CD6, CPTAC-1316 - 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
CD6	N/A

Sequence Length (AA)	Molecular Weight (Da)
668	71801

Protein Name
T-cell differentiation antigen CD6

Sources
UniProt PhosphoSitePlus ® GeneCards	Human Protein Atlas

Protein Sequence hover to view complete sequence

10	20	30	40	50
MWLFFGITGL	LTAALSGHPS	PAPPDQLNTS	SAESELWEPG	ERLPVRLTNG
60	70	80	90	100
SSSCSGTVEV	RLEASWEPAC	GALWDSRAAE	AVCRALGCGG	AEAASQLAPP
110	120	130	140	150
TPELPPPPAA	GNTSVAANAT	LAGAPALLCS	GAEWRLCEVV	EHACRSDGRR
160	170	180	190	200
ARVTCAENRA	LRLVDGGGAC	AGRVEMLEHG	EWGSVCDDTW	DLEDAHVVCR
210	220	230	240	250
QLGCGWAVQA	LPGLHFTPGR	GPIHRDQVNC	SGAEAYLWDC	PGLPGQHYCG
260	270	280	290	300
HKEDAGAVCS	EHQSWRLTGG	ADRCEGQVEV	HFRGVWNTVC	DSEWYPSEAK
310	320	330	340	350
VLCQSLGCGT	AVERPKGLPH	SLSGRMYYSC	NGEELTLSNC	SWRFNNSNLC
360	370	380	390	400
SQSLAARVLC	SASRSLHNLS	TPEVPASVQT	VTIESSVTVK	IENKESRELM
410	420	430	440	450
LLIPSIVLGI	LLLGSLIFIA	FILLRIKGKY	ALPVMVNHQH	LPTTIPAGSN
460	470	480	490	500
SYQPVPITIP	KEVFMLPIQV	QAPPPEDSDS	GSDSDYEHYD	FSAQPPVALT
510	520	530	540	550
TFYNSQRHRV	TDEEVQQSRF	QMPPLEEGLE	ELHASHIPTA	NPGHCITDPP
560	570	580	590	600
SLGPQYHPRS	NSESSTSSGE	DYCNSPKSKL	PPWNPQVFSS	ERSSFLEQPP
610	620	630	640	650
NLELAGTQPA	FSAGPPADDS	SSTSSGEWYQ	NFQPPPQPPS	EEQFGCPGSP
660	668
SPQPDSTDND	DYDDISAA

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-1316 Collapse assay details

Data source: Panorama

Official Gene Symbol: CD6
Peptide Modified Sequence: EGDN[+1.0]ITLK
Modification Type: Deamidated (N)
Protein - Site of Modification: 4
Peptide - Site of Modification: 4
Peptide Start: 1
Peptide End: 8

CPTAC ID: CPTAC-1316
Peptide Molecular Mass: 889.4393
Species: Homo sapiens (Human)
Assay Type: Direct MRM
Matrix: Human ovarian tumor tissue digest
Submitting Laboratory: Johns Hopkins University
Submitting Lab PI: Daniel Chan, Hui Zhang, Zhen Zhang

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument: TSQ Vantage
Internal Standard: Stable isotope-labeled peptides
Peptide Standard Purity: Crude (~60%)
Peptide Standard Label Type: 13C and 15N at C-terminus K

LC: Accela 1250 Quaternary Low Pump
Column Packing: C18, 3 µm, 300 Å
Column Dimensions: 1.0 mm I.D. x 15 cm
Flow Rate: 50 µL/min

Assay Multiplexing Expand assay panel

Johns Hopkins University-D

CPTAC-1297: SUN1. TLSPTGN[+1.0]ISSAPK	CPTAC-1298: COLGALT1. TALWVATDHNM[+16.0]DN[+1.0]TSTVLR	CPTAC-1299: APOB. FN[+1.0]SSYLQGTNQITGR
CPTAC-1300: APOB. FVEGSHN[+1.0]STVSLTTK	CPTAC-1301: QPCT. YFQN[+1.0]YSYGGVIQDDHIPFLR	CPTAC-1302: CA1. EIINVGHSFHVNFEDNDN[+1.0]R
CPTAC-1303: VIM. QDVDN[+1.0]ASLAR	CPTAC-1304: DPP7. N[+1.0]LSASVIAVTIQGGAHHLDLR	CPTAC-1305: SERPING1. M[+16.0]LFVEPILEVSSLPTTN[+1.0]STTNSATK
CPTAC-1306: CEACAM8. LFIPN[+1.0]ITTK	CPTAC-1307: DSG2. ESFLAPSSGVQPTLAM[+16.0]PNIAVGQN[+1.0]VTVTER	CPTAC-1308: M6PR. LKPLFN[+1.0]K
CPTAC-1309: ACP2. FNPN[+1.0]ISWQPIPVHTVPITEDR	CPTAC-1310: PCDH1. AN[+1.0]DSDQGANAEIEYTFHQAPEVVR	CPTAC-1311: ITGB8. NYAIIKPIGFN[+1.0]ETAK
CPTAC-1312: CALCOCO2. SAN[+1.0]STLAQALHWTR	CPTAC-1313: MINPP1. N[+1.0]ATALYHVEAFK	CPTAC-1314: KRT40. TYN[+1.0]ASVLPVR
CPTAC-1315: MMP23B. ALM[+16.0]HLN[+1.0]ATLR	CPTAC-1316: CD6. EGDN[+1.0]ITLK	CPTAC-1317: CD6. N[+1.0]ATVVWM[+16.0]K
CPTAC-1318: CD6. TVNSLN[+1.0]VSAISIPEHDEADEISDENR	CPTAC-1319: IRAK2. TILVDN[+1.0]NTWNNTHISR	CPTAC-1320: AEN. LN[+1.0]STAQK
CPTAC-1321: PLTP. N[+1.0]WSLPNR	CPTAC-1322: OVGP1. FVPIYGN[+1.0]HSSVNSVTPQTSPLSLK	CPTAC-2612: MMP23B. ALM[+16.0]HLN[+1.0]ATLR

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
y4 (1+)	98.8	41.2	32.4	78.9	48.6	33.8	126.4	63.7	46.8	15	15	15
y3 (1+)	62.6	22.2	12	56.2	27.6	15.3	84.1	35.4	19.4	15	15	15
y5 (1+)	107.3	48.7	40	95.7	46.6	31.8	143.8	67.4	51.1	15	15	15
sum	42.6	16.3	11.6	49.8	20.6	12.8	65.5	26.3	17.3	15	15	15

Additional Resources and Comments

Resources

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View Peptide in Panorama

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Comments

Assay Details for CPTAC-1317 Collapse assay details

Data source: Panorama

Official Gene Symbol: CD6
Peptide Modified Sequence: N[+1.0]ATVVWM[+16.0]K
Modification Type: Deamidated (N), Oxidation (M)
Protein - Site of Modification: 1, 7
Peptide - Site of Modification: 1, 7
Peptide Start: 1
Peptide End: 8

CPTAC ID: CPTAC-1317
Peptide Molecular Mass: 964.4688
Species: Homo sapiens (Human)
Assay Type: Direct MRM
Matrix: Human ovarian tumor tissue digest
Submitting Laboratory: Johns Hopkins University
Submitting Lab PI: Daniel Chan, Hui Zhang, Zhen Zhang