NTRK1, CPTAC-3047 - 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
NTRK1	MTC, TRK, TRKA

Sequence Length (AA)	Molecular Weight (Da)
796	87497

Protein Name
High affinity nerve growth factor receptor

Sources
UniProt PhosphoSitePlus ® GeneCards	Human Protein Atlas

Protein Sequence hover to view complete sequence

10	20	30	40	50
MLRGGRRGQL	GWHSWAAGPG	SLLAWLILAS	AGAAPCPDAC	CPHGSSGLRC
60	70	80	90	100
TRDGALDSLH	HLPGAENLTE	LYIENQQHLQ	HLELRDLRGL	GELRNLTIVK
110	120	130	140	150
SGLRFVAPDA	FHFTPRLSRL	NLSFNALESL	SWKTVQGLSL	QELVLSGNPL
160	170	180	190	200
HCSCALRWLQ	RWEEEGLGGV	PEQKLQCHGQ	GPLAHMPNAS	CGVPTLKVQV
210	220	230	240	250
PNASVDVGDD	VLLRCQVEGR	GLEQAGWILT	ELEQSATVMK	SGGLPSLGLT
260	270	280	290	300
LANVTSDLNR	KNVTCWAEND	VGRAEVSVQV	NVSFPASVQL	HTAVEMHHWC
310	320	330	340	350
IPFSVDGQPA	PSLRWLFNGS	VLNETSFIFT	EFLEPAANET	VRHGCLRLNQ
360	370	380	390	400
PTHVNNGNYT	LLAANPFGQA	SASIMAAFMD	NPFEFNPEDP	IPVSFSPVDT
410	420	430	440	450
NSTSGDPVEK	KDETPFGVSV	AVGLAVFACL	FLSTLLLVLN	KCGRRNKFGI
460	470	480	490	500
NRPAVLAPED	GLAMSLHFMT	LGGSSLSPTE	GKGSGLQGHI	IENPQYFSDA
510	520	530	540	550
CVHHIKRRDI	VLKWELGEGA	FGKVFLAECH	NLLPEQDKML	VAVKALKEAS
560	570	580	590	600
ESARQDFQRE	AELLTMLQHQ	HIVRFFGVCT	EGRPLLMVFE	YMRHGDLNRF
610	620	630	640	650
LRSHGPDAKL	LAGGEDVAPG	PLGLGQLLAV	ASQVAAGMVY	LAGLHFVHRD
660	670	680	690	700
LATRNCLVGQ	GLVVKIGDFG	MSRDIYSTDY	YRVGGRTMLP	IRWMPPESIL
710	720	730	740	750
YRKFTTESDV	WSFGVVLWEI	FTYGKQPWYQ	LSNTEAIDCI	TQGRELERPR
760	770	780	790	796
ACPPEVYAIM	RGCWQREPQQ	RHSIKDVHAR	LQALAQAPPV	YLDVLG

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-3048 Collapse assay details

Data source: Panorama

Official Gene Symbol: NTRK1
Peptide Modified Sequence: NC[+57.0]LVGQGLVVK
Modification Type: Carbamidomethyl (C)
Protein - Site of Modification: 657
Peptide - Site of Modification: 2
Peptide Start: 655
Peptide End: 665

CPTAC ID: CPTAC-3048
Peptide Molecular Mass: 1,185.6540
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

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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
y8 (1+)	6.6	3.8	4.2	16.9	7.5	4.7	18.1	8.4	6.3	15	15	15
y7 (1+)	6.9	3.9	4.3	15.7	6.8	5.4	17.1	7.8	6.9	15	15	15
b3 (1+)	8.9	6	4.5	17.3	7.5	6.9	19.5	9.6	8.2	15	15	15
sum	6.8	3.6	4	16.1	6.9	5.2	17.5	7.8	6.6	15	15	15

Additional Resources and Comments

Resources

Download SOPs

View Peptide in Panorama

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Comments

Assay Details for CPTAC-3047 Collapse assay details

Data source: Panorama

Official Gene Symbol: NTRK1
Peptide Sequence: SGGLPSLGLTLANVTSDLNR
Modification Type: unmodified
Protein - Site of Modification: N/A
Peptide - Site of Modification: N/A
Peptide Start: 241
Peptide End: 260

CPTAC ID: CPTAC-3047
Peptide Molecular Mass: 1,984.0589
Species: Homo Sapiens
Assay Type: Direct PRM
Matrix: Tumor Digest
Submitting Laboratory: Washington University in St. Louis
Submitting Lab PI: Reid Townsend