HLA-E, CPTAC-6048 - 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
HLA-E	HLA-6.2, HLAE

Sequence Length (AA)	Molecular Weight (Da)
358	40058

Protein Name
HLA class I histocompatibility antigen, alpha chain E

Sources
UniProt PhosphoSitePlus ® GeneCards	Human Protein Atlas

Protein Sequence hover to view complete sequence

10	20	30	40	50
MVDGTLLLLL	SEALALTQTW	AGSHSLKYFH	TSVSRPGRGE	PRFISVGYVD
60	70	80	90	100
DTQFVRFDND	AASPRMVPRA	PWMEQEGSEY	WDRETRSARD	TAQIFRVNLR
110	120	130	140	150
TLRGYYNQSE	AGSHTLQWMH	GCELGPDGRF	LRGYEQFAYD	GKDYLTLNED
160	170	180	190	200
LRSWTAVDTA	AQISEQKSND	ASEAEHQRAY	LEDTCVEWLH	KYLEKGKETL
210	220	230	240	250
LHLEPPKTHV	THHPISDHEA	TLRCWALGFY	PAEITLTWQQ	DGEGHTQDTE
260	270	280	290	300
LVETRPAGDG	TFQKWAAVVV	PSGEEQRYTC	HVQHEGLPEP	VTLRWKPASQ
310	320	330	340	350
PTIPIVGIIA	GLVLLGSVVS	GAVVAAVIWR	KKSSGGKGGS	YSKAEWSDSA
358
QGSESHSL

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-6048 Collapse assay details

Data source: Panorama

Official Gene Symbol: HLA-E
Peptide Sequence: SWTAVDTAAQISEQK
Modification Type: unmodified
Protein - Site of Modification: N/A
Peptide - Site of Modification: N/A
Peptide Start: 153
Peptide End: 167

CPTAC ID: CPTAC-6048
Peptide Molecular Mass: 1,633.7948
Species: Human
Assay Type: Enrichment MRM
Enrichment Method: peptide immunoaffinity
Matrix: FFPE lung tumor tissue lysate pool
Submitting Laboratory: Fred Hutchinson Cancer Research Center
Submitting Lab PI: Amanda Paulovich

Publication

View Details (opens in a new window)

Whiteaker JR, Zhao L, Schoenherr RM, Huang D, Lundeen RA, Voytovich U, Kennedy JJ, Ivey RG, Lin C, Murillo OD, Lorentzen TD, Colantonio S, Caceres TW, Roberts RR, Knotts JG, Reading JJ, Perry CD, Richardson CW, Garcia-Buntley SS, Bocik W, Hewitt SM, Chowdhury S, Vandermeer J, Smith SD, Gopal AK, Ramchurren N, Fling SP, Wang P, Paulovich AG. A multiplexed assay for quantifying immunomodulatory proteins supports correlative studies in immunotherapy clinical trials. Front Oncol. 2023 May 2;13:1168710. doi: 10.3389/fonc.2023.1168710. PMID: 37205196; PMCID: PMC10185886.

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument: QTRAP 5500
Internal Standard: peptide
Peptide Standard Purity: >95%
Peptide Standard Label Type: 13C and 15N at C-terminus K

LC: Eksigent nanoLC 425
Column Packing: 3 µm ChromXP C18EP, 120 Å
Column Dimensions: 150 x 0.075 mm
Flow Rate: 0.3 µL/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
y10 (1+)	22.1	11.3	9.2	26.3	9.1	13	34.4	14.5	15.9	15	15	15
y4 (1+)	17.6	7.7	10.3	23.9	8.3	12.1	29.7	11.3	15.9	15	15	15
y5 (1+)	32.3	13.9	15.4	32.8	15.5	15.9	46	20.8	22.1	15	15	15
y6 (1+)	19.1	9.9	17	20.9	13.1	19.5	28.3	16.4	25.9	15	15	15
y7 (1+)	19.9	12	17.4	23.7	12.4	14	30.9	17.3	22.3	15	15	15
y8 (1+)	31.8	14.8	9.8	36	12.9	13.4	48	19.6	16.6	15	15	15
y9 (1+)	21.5	13.9	15.8	25.5	14.9	17.8	33.4	20.4	23.8	15	15	15
sum	16.1	8.8	10.5	21.6	6.8	9.7	26.9	11.1	14.3	15	15	15

HLA-E

Overview Data source: UniProt

Protein Sequence hover to view complete sequence

Protein Map Collapse protein map

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

Assay Details for CPTAC-6048 Collapse assay details

Publication

Assay Parameters Collapse assay parameters

Chromatograms

Response Curves

Repeatability

Additional Resources and Comments

Comments

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HLA-E

Overview Data source: UniProt

Protein Sequence hover to view complete sequence

Protein Map Collapse protein map

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

Assay Details for CPTAC-6048 Collapse assay details

Publication

Assay Parameters Collapse assay parameters

Chromatograms

Response Curves

Repeatability

Additional Resources and Comments

Comments