Human Gene PTPRK (ENST00000368226.9_10) from GENCODE V47lift37
  Description: protein tyrosine phosphatase receptor type K, transcript variant 2 (from RefSeq NM_002844.4)
Gencode Transcript: ENST00000368226.9_10
Gencode Gene: ENSG00000152894.15_22
Transcript (Including UTRs)
   Position: hg19 chr6:128,289,930-128,841,744 Size: 551,815 Total Exon Count: 30 Strand: -
Coding Region
   Position: hg19 chr6:128,291,372-128,841,503 Size: 550,132 Coding Exon Count: 30 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr6:128,289,930-128,841,744)mRNA (may differ from genome)Protein (1440 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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-  Comments and Description Text from UniProtKB
  ID: PTPRK_HUMAN
DESCRIPTION: RecName: Full=Receptor-type tyrosine-protein phosphatase kappa; Short=Protein-tyrosine phosphatase kappa; Short=R-PTP-kappa; EC=3.1.3.48; Flags: Precursor;
FUNCTION: Regulation of processes involving cell contact and adhesion such as growth control, tumor invasion, and metastasis. Negative regulator of EGFR signaling pathway. Forms complexes with beta-catenin and gamma-catenin/plakoglobin. Beta-catenin may be a substrate for the catalytic activity of PTPRK/PTP-kappa.
CATALYTIC ACTIVITY: Protein tyrosine phosphate + H(2)O = protein tyrosine + phosphate.
INTERACTION: P04626:ERBB2; NbExp=2; IntAct=EBI-474052, EBI-641062; Q02763:TEK; NbExp=2; IntAct=EBI-474052, EBI-2257090;
SUBCELLULAR LOCATION: Cell junction, adherens junction. Cell membrane; Single-pass type I membrane protein.
TISSUE SPECIFICITY: High levels in lung, brain and colon; less in liver, pancreas, stomach, kidney, placenta and mammary carcinoma.
PTM: This protein undergoes proteolytic processing.
SIMILARITY: Belongs to the protein-tyrosine phosphatase family. Receptor class 2B subfamily.
SIMILARITY: Contains 4 fibronectin type-III domains.
SIMILARITY: Contains 1 Ig-like C2-type (immunoglobulin-like) domain.
SIMILARITY: Contains 1 MAM domain.
SIMILARITY: Contains 2 tyrosine-protein phosphatase domains.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: PTPRK
Diseases sorted by gene-association score: eye lymphoma (8)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 10.57 RPKM in Stomach
Total median expression: 283.69 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -101.30241-0.420 Picture PostScript Text
3' UTR -316.901442-0.220 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR008985 - ConA-like_lec_gl_sf
IPR003961 - Fibronectin_type3
IPR007110 - Ig-like
IPR013783 - Ig-like_fold
IPR003599 - Ig_sub
IPR000998 - MAM_dom
IPR000387 - Tyr/Dual-specificity_Pase
IPR016130 - Tyr_Pase_AS
IPR000242 - Tyr_Pase_rcpt/non-rcpt

Pfam Domains:
PF00041 - Fibronectin type III domain
PF00102 - Protein-tyrosine phosphatase
PF00629 - MAM domain, meprin/A5/mu
PF07679 - Immunoglobulin I-set domain

SCOP Domains:
48726 - Immunoglobulin
49265 - Fibronectin type III
49899 - Concanavalin A-like lectins/glucanases
52799 - (Phosphotyrosine protein) phosphatases II

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2C7S - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q15262
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004721 phosphoprotein phosphatase activity
GO:0004725 protein tyrosine phosphatase activity
GO:0005001 transmembrane receptor protein tyrosine phosphatase activity
GO:0005515 protein binding
GO:0008013 beta-catenin binding
GO:0016787 hydrolase activity
GO:0016791 phosphatase activity
GO:0019901 protein kinase binding
GO:0045295 gamma-catenin binding

Biological Process:
GO:0006470 protein dephosphorylation
GO:0007155 cell adhesion
GO:0007165 signal transduction
GO:0007179 transforming growth factor beta receptor signaling pathway
GO:0008285 negative regulation of cell proliferation
GO:0010839 negative regulation of keratinocyte proliferation
GO:0016311 dephosphorylation
GO:0016477 cell migration
GO:0030336 negative regulation of cell migration
GO:0031175 neuron projection development
GO:0034394 protein localization to cell surface
GO:0034614 cellular response to reactive oxygen species
GO:0034644 cellular response to UV
GO:0035335 peptidyl-tyrosine dephosphorylation
GO:0045786 negative regulation of cell cycle
GO:0045892 negative regulation of transcription, DNA-templated
GO:0048041 focal adhesion assembly

Cellular Component:
GO:0001750 photoreceptor outer segment
GO:0005886 plasma membrane
GO:0005887 integral component of plasma membrane
GO:0005911 cell-cell junction
GO:0005912 adherens junction
GO:0009986 cell surface
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0030054 cell junction
GO:0030424 axon
GO:0030425 dendrite
GO:0031256 leading edge membrane
GO:0043025 neuronal cell body
GO:0043231 intracellular membrane-bounded organelle


-  Descriptions from all associated GenBank mRNAs
  CR749277 - Homo sapiens mRNA; cDNA DKFZp686C2268 (from clone DKFZp686C2268).
L77886 - Human protein tyrosine phosphatase mRNA, complete cds.
BC140775 - Homo sapiens protein tyrosine phosphatase, receptor type, K, mRNA (cDNA clone MGC:176452 IMAGE:9021643), complete cds.
BC144512 - Homo sapiens protein tyrosine phosphatase, receptor type, K, mRNA (cDNA clone MGC:178056 IMAGE:9053039), complete cds.
BC144513 - Homo sapiens protein tyrosine phosphatase, receptor type, K, mRNA (cDNA clone MGC:178057 IMAGE:9053040), complete cds.
Z70660 - H.sapiens mRNA for phosphotyrosine phosphatase kappa.
AF533875 - Homo sapiens mutant receptor type protein tyrosine phosphatase K (PTPRK) mRNA, complete cds.
AB209670 - Homo sapiens mRNA for protein tyrosine phosphatase, receptor type, K precursor variant protein.
AK295028 - Homo sapiens cDNA FLJ61254 complete cds, highly similar to Receptor-type tyrosine-protein phosphatase kappa precursor (EC 3.1.3.48).
BC063596 - Homo sapiens protein tyrosine phosphatase, receptor type, K, mRNA (cDNA clone IMAGE:4753885), complete cds.
BX647498 - Homo sapiens mRNA; cDNA DKFZp779N1045 (from clone DKFZp779N1045).
JD347463 - Sequence 328487 from Patent EP1572962.
JD166133 - Sequence 147157 from Patent EP1572962.
JD067041 - Sequence 48065 from Patent EP1572962.
JD514274 - Sequence 495298 from Patent EP1572962.
JD181673 - Sequence 162697 from Patent EP1572962.
JD044190 - Sequence 25214 from Patent EP1572962.
JD357193 - Sequence 338217 from Patent EP1572962.
JD263039 - Sequence 244063 from Patent EP1572962.
JD352332 - Sequence 333356 from Patent EP1572962.
AK021778 - Homo sapiens cDNA FLJ11716 fis, clone HEMBA1005232.
EF139847 - Homo sapiens clone 2-2 protein tyrosine phosphatase receptor type K splice variant (PTPRK) mRNA, partial sequence; alternatively spliced.
HQ257994 - Synthetic construct Homo sapiens clone IMAGE:100072303 Unknown protein gene, encodes complete protein.
KJ901683 - Synthetic construct Homo sapiens clone ccsbBroadEn_11077 PTPRK gene, encodes complete protein.
JD389347 - Sequence 370371 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B2RTQ8, B7ZMG0, ENST00000368226.1, ENST00000368226.2, ENST00000368226.3, ENST00000368226.4, ENST00000368226.5, ENST00000368226.6, ENST00000368226.7, ENST00000368226.8, NM_002844, PTPK, PTPRK_HUMAN, Q14763, Q15262, Q5TG10, Q5TG11, uc318gpb.1, uc318gpb.2
UCSC ID: ENST00000368226.9_10
RefSeq Accession: NM_002844.4
Protein: Q15262 (aka PTPRK_HUMAN or PTPK_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.