Cx3cl1, CPTAC-3612 - 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
Cx3cl1	Cx3c, Fkn, Scyd1

Sequence Length (AA)	Molecular Weight (Da)
395	42099

Protein Name
Fractalkine

Sources
UniProt PhosphoSitePlus ® GeneCards	Human Protein Atlas

Protein Sequence hover to view complete sequence

10	20	30	40	50
MAPSPLAWLL	RLAAFFHLCT	LLPGQHLGMT	KCEIMCDKMT	SRIPVALLIR
60	70	80	90	100
YQLNQESCGK	RAIVLETTQH	RRFCADPKEK	WVQDAMKHLD	HQAAALTKNG
110	120	130	140	150
GKFEKRVDNV	TPGITLATRG	LSPSALTKPE	SATLEDLALE	LTTISQEARG
160	170	180	190	200
TMGTSQEPPA	AVTGSSLSTS	EAQDAGLTAK	PQSIGSFEAA	DISTTVWPSP
210	220	230	240	250
AVYQSGSSSW	AEEKATESPS	TTAPSPQVST	TSPSTPEENV	GSEGQPPWVQ
260	270	280	290	300
GQDLSPEKSL	GSEEINPVHT	DNFQERGPGN	TVHPSVAPIS	SEETPSPELV
310	320	330	340	350
ASGSQAPKIE	EPIHATADPQ	KLSVLITPVP	DTQAATRRQA	VGLLAFLGLL
360	370	380	390	395
FCLGVAMFAY	QSLQGCPRKM	AGEMVEGLRY	VPRSCGSNSY	VLVPV

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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All other points link out to UniProt

Assay Details for CPTAC-5967 Collapse assay details

Data source: Panorama

Official Gene Symbol: CX3CL1
Peptide Sequence: ALGTSPELPTGVTGSSGTR
Modification Type: unmodified
Protein - Site of Modification: N/A
Peptide - Site of Modification: 4
Peptide Start: 150
Peptide End: 168

CPTAC ID: CPTAC-5967
Peptide Molecular Mass: 1,786.9061
Species: Homo sapiens (Human)
Assay Type: Enrichment MRM
Enrichment Method: N/A
Matrix: FFPE tumor tissue lysate pool
Submitting Laboratory: Fred Hutchinson Cancer Research Center
Submitting Lab PI: Amanda Paulovich

Publication

View Details (opens in a new window)

Targeted Mass Spectrometry Enables Multiplexed Quantification of Immunomodulatory Proteins in Clinical Biospecimens.Whiteaker JR, Lundeen RA, Zhao L, Schoenherr RM, Burian A, Huang D, Voytovich U, Wang T, Kennedy JJ, Ivey RG, Lin C, Murillo OD, Lorentzen TD, Thiagarajan M, Colantonio S, Caceres TW, Roberts RR, Knotts JG, Reading JJ, Kaczmarczyk JA, Richardson CW, Garcia-Buntley SS, Bocik W, Hewitt SM, Murray KE, Do N, Brophy M, Wilz SW, Yu H, Ajjarapu S, Boja E, Hiltke T, Rodriguez H, Paulovich AG.Front Immunol. 2021 Nov 11;12:765898. doi: 10.3389/fimmu.2021.765898. eCollection 2021.PMID: 34858420

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 R

LC: Eksigent nanoLC 425
Column Packing: 3 µm ChromXP C18EP, 120 Å
Column Dimensions: 150 x 0.3 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
b7 (1+)	9.6	12.3	10.3	11.3	15.2	16.8	14.8	19.6	19.7	13	25	14
y7 (1+)	6.8	9	4	10	12	14.3	12.1	15	14.8	13	25	14
y9 (1+)	27.1	14.8	8.3	27.2	19.3	14.7	38.4	24.3	16.9	13	25	14
y11 (1+)	4.1	5.6	3.1	6.2	11.2	10.6	7.4	12.5	11	13	25	14
y12 (1+)	14.6	7.2	6.7	17.4	13.2	14	22.7	15	15.5	13	25	14
b8 (1+)	5	7.5	4.8	9.8	11.3	12.1	11	13.6	13	13	25	14
y6 (1+)	17.6	13.1	13.9	17.7	17.4	19.1	25	21.8	23.6	13	25	14
sum	3.7	5.2	2.7	6.8	11.1	11.3	7.7	12.3	11.6	13	25	14

Additional Resources and Comments

Resources

Download SOPs

View Peptide in Panorama

View Protein in Panorama

View in CPTC Antibody Portal

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