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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.

Ptk2b

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Available Assays

Overview Data source: UniProt

Official Gene Symbol Other Aliases
Ptk2b Fak2, Pyk2, Raftk
Sequence Length (AA) Molecular Weight (Da)
1009 115794
Protein Name
Protein-tyrosine kinase 2-beta
Sources
UniProt
PhosphoSitePlus ®
GeneCards 		Human Protein Atlas

Protein Sequence hover to view complete sequence

10 20 30 40 50
MSGVSEPLSR VKVGTLRRPE GPPEPMVVVP VDVEKEDVRI LKVCFYSNSF
60 70 80 90 100
NPGKNFKLVK CTVQTEIQEI ITSILLSGRI GPNIQLAECY GLRLKHMKSD
110 120 130 140 150
EIHWLHPQMT VGEVQDKYEC LHVEAEWRYD LQIRYLPEDF MESLKEDRTT
160 170 180 190 200
LLYFYQQLRN DYMQRYASKV SEGMALQLGC LELRRFFKDM PHNALDKKSN
210 220 230 240 250
FELLEKEVGL DLFFPKQMQE NLKPKQFRKM IQQTFQQYAS LREEECVMKF
260 270 280 290 300
FNTLAGFANI DQETYRCELI QGWNITVDLV IGPKGIRQLT SQDTKPTCLA
310 320 330 340 350
EFKQIKSIRC LPLEETQAVL QLGIEGAPQS LSIKTSSLAE AENMADLIDG
360 370 380 390 400
YCRLQGEHKG SLIMHAKKDG EKRNSLPQIP TLNLEARRSH LSESCSIESD
410 420 430 440 450
IYAEIPDETL RRPGGPQYGV AREEVVLNRI LGEGFFGEVY EGVYTNHKGE
460 470 480 490 500
KINVAVKTCK KDCTQDNKEK FMSEAVIMKN LDHPHIVKLI GIIEEEPTWI
510 520 530 540 550
IMELYPYGEL GHYLERNKNS LKVPTLVLYT LQICKAMAYL ESINCVHRDI
560 570 580 590 600
AVRNILVASP ECVKLGDFGL SRYIEDEDYY KASVTRLPIK WMSPESINFR
610 620 630 640 650
RFTTASDVWM FAVCMWEILS FGKQPFFWLE NKDVIGVLEK GDRLPKPELC
660 670 680 690 700
PPVLYTLMTR CWDYDPSDRP RFTELVCSLS DIYQMEKDIA IEQERNARYR
710 720 730 740 750
PPKILEPTTF QEPPPKPSRP KYRPPPQTNL LAPKLQFQVP EGLCASSPTL
760 770 780 790 800
TSPMEYPSPV NSLHTPPLHR HNVFKRHSMR EEDFIRPSSR EEAQQLWEAE
810 820 830 840 850
KIKMKQVLER QQKQMVEDSQ WLRREERCLD PMVYMNDKSP LTPEKEAGYT
860 870 880 890 900
EFTGPPQKPP RLGAQSIQPT ANLDRTDDLV YHNVMTLVEA VLELKNKLGQ
910 920 930 940 950
LPPEDYVVVV KNVGLNLRKL IGSVDDLLPS LPASSRTEIE GTQKLLNKDL
960 970 980 990 1000
AELINKMKLA QQNAVTSLSE DCKRQMLTAS HTLAVDAKNL LDAVDQAKVV
1009
ANLAHPPAE

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-1791 Collapse assay details

Data source: Panorama

Official Gene Symbol
PTK2B
Peptide Modified Sequence
EVGY[+80.0]LEFTGPPQKPPR
Modification Type
Phospho (Y)
Protein - Site of Modification
849
Peptide - Site of Modification
4
Peptide Start
846
Peptide End
861
CPTAC ID
CPTAC-1791
Peptide Molecular Mass
1,893.9026
Species
Homo sapiens (Human)
Assay Type
Direct MRM
Matrix
E.coli 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
300 nl/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
y6 (1+) 44.5 8.7 4.2 55.5 13.8 5 71.1 16.3 6.5 15 15 15
y7 (1+) 32 7.6 5.6 29.4 12 5.2 43.5 14.2 7.6 15 15 15
y3 (1+) 26.2 3.9 4.3 28.8 8.5 4.5 38.9 9.4 6.2 15 15 15
y8 (1+) 24.7 8.4 6.1 26.3 10.8 6.1 36.1 13.7 8.6 15 15 15
y9 (1+) 35.4 8.3 6.2 43.1 12.9 5.4 55.8 15.3 8.2 15 15 15
sum 26.3 6 4.9 29.3 9.7 4.9 39.4 11.4 6.9 15 15 15

Additional Resources and Comments

Resources
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Assay Details for non-CPTAC-3644 Collapse assay details

Data source: Panorama

Official Gene Symbol
Ptk2b
Peptide Sequence
NLLDAVDQAK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
989
Peptide End
998
CPTAC ID
non-CPTAC-3644
Peptide Molecular Mass
1,085.5717
Species
Mus musculus (Mouse)
Assay Type
Direct MRM
Matrix
Plasma
Submitting Laboratory
UVic-Genome BC Proteomics Centre
Submitting Lab PI
Christoph Borchers

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument
Agilent 6490/6495 QQQ
Internal Standard
synthetic peptide
Peptide Standard Purity
>95%
Peptide Standard Label Type
13C and 15N at C-terminus K
LC
1290 LC (Agilent)
Column Packing
Zorbax Eclipse Plus C18, 1.8 µm
Column Dimensions
2.1 x 150 mm
Flow Rate
400 µL/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
y5 (1+) 15.6 7.2 5.8 16.4 7.5 8.8 22.6 10.4 10.5 15 15 15
y7 (1+) 11.5 7 5.3 10.7 5.9 7.5 15.7 9.2 9.2 15 15 15
y8 (1+) 8 5.1 3.4 9.5 5.2 5.2 12.4 7.3 6.2 15 15 15
b3 (1+) 26.3 6 5.3 26.2 7.1 7.1 37.1 9.3 8.9 15 15 15
y2 (1+) 21.5 10.4 10.9 16.1 12 10.4 26.9 15.9 15.1 15 15 15
sum 6.8 4 1.8 8.4 4.5 4.5 10.8 6 4.8 15 15 15

Additional Resources and Comments

Resources
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Comments

Assay Details for CPTAC-2887 Collapse assay details

Data source: Panorama

Official Gene Symbol
PTK2B
Peptide Sequence
EVGYLEFTGPPQKPPR
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
846
Peptide End
861
CPTAC ID
CPTAC-2887
Peptide Molecular Mass
1,813.9363
Species
Homo Sapiens
Assay Type
Direct MRM
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
y7 (2+) 8 7.9 4.7 10 8.8 5.7 12.8 11.8 7.4 15 15 15
y3 (1+) 4.8 5.7 2.7 7.2 5.9 5.5 8.7 8.2 6.1 15 15 15
y10 (2+) 8.1 5.9 2.9 11.7 6.1 5.2 14.2 8.5 6 15 15 15
sum 5.3 5.9 2.5 8.4 5.9 4.9 9.9 8.3 5.5 15 15 15

Additional Resources and Comments

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

Assay Details for CPTAC-2886 Collapse assay details

Data source: Panorama

Official Gene Symbol
PTK2B
Peptide Sequence
NLLDAVDQAK
Modification Type
unmodified
Protein - Site of Modification
N/A
Peptide - Site of Modification
N/A
Peptide Start
989
Peptide End
998
CPTAC ID
CPTAC-2886
Peptide Molecular Mass
1,085.5717
Species
Homo Sapiens
Assay Type
Direct MRM
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

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
y6 (1+) 8.3 9.8 10.4 10.5 10.3 9.8 13.4 14.2 14.3 15 15 15
y8 (1+) 7 7.8 6.6 7.9 6.8 7.3 10.6 10.3 9.8 15 15 15
y7 (1+) 7.7 9.5 5.7 8.1 9.3 5.7 11.2 13.3 8.1 15 15 15
sum 6.8 8.6 6.9 7.8 8.2 6.9 10.3 11.9 9.8 15 15 15

Additional Resources and Comments

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