FGFR2, CPTAC-3175 - 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
FGFR2	BEK, KGFR, KSAM

Sequence Length (AA)	Molecular Weight (Da)
821	92025

Protein Name
Fibroblast growth factor receptor 2

Sources
UniProt PhosphoSitePlus ® GeneCards	Human Protein Atlas

Protein Sequence hover to view complete sequence

10	20	30	40	50
MVSWGRFICL	VVVTMATLSL	ARPSFSLVED	TTLEPEEPPT	KYQISQPEVY
60	70	80	90	100
VAAPGESLEV	RCLLKDAAVI	SWTKDGVHLG	PNNRTVLIGE	YLQIKGATPR
110	120	130	140	150
DSGLYACTAS	RTVDSETWYF	MVNVTDAISS	GDDEDDTDGA	EDFVSENSNN
160	170	180	190	200
KRAPYWTNTE	KMEKRLHAVP	AANTVKFRCP	AGGNPMPTMR	WLKNGKEFKQ
210	220	230	240	250
EHRIGGYKVR	NQHWSLIMES	VVPSDKGNYT	CVVENEYGSI	NHTYHLDVVE
260	270	280	290	300
RSPHRPILQA	GLPANASTVV	GGDVEFVCKV	YSDAQPHIQW	IKHVEKNGSK
310	320	330	340	350
YGPDGLPYLK	VLKAAGVNTT	DKEIEVLYIR	NVTFEDAGEY	TCLAGNSIGI
360	370	380	390	400
SFHSAWLTVL	PAPGREKEIT	ASPDYLEIAI	YCIGVFLIAC	MVVTVILCRM
410	420	430	440	450
KNTTKKPDFS	SQPAVHKLTK	RIPLRRQVTV	SAESSSSMNS	NTPLVRITTR
460	470	480	490	500
LSSTADTPML	AGVSEYELPE	DPKWEFPRDK	LTLGKPLGEG	CFGQVVMAEA
510	520	530	540	550
VGIDKDKPKE	AVTVAVKMLK	DDATEKDLSD	LVSEMEMMKM	IGKHKNIINL
560	570	580	590	600
LGACTQDGPL	YVIVEYASKG	NLREYLRARR	PPGMEYSYDI	NRVPEEQMTF
610	620	630	640	650
KDLVSCTYQL	ARGMEYLASQ	KCIHRDLAAR	NVLVTENNVM	KIADFGLARD
660	670	680	690	700
INNIDYYKKT	TNGRLPVKWM	APEALFDRVY	THQSDVWSFG	VLMWEIFTLG
710	720	730	740	750
GSPYPGIPVE	ELFKLLKEGH	RMDKPANCTN	ELYMMMRDCW	HAVPSQRPTF
760	770	780	790	800
KQLVEDLDRI	LTLTTNEEYL	DLSQPLEQYS	PSYPDTRSSC	SSGDDSVFSP
810	820	821
DPMPYEPCLP	QYPHINGSVK	T

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 non-CPTAC-3806 Collapse assay details

Data source: Panorama

Official Gene Symbol: Fgfr2
Peptide Sequence: PDFSSQPAVHK
Modification Type: unmodified
Protein - Site of Modification: N/A
Peptide - Site of Modification: N/A
Peptide Start: 407
Peptide End: 417

CPTAC ID: non-CPTAC-3806
Peptide Molecular Mass: 1,211.5935
Species: Mus musculus (Mouse)
Assay Type: Direct PRM
Matrix: Plasma
Submitting Laboratory: UVic-Genome BC Proteomics Centre
Submitting Lab PI: Christoph Borchers

Publication

View Details (opens in a new window)

Molecular phenotyping of laboratory mouse strains using 500 multiple reaction monitoring mass spectrometry plasma assays. Michaud SA, Sinclair NJ, Petrošová H, Palmer AL, Pistawka AJ, Zhang S, Hardie DB, Mohammed Y Eshghi A1, Richard VR, Sickmann A, Borchers CH. Commun Biol. 2018 Jun 27;1:78. doi: 10.1038/s42003-018-0087-6. eCollection 2018.

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument: Agilent 6490/6495 QQQ
Internal Standard: synthetic peptide
Peptide Standard Purity: >80%
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

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
b3 (1+)	12	15.4	15	13.9	15.7	14.6	18.4	22	20.9	15	15	15
b2 (1+)	8	5.5	5.5	10.1	11.5	9.2	12.9	12.7	10.7	15	15	15
y5 (2+)	10.5	5.4	11.2	19.3	13.2	14.4	22	14.3	18.2	15	15	15
y2 (1+)	12.2	11.1	10.7	8.3	11.9	13	14.8	16.3	16.8	15	15	15
y5 (1+)	8.7	5.9	6.7	9	7.6	6	12.5	9.6	9	15	15	15
sum	3.2	3.2	4.3	6.5	6.4	4.9	7.2	7.2	6.5	15	15	15

Additional Resources and Comments

Resources

Download SOPs

View Peptide in Panorama

View Protein in Panorama

Comments

Assay Details for CPTAC-3175 Collapse assay details

Data source: Panorama

Official Gene Symbol: FGFR2
Peptide Sequence: YGPDGLPYLK
Modification Type: unmodified
Protein - Site of Modification: N/A
Peptide - Site of Modification: N/A
Peptide Start: 301
Peptide End: 310

CPTAC ID: CPTAC-3175
Peptide Molecular Mass: 1,121.5757
Species: Homo Sapiens
Assay Type: Direct PRM
Matrix: Tumor Digest
Submitting Laboratory: Washington University in St. Louis
Submitting Lab PI: Reid Townsend