PTPN2, CPTAC-6235 - CPTAC Assay Portal | Office of Cancer Clinical Proteomics Research

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
PTPN2	PTPT

Sequence Length (AA)	Molecular Weight (Da)
415	48473

Protein Name
Tyrosine-protein phosphatase non-receptor type 2

Sources
UniProt PhosphoSitePlus ® GeneCards	Human Protein Atlas

Protein Sequence hover to view complete sequence

10	20	30	40	50
MPTTIEREFE	ELDTQRRWQP	LYLEIRNESH	DYPHRVAKFP	ENRNRNRYRD
60	70	80	90	100
VSPYDHSRVK	LQNAENDYIN	ASLVDIEEAQ	RSYILTQGPL	PNTCCHFWLM
110	120	130	140	150
VWQQKTKAVV	MLNRIVEKES	VKCAQYWPTD	DQEMLFKETG	FSVKLLSEDV
160	170	180	190	200
KSYYTVHLLQ	LENINSGETR	TISHFHYTTW	PDFGVPESPA	SFLNFLFKVR
210	220	230	240	250
ESGSLNPDHG	PAVIHCSAGI	GRSGTFSLVD	TCLVLMEKGD	DINIKQVLLN
260	270	280	290	300
MRKYRMGLIQ	TPDQLRFSYM	AIIEGAKCIK	GDSSIQKRWK	ELSKEDLSPA
310	320	330	340	350
FDHSPNKIMT	EKYNGNRIGL	EEEKLTGDRC	TGLSSKMQDT	MEENSESALR
360	370	380	390	400
KRIREDRKAT	TAQKVQQMKQ	RLNENERKRK	RWLYWQPILT	KMGFMSVILV
410	415
GAFVGWTLFF	QQNAL

Data source: UniProt

Protein Map Collapse protein map

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

Assay Details for CPTAC-6235 Collapse assay details

Data source: Panorama

Official Gene Symbol: PTPN2
Peptide Sequence: LQNAENDYINASLVDIEEAQR
Modification Type: unmodified
Protein - Site of Modification: N/A
Peptide - Site of Modification: 7
Peptide Start: 61
Peptide End: 81

CPTAC ID: CPTAC-6235
Peptide Molecular Mass: 2,404.1506
Species: Homo Sapiens
Assay Type: Enrichment MRM
Enrichment Method: Peptide Immunoaffinity
Matrix: Frozen tissue
Submitting Laboratory: Fred Hutchinson Cancer Research Center
Submitting Lab PI: Amanda Paulovich

Assay Parameters Collapse assay parameters

Data source: Panorama

Instrument: QTRAP 5500
Internal Standard: Extended heavy peptide
Peptide Standard Purity: >95%
Peptide Standard Label Type: 13C and 15N at C-terminus R

LC: Eksigent
Column Packing: Reprosil C18, 3um
Column Dimensions: 75µm x 15cm
Flow Rate: 0.3 µL/min

Chromatograms

Data source: Panorama

view larger image

Response Curves

Data source: Panorama

view larger image

Retrieving Data

Repeatability

Data source: Panorama

view larger image

	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+)	13	9.5	3	14.9	9.9	9.4	19.8	13.7	9.9	15	15	15
y7 (1+)	12.8	5.5	4.6	12.5	6.9	9.3	17.9	8.8	10.4	15	15	15
y5 (1+)	9.7	6	5	8.3	6.2	6.9	12.8	8.6	8.5	15	15	15
sum	6.5	4.5	3.1	4	4.9	8.1	7.6	6.7	8.7	15	15	15

PTPN2

Overview Data source: UniProt

Protein Sequence hover to view complete sequence

Protein Map Collapse protein map

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

Assay Details for CPTAC-6235 Collapse assay details

Assay Parameters Collapse assay parameters

Chromatograms

Response Curves

Repeatability

Additional Resources and Comments

Comments

Search form

PTPN2

Overview Data source: UniProt

Protein Sequence hover to view complete sequence

Protein Map Collapse protein map

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

Assay Details for CPTAC-6235 Collapse assay details

Assay Parameters Collapse assay parameters

Chromatograms

Response Curves

Repeatability

Additional Resources and Comments

Comments