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Please include the following statement when referencing the CPTAC Assay Portal
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.

EPHA4

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Available Assays

Overview Data source: UniProt

Official Gene Symbol Other Aliases
EPHA4 HEK8, SEK, TYRO1
Sequence Length (AA) Molecular Weight (Da)
986 109860
Protein Name
Ephrin type-A receptor 4
Sources
UniProt
PhosphoSitePlus ®
GeneCards 		Human Protein Atlas

Protein Sequence hover to view complete sequence

10 20 30 40 50
MAGIFYFALF SCLFGICDAV TGSRVYPANE VTLLDSRSVQ GELGWIASPL
60 70 80 90 100
EGGWEEVSIM DEKNTPIRTY QVCNVMEPSQ NNWLRTDWIT REGAQRVYIE
110 120 130 140 150
IKFTLRDCNS LPGVMGTCKE TFNLYYYESD NDKERFIREN QFVKIDTIAA
160 170 180 190 200
DESFTQVDIG DRIMKLNTEI RDVGPLSKKG FYLAFQDVGA CIALVSVRVF
210 220 230 240 250
YKKCPLTVRN LAQFPDTITG ADTSSLVEVR GSCVNNSEEK DVPKMYCGAD
260 270 280 290 300
GEWLVPIGNC LCNAGHEERS GECQACKIGY YKALSTDATC AKCPPHSYSV
310 320 330 340 350
WEGATSCTCD RGFFRADNDA ASMPCTRPPS APLNLISNVN ETSVNLEWSS
360 370 380 390 400
PQNTGGRQDI SYNVVCKKCG AGDPSKCRPC GSGVHYTPQQ NGLKTTKVSI
410 420 430 440 450
TDLLAHTNYT FEIWAVNGVS KYNPNPDQSV SVTVTTNQAA PSSIALVQAK
460 470 480 490 500
EVTRYSVALA WLEPDRPNGV ILEYEVKYYE KDQNERSYRI VRTAARNTDI
510 520 530 540 550
KGLNPLTSYV FHVRARTAAG YGDFSEPLEV TTNTVPSRII GDGANSTVLL
560 570 580 590 600
VSVSGSVVLV VILIAAFVIS RRRSKYSKAK QEADEEKHLN QGVRTYVDPF
610 620 630 640 650
TYEDPNQAVR EFAKEIDASC IKIEKVIGVG EFGEVCSGRL KVPGKREICV
660 670 680 690 700
AIKTLKAGYT DKQRRDFLSE ASIMGQFDHP NIIHLEGVVT KCKPVMIITE
710 720 730 740 750
YMENGSLDAF LRKNDGRFTV IQLVGMLRGI GSGMKYLSDM SYVHRDLAAR
760 770 780 790 800
NILVNSNLVC KVSDFGMSRV LEDDPEAAYT TRGGKIPIRW TAPEAIAYRK
810 820 830 840 850
FTSASDVWSY GIVMWEVMSY GERPYWDMSN QDVIKAIEEG YRLPPPMDCP
860 870 880 890 900
IALHQLMLDC WQKERSDRPK FGQIVNMLDK LIRNPNSLKR TGTESSRPNT
910 920 930 940 950
ALLDPSSPEF SAVVSVGDWL QAIKMDRYKD NFTAAGYTTL EAVVHVNQED
960 970 980 986
LARIGITAIT HQNKILSSVQ AMRTQMQQMH GRMVPV

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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Phosphorylation Acetylation Ubiquitylation Other

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Assay Details for CPTAC-2790 Collapse assay details

Data source: Panorama

Official Gene Symbol
EPHA4
Peptide Modified Sequence
TY[+80.0]VDPFTYEDPNQAVR
Modification Type
Phospho (Y)
Protein - Site of Modification
N/A
Peptide - Site of Modification
2
Peptide Start
595
Peptide End
610
CPTAC ID
CPTAC-2790
Peptide Molecular Mass
1,993.8459
Species
Homo sapiens (Human)
Assay Type
Direct PRM
Matrix
Mammalian Cell Lysate
Submitting Laboratory
Johns Hopkins University / Pandey
Submitting Lab PI
Akhilesh Pandey

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
Orbitrap Fusion Lumos
Internal Standard
100fmol
Peptide Standard Purity
Crude (~60%)
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
Easy nLC 1200 System
Column Packing
C18 2um 100A
Column Dimensions
75um i.d. x 50cm
Flow Rate
250nl/min

Chromatograms

Data source: Panorama

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Response Curves

Data source: Panorama

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Retrieving Data

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Repeatability

Data source: Panorama

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  Average intra-assay CV
(within day CV)		 Average inter-assay CV
(between day CV)		 Total CV
equation		 n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
y8 (1+) 41.4 15.1 3.6 58.7 34.2 9.4 71.8 37.4 10.1 15 15 15
y7 (1+) 56.6 28.6 4.9 80.2 41.7 11.5 98.2 50.6 12.5 15 15 15
y6 (1+) 17 3.7 4.9 27.8 9.7 9.1 32.6 10.4 10.3 15 15 15
sum 23.3 5.4 4.4 37.5 16.7 9.4 44.1 17.6 10.4 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-2923 Collapse assay details

Data source: Panorama

Official Gene Symbol
EPHA4
Peptide Sequence
GLNPLTSYVFHVR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
502
Peptide End
514
CPTAC ID
CPTAC-2923
Peptide Molecular Mass
1,501.8041
Species
Homo Sapiens
Assay Type
Direct PRM
Matrix
Tumor Digest
Submitting Laboratory
Washington University in St. Louis
Submitting Lab PI
Reid Townsend

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
ThermoFisher, Q-Exactive
Internal Standard
25 fmol on column
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
Easy-nLC 1000 Thermo Scientific
Column Packing
C18
Column Dimensions
75 µm x 50 cm
Flow Rate
300 nL/min

Chromatograms

Data source: Panorama

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Response Curves

Data source: Panorama

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Retrieving Data

Loader

Repeatability

Data source: Panorama

view larger image
  Average intra-assay CV
(within day CV)		 Average inter-assay CV
(between day CV)		 Total CV
equation		 n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
y8 (1+) 11.9 6.5 8.5 14.2 9.7 10.5 18.5 11.7 13.5 15 15 15
y7 (1+) 10.8 6.9 10.3 13.7 9.6 11.3 17.4 11.8 15.3 15 15 15
y4 (1+) 12.8 6.3 9.6 13.6 9.9 12.5 18.7 11.7 15.8 15 15 15
sum 11.6 6.3 9.2 13.4 9.6 11.3 17.7 11.5 14.6 15 15 15

Additional Resources and Comments

Resources
Download SOPs
View Peptide in Panorama
View Protein in Panorama
Comments

Assay Details for CPTAC-2922 Collapse assay details

Data source: Panorama

Official Gene Symbol
EPHA4
Peptide Modified Sequence
TYQVC[+57.0]NVMEPSQNNWLR
Modification Type
Carbamidomethyl (C)
Protein - Site of Modification
74
Peptide - Site of Modification
5
Peptide Start
69
Peptide End
85
CPTAC ID
CPTAC-2922
Peptide Molecular Mass
2,137.9673
Species
Homo Sapiens
Assay Type
Direct PRM
Matrix
Tumor Digest
Submitting Laboratory
Washington University in St. Louis
Submitting Lab PI
Reid Townsend

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
ThermoFisher, Q-Exactive
Internal Standard
25 fmol on column
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus R
LC
Easy-nLC 1000 Thermo Scientific
Column Packing
C18
Column Dimensions
75 µm x 50 cm
Flow Rate
300 nL/min

Chromatograms

Data source: Panorama

view larger image
view larger image
view larger image

Response Curves

Data source: Panorama

view larger image
view larger image
view larger image

Retrieving Data

Loader

Repeatability

Data source: Panorama

view larger image
  Average intra-assay CV
(within day CV)		 Average inter-assay CV
(between day CV)		 Total CV
equation		 n=
Fragment ion / Transition Low Med High Low Med High Low Med High Low Med High
y7 (1+) 12.2 6.1 6.7 22.5 6.7 9.4 25.6 9.1 11.5 15 15 15
b3 (1+) 28.5 6.1 7.3 35.3 8.5 9.4 45.4 10.5 11.9 15 15 15
y8 (1+) 11.7 5.1 6.3 14.5 4.8 7.7 18.6 7 9.9 15 15 15
sum 9.2 5.1 5.9 11 5.1 7.6 14.3 7.2 9.6 15 15 15

Additional Resources and Comments

Resources
Download SOPs
View Peptide in Panorama
View Protein in Panorama
Comments