EPHB2, CPTAC-2786 - CPTAC Assay Portal (original) (raw)

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.

Overview Data source: UniProt

Official Gene Symbol Other Aliases
EPHB2 DRT, EPHT3, EPTH3, ERK, HEK5, TYRO5
Sequence Length (AA) Molecular Weight (Da)
1055 117493
Protein Name
Ephrin type-B receptor 2
Sources
UniProt PhosphoSitePlus ® GeneCards Human Protein Atlas

Protein Sequence hover to view complete sequence

10 20 30 40 50
MALRRLGAAL LLLPLLAAVE ETLMDSTTAT AELGWMVHPP SGWEEVSGYD
60 70 80 90 100
ENMNTIRTYQ VCNVFESSQN NWLRTKFIRR RGAHRIHVEM KFSVRDCSSI
110 120 130 140 150
PSVPGSCKET FNLYYYEADF DSATKTFPNW MENPWVKVDT IAADESFSQV
160 170 180 190 200
DLGGRVMKIN TEVRSFGPVS RSGFYLAFQD YGGCMSLIAV RVFYRKCPRI
210 220 230 240 250
IQNGAIFQET LSGAESTSLV AARGSCIANA EEVDVPIKLY CNGDGEWLVP
260 270 280 290 300
IGRCMCKAGF EAVENGTVCR GCPSGTFKAN QGDEACTHCP INSRTTSEGA
310 320 330 340 350
TNCVCRNGYY RADLDPLDMP CTTIPSAPQA VISSVNETSL MLEWTPPRDS
360 370 380 390 400
GGREDLVYNI ICKSCGSGRG ACTRCGDNVQ YAPRQLGLTE PRIYISDLLA
410 420 430 440 450
HTQYTFEIQA VNGVTDQSPF SPQFASVNIT TNQAAPSAVS IMHQVSRTVD
460 470 480 490 500
SITLSWSQPD QPNGVILDYE LQYYEKELSE YNATAIKSPT NTVTVQGLKA
510 520 530 540 550
GAIYVFQVRA RTVAGYGRYS GKMYFQTMTE AEYQTSIQEK LPLIIGSSAA
560 570 580 590 600
GLVFLIAVVV IAIVCNRRGF ERADSEYTDK LQHYTSGHMT PGMKIYIDPF
610 620 630 640 650
TYEDPNEAVR EFAKEIDISC VKIEQVIGAG EFGEVCSGHL KLPGKREIFV
660 670 680 690 700
AIKTLKSGYT EKQRRDFLSE ASIMGQFDHP NVIHLEGVVT KSTPVMIITE
710 720 730 740 750
FMENGSLDSF LRQNDGQFTV IQLVGMLRGI AAGMKYLADM NYVHRDLAAR
760 770 780 790 800
NILVNSNLVC KVSDFGLSRF LEDDTSDPTY TSALGGKIPI RWTAPEAIQY
810 820 830 840 850
RKFTSASDVW SYGIVMWEVM SYGERPYWDM TNQDVINAIE QDYRLPPPMD
860 870 880 890 900
CPSALHQLML DCWQKDRNHR PKFGQIVNTL DKMIRNPNSL KAMAPLSSGI
910 920 930 940 950
NLPLLDRTIP DYTSFNTVDE WLEAIKMGQY KESFANAGFT SFDVVSQMMM
960 970 980 990 1000
EDILRVGVTL AGHQKKILNS IQVMRAQMNQ IQSVEGQPLA RRPRATGRTK
1010 1020 1030 1040 1050
RCQPRDVTKK TCNSNDGKKK GMGKKKTDPG RGREIQGIFF KEDSHKESND
1055
CSCGG

Data source: UniProt

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

Uniprot Database Entry PhosphoSitePlus ®

Click a point on a node

to view detailed assay information below

All other points link out to UniProt

Phosphorylation Acetylation Ubiquitylation Other

loading

Loader

Assay Details for CPTAC-2786 Collapse assay details

Data source: Panorama

Official Gene Symbol

EPHB2

Peptide Modified Sequence

LQHY[+80.0]TSGHMTPGMK

Modification Type

Phospho (Y)

Protein - Site of Modification

N/A

Peptide - Site of Modification

4

Peptide Start

581

Peptide End

594

CPTAC ID

CPTAC-2786

Peptide Molecular Mass

1,666.6997

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 K

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

Response Curves

Data source: Panorama

Retrieving Data

Loader

Repeatability

Data source: Panorama

| | Average intra-assay CV(within day CV) | Average inter-assay CV(between day CV) | Total CVequation | n= | | | | | | | | | | | ---------------------------------------- | -------------------------------------- | --------------------------------------------------------------------------------- | -------- | ------- | ------- | -------- | ------- | ------- | -------- | ------- | ------- | -------- | | Fragment ion / Transition | Low | Med | High | Low | Med | High | Low | Med | High | Low | Med | High | | y5 (1+) | 38.2 | 11 | 6.3 | 39.2 | 14.2 | 7 | 54.7 | 18 | 9.4 | 15 | 15 | 15 | | y4 (1+) | 14 | 7.1 | 6.1 | 17.4 | 8 | 5.9 | 22.3 | 10.7 | 8.5 | 15 | 15 | 15 | | b3 (1+) | 33.5 | 13.3 | 9.3 | 35.7 | 13.2 | 9.1 | 49 | 18.7 | 13 | 15 | 15 | 15 | | sum | 16.7 | 8.2 | 6 | 19.6 | 9 | 6.1 | 25.7 | 12.2 | 8.6 | 15 | 15 | 15 |

Additional Resources and Comments

Assay Details for CPTAC-3205 Collapse assay details

Data source: Panorama

Official Gene Symbol

EPHB2

Peptide Sequence

FLEDDTSDPTYTSALGGK

Modification Type

unmodified

Protein - Site of Modification

N/A

Peptide - Site of Modification

N/A

Peptide Start

770

Peptide End

787

CPTAC ID

CPTAC-3205

Peptide Molecular Mass

1,915.8687

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 K

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

Response Curves

Data source: Panorama

Retrieving Data

Loader

Repeatability

Data source: Panorama

| | Average intra-assay CV(within day CV) | Average inter-assay CV(between day CV) | Total CVequation | n= | | | | | | | | | | | ---------------------------------------- | -------------------------------------- | --------------------------------------------------------------------------------- | -------- | ------- | ------- | -------- | ------- | ------- | -------- | ------- | ------- | -------- | | Fragment ion / Transition | Low | Med | High | Low | Med | High | Low | Med | High | Low | Med | High | | y3 (1+) | 11.2 | 2.8 | 2.5 | 10.6 | 4 | 3.1 | 15.4 | 4.9 | 4 | 15 | 15 | 15 | | y7 (1+) | 7.5 | 2.8 | 2.7 | 10.6 | 4.1 | 3.3 | 13 | 5 | 4.3 | 15 | 15 | 15 | | y10 (1+) | 6.7 | 3.8 | 2.4 | 7.6 | 5.2 | 3.8 | 10.1 | 6.4 | 4.5 | 15 | 15 | 15 | | sum | 6.3 | 3.2 | 2.2 | 7.6 | 4.4 | 3.3 | 9.9 | 5.4 | 4 | 15 | 15 | 15 |

Additional Resources and Comments