SERPINA1, CPTAC-1063 - 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
SERPINA1	AAT, PI

Sequence Length (AA)	Molecular Weight (Da)
418	46737

Protein Name
Alpha-1-antitrypsin

Sources
UniProt PhosphoSitePlus ® GeneCards	Human Protein Atlas

Protein Sequence hover to view complete sequence

10	20	30	40	50
MPSSVSWGIL	LLAGLCCLVP	VSLAEDPQGD	AAQKTDTSHH	DQDHPTFNKI
60	70	80	90	100
TPNLAEFAFS	LYRQLAHQSN	STNIFFSPVS	IATAFAMLSL	GTKADTHDEI
110	120	130	140	150
LEGLNFNLTE	IPEAQIHEGF	QELLRTLNQP	DSQLQLTTGN	GLFLSEGLKL
160	170	180	190	200
VDKFLEDVKK	LYHSEAFTVN	FGDTEEAKKQ	INDYVEKGTQ	GKIVDLVKEL
210	220	230	240	250
DRDTVFALVN	YIFFKGKWER	PFEVKDTEEE	DFHVDQVTTV	KVPMMKRLGM
260	270	280	290	300
FNIQHCKKLS	SWVLLMKYLG	NATAIFFLPD	EGKLQHLENE	LTHDIITKFL
310	320	330	340	350
ENEDRRSASL	HLPKLSITGT	YDLKSVLGQL	GITKVFSNGA	DLSGVTEEAP
360	370	380	390	400
LKLSKAVHKA	VLTIDEKGTE	AAGAMFLEAI	PMSIPPEVKF	NKPFVFLMIE
410	418
QNTKSPLFMG	KVVNPTQK

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-651 Collapse assay details

Data source: Panorama

Official Gene Symbol: SERPINA1
Peptide Modified Sequence: YLGN[+1.0]ATAIFFLPDEGK
Modification Type: Deamidated (NQ)
Protein - Site of Modification: 271
Peptide - Site of Modification: 4
Peptide Start: 268
Peptide End: 283

CPTAC ID: CPTAC-651
Peptide Molecular Mass: 1,755.8719
Species: Homo sapiens (Human)
Assay Type: Enrichment MRM
Enrichment Method: N/A
Matrix: serum
Submitting Laboratory: Johns Hopkins University
Submitting Lab PI: Daniel Chan, Hui Zhang, Zhen Zhang

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument: Q-Exactive (ThermoFisher)
Internal Standard: synthetic peptide
Peptide Standard Purity: Crude
Peptide Standard Label Type: 13C and 15N at C-terminus K

LC: Dionex UltiMate 3000 RSLCnano LC (ThermoFisher)
Column Packing: Acclaim PepMap100 C18, 5um (Trap); Acclaim PepMap RSLC C18, 2um (Analytical)
Column Dimensions: 300um x 5mm (Trap); 75um x 25cm (Analytical)
Flow Rate: 0.5 uL/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
y8 (1+)	3.6	2.2	2.5	4.4	2.5	3.3	5.7	3.3	4.1	15	15	15
y5 (1+)	2.6	2.4	2.1	4.2	2.8	2.9	4.9	3.7	3.6	15	15	15
b9 (1+)	20.6	14.6	9.9	26.6	15.1	9.6	33.6	21	13.8	15	15	15
sum	2.5	2.3	2	3.8	2.7	2.9	4.5	3.5	3.5	15	15	15

Additional Resources and Comments

Resources

Download SOPs

View Peptide in Panorama

View Protein in Panorama

Comments

Assay Details for non-CPTAC-1063 Collapse assay details

Data source: Panorama

Official Gene Symbol: SERPINA1
Peptide Sequence: LSITGTYDLK
Modification Type: unmodified
Protein - Site of Modification: N/A
Peptide - Site of Modification: N/A
Peptide Start: 315
Peptide End: 324

CPTAC ID: non-CPTAC-1063
Peptide Molecular Mass: 1,109.5968
Species: Homo sapiens (Human)
Assay Type: Direct MRM
Matrix: plasma
Submitting Laboratory: UVic-Genome BC Proteomics Centre
Submitting Lab PI: Christoph Borchers