWEKPPLPV	YTQFYFFNVT	NPEEILRGET	PRVEEVGPYT	YRELRNKANI
110	120	130	140	150
QFGDNGTTIS	AVSNKAYVFE	RDQSVGDPKI	DLIRTLNIPV	LTVIEWSQVH
160	170	180	190	200
FLREIIEAML	KAYQQKLFVT	HTVDELLWGY	KDEILSLIHV	FRPDISPYFG
210	220	230	240	250
LFYEKNGTND	GDYVFLTGED	SYLNFTKIVE	WNGKTSLDWW	ITDKCNMING
260	270	280	290	300
TDGDSFHPLI	TKDEVLYVFP	SDFCRSVYIT	FSDYESVQGL	PAFRYKVPAE
310	320	330	340	350
ILANTSDNAG	FCIPEGNCLG	SGVLNVSICK	NGAPIIMSFP	HFYQADERFV
360	370	380	390	400
SAIEGMHPNQ	EDHETFVDIN	PLTGIILKAA	KRFQINIYVK	KLDDFVETGD
410	420	430	440	450
IRTMVFPVMY	LNESVHIDKE	TASRLKSMIN	TTLIITNIPY	IIMALGVFFG
460	470	478
LVFTWLACKG	QGSMDEGTAD	ERAPLIRT

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-128 Collapse assay details

Data source: Panorama

Official Gene Symbol: SCARB2
Peptide Modified Sequence: DEVLYVFPSDFC[+57.0]R
Modification Type: Carbamidomethyl Cysteine
Protein - Site of Modification: 274
Peptide - Site of Modification: 12
Peptide Start: 263
Peptide End: 275

CPTAC ID: CPTAC-128
Peptide Molecular Mass: 1,645.7446
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

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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+)	23.3	26.9	32.4	26.2	47.2	22.6	35.1	54.3	39.5	12	12	12
y8 (1+)	28.6	27.3	29.3	38	41	29.9	47.6	49.3	41.9	12	12	12
y7 (1+)	25.8	46	15.9	28.7	27.6	23.1	38.6	53.6	28	12	12	12
sum	17	22.1	12	17.1	22.1	16.7	24.1	31.3	20.6	12	12	12

Additional Resources and Comments

Resources

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View Peptide in Panorama

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