PTPRK protein tyrosine phosphatase receptor type K [Homo sapiens (human)] - Gene

Summary

Official Symbol: PTPRKprovided by HGNC
Official Full Name: protein tyrosine phosphatase receptor type Kprovided by HGNC
Primary source: HGNC:HGNC:9674
See related: Ensembl:ENSG00000152894 MIM:602545; AllianceGenome:HGNC:9674
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: R-PTP-kappa
Summary: The protein encoded by this gene is a member of the protein tyrosine phosphatase (PTP) family. PTPs are known to be signaling molecules that regulate a variety of cellular processes including cell growth, differentiation, mitotic cycle, and oncogenic transformation. This PTP possesses an extracellular region, a single transmembrane region, and two tandem catalytic domains, and thus represents a receptor-type PTP. The extracellular region contains a meprin-A5 antigen-PTP mu (MAM) domain, an Ig-like domain and four fibronectin type III-like repeats. This PTP was shown to mediate homophilic intercellular interaction, possibly through the interaction with beta- and gamma-catenin at adherens junctions. Expression of this gene was found to be stimulated by TGF-beta 1, which may be important for the inhibition of keratinocyte proliferation. [provided by RefSeq, Jul 2008]
Expression: Ubiquitous expression in gall bladder (RPKM 16.8), colon (RPKM 13.7) and 24 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 6q22.33

Exon count:: 36

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	6	NC_000006.12 (127968785..128520599, complement)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	6	NC_060930.1 (129157761..129713738, complement)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	6	NC_000006.11 (128289930..128841744, complement)

Chromosome 6 - NC_000006.12 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: HPA RNA-seq normal tissues
Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
BioProject: PRJEB4337
Publication: PMID 24309898
Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Determinants of receptor tyrosine phosphatase homophilic adhesion: Structural comparison of PTPRK and PTPRM extracellular domains.
Title: Determinants of receptor tyrosine phosphatase homophilic adhesion: Structural comparison of PTPRK and PTPRM extracellular domains.
PTPRK, an EGFR Phosphatase, Is Decreased in CeD Biopsies and Intestinal Organoids.
Title: PTPRK, an EGFR Phosphatase, Is Decreased in CeD Biopsies and Intestinal Organoids.
Investigation of cell signalings and therapeutic targets in PTPRK-RSPO3 fusion-positive colorectal cancer.
Title: Investigation of cell signalings and therapeutic targets in PTPRK-RSPO3 fusion-positive colorectal cancer.
A MET-PTPRK kinase-phosphatase rheostat controls ZNRF3 and Wnt signaling.
Title: A MET-PTPRK kinase-phosphatase rheostat controls ZNRF3 and Wnt signaling.
Simulation of multiple microenvironments shows a pivot role of RPTPs on the control of Epithelial-to-Mesenchymal Transition.
Title: Simulation of multiple microenvironments shows a pivot role of RPTPs on the control of Epithelial-to-Mesenchymal Transition.
The tumor suppressor PTPRK promotes ZNRF3 internalization and is required for Wnt inhibition in the Spemann organizer.
Title: The tumor suppressor PTPRK promotes ZNRF3 internalization and is required for Wnt inhibition in the Spemann organizer.
The authors report here that the homophilic receptor PTPRK is stabilized at cell-cell contacts in epithelial cells. PTPRK directly and selectively dephosphorylates at least five substrates, including Afadin, PARD3 and delta-catenin family members, which are all important cell-cell adhesion regulators.
Title: The homophilic receptor PTPRK selectively dephosphorylates multiple junctional regulators to promote cell-cell adhesion.
Knockdown of PTPRK potentiates the pro-oncogenic CD133-AKT pathway in colon cancer cells.
Title: PTPRK suppresses progression and chemo-resistance of colon cancer cells via direct inhibition of pro-oncogenic CD133.
These results suggested that PTPRK functions as a novel tumor suppressor in NSCLC, and its suppressive ability may be involved in STAT3 activation.
Title: Downregulation of PTPRK Promotes Cell Proliferation and Metastasis of NSCLC by Enhancing STAT3 Activation.
the lower PTPRK expression was observed in Aldehyde Dehydrogenase 1 Family Member A1 (ALDH1A1) positive cancer stem cells (CSCs) population, suggesting the role of PTPRK downregulation in primary as well as acquired resistance to cytotoxic drugs.
Title: PTPRK Expression Is Downregulated in Drug Resistant Ovarian Cancer Cell Lines, and Especially in ALDH1A1 Positive CSCs-Like Populations.

Submit: New GeneRIF Correction See all GeneRIFs (35)

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
A genome-wide association study for age-related hearing impairment in the Saami. EBI GWAS Catalog EBI GWAS CatalogPubMed
Genetic risk and a primary role for cell-mediated immune mechanisms in multiple sclerosis. EBI GWAS Catalog EBI GWAS CatalogPubMed
Multiple common variants for celiac disease influencing immune gene expression. EBI GWAS Catalog EBI GWAS CatalogPubMed
Parent-of-origin-specific allelic associations among 106 genomic loci for age at menarche. EBI GWAS Catalog EBI GWAS CatalogPubMed

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Replication interactions

Interaction	Pubs
HIV-1 infection (VSV-G pseudotyped) of CEMT4 T cells downregulates plasma membrane expression of PTPRK	PubMed

Go to the HIV-1, Human Interaction Database

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

WI-18631 (e-PCR)
- UniSTS:40707

D6S1436 (e-PCR)
- UniSTS:40708

RH46580 (e-PCR)
- UniSTS:60689

AL034437 (e-PCR)
- UniSTS:94228

AL034438 (e-PCR)
- UniSTS:94229

D6S407 (e-PCR), detects polymorphism
- UniSTS:35868

RH102211 (e-PCR)
- UniSTS:96545

D6S407 (e-PCR), detects polymorphism
- UniSTS:549

G32446 (e-PCR)
- UniSTS:117032

SHGC-24342 (e-PCR)
- UniSTS:88111

D6S1033 (e-PCR)
- UniSTS:78133

RH36399 (e-PCR)
- UniSTS:46653

RH103291 (e-PCR)
- UniSTS:97622

RH15838 (e-PCR)
- UniSTS:57962

A009D21 (e-PCR)
- UniSTS:17259

STS-T79596 (e-PCR)
- UniSTS:67695

SHGC-155674 (e-PCR)
- UniSTS:185215

D6S1030 (e-PCR), detects polymorphism
- UniSTS:30864

RH65472 (e-PCR)
- UniSTS:83354

SHGC-105646 (e-PCR)
- UniSTS:169376

RH79697 (e-PCR)
- UniSTS:92321

SHGC-1830 (e-PCR)
- UniSTS:173226

RH102608 (e-PCR)
- UniSTS:96942

RH48378 (e-PCR)
- UniSTS:77768

D6S1690 (e-PCR), detects polymorphism
- UniSTS:50389

WI-21653 (e-PCR)
- UniSTS:37602

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables beta-catenin binding	IPI Inferred from Physical Interaction more info	PubMed
enables gamma-catenin binding	IPI Inferred from Physical Interaction more info	PubMed
enables histone H2AXY142 phosphatase activity	IEA Inferred from Electronic Annotation more info
enables non-membrane spanning protein tyrosine phosphatase activity	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein kinase binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein tyrosine phosphatase activity	IBA Inferred from Biological aspect of Ancestor more info
enables protein tyrosine phosphatase activity	IDA Inferred from Direct Assay more info	PubMed
enables protein tyrosine phosphatase activity, metal-dependent	IEA Inferred from Electronic Annotation more info
enables transmembrane receptor protein tyrosine phosphatase activity	NAS Non-traceable Author Statement more info	PubMed

Process	Evidence Code	Pubs
involved_in cell adhesion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cell migration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cellular response to UV	IDA Inferred from Direct Assay more info	PubMed
involved_in cellular response to reactive oxygen species	IDA Inferred from Direct Assay more info	PubMed
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
involved_in focal adhesion assembly	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of cell cycle	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of cell migration	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of cell population proliferation	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of keratinocyte proliferation	IDA Inferred from Direct Assay more info	PubMed
involved_in neuron projection development	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein dephosphorylation	IDA Inferred from Direct Assay more info	PubMed
involved_in protein localization to cell surface	IDA Inferred from Direct Assay more info	PubMed
involved_in signal transduction	IBA Inferred from Biological aspect of Ancestor more info
involved_in signal transduction	IDA Inferred from Direct Assay more info	PubMed
involved_in transforming growth factor beta receptor signaling pathway	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
located_in adherens junction	IEA Inferred from Electronic Annotation more info
located_in cell junction	IDA Inferred from Direct Assay more info
located_in cell surface	IDA Inferred from Direct Assay more info	PubMed
located_in cell-cell junction	IDA Inferred from Direct Assay more info	PubMed
located_in intracellular membrane-bounded organelle	IDA Inferred from Direct Assay more info
located_in leading edge membrane	IDA Inferred from Direct Assay more info	PubMed
located_in membrane	NAS Non-traceable Author Statement more info	PubMed
located_in plasma membrane	IDA Inferred from Direct Assay more info
located_in plasma membrane	NAS Non-traceable Author Statement more info	PubMed

General protein information

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Preferred Names: receptor-type tyrosine-protein phosphatase kappa

Names: dJ480J14.2.1 (protein tyrosine phosphatase, receptor type, K (R-PTP-KAPPA, protein tyrosine phosphatase kappa , protein tyrosine phosphatase kappa; protein-tyrosine phosphatase kappa; protein-tyrosine phosphatase, receptor type, kappa

NP_001129120.1

EC 3.1.3.48

NP_001278910.1

EC 3.1.3.48

NP_001278911.1

EC 3.1.3.48

NP_001278912.1

EC 3.1.3.48

NP_001278913.1

EC 3.1.3.48

NP_002835.2

EC 3.1.3.48

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001135648.3 → NP_001129120.1 receptor-type tyrosine-protein phosphatase kappa isoform a precursor

See identical proteins and their annotated locations for NP_001129120.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) lacks three alternate in-frame exons compared to variant 3. The resulting isoform (a) has the same N- and C-termini but is shorter compared to isoform c.

Source sequence(s)

AL590006, BC144512, BQ018138, DB020920

Consensus CDS

CCDS47473.1

UniProtKB/TrEMBL

Q86WJ2

Related

ENSP00000357196.5, ENST00000368213.9

Conserved Domains (5) summary

smart00137
Location:32 → 192

MAM; Domain in meprin, A5, receptor protein tyrosine phosphatase mu (and others)

smart00410
Location:202 → 288

IG_like; Immunoglobulin like

cd14636
Location:1236 → 1441

R-PTPc-K-2; PTP domain of receptor-type tyrosine-protein phosphatase K, repeat 2

pfam00041
Location:488 → 581

fn3; Fibronectin type III domain

cl28904
Location:872 → 1150

PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily
NM_001291981.2 → NP_001278910.1 receptor-type tyrosine-protein phosphatase kappa isoform c precursor

See identical proteins and their annotated locations for NP_001278910.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) represents the longest transcript and encodes the longest isoform (c).

Source sequence(s)

BC144512, BC144513, BQ018138, DB020920

Consensus CDS

CCDS78179.1

UniProtKB/TrEMBL

Q5TG12

Related

ENSP00000432973.1, ENST00000532331.5

Conserved Domains (5) summary

smart00137
Location:32 → 192

MAM; Domain in meprin, A5, receptor protein tyrosine phosphatase mu (and others)

smart00410
Location:202 → 288

IG_like; Immunoglobulin like

cd14636
Location:1252 → 1457

R-PTPc-K-2; PTP domain of receptor-type tyrosine-protein phosphatase K, repeat 2

pfam00041
Location:488 → 581

fn3; Fibronectin type III domain

cl28904
Location:888 → 1166

PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily
NM_001291982.2 → NP_001278911.1 receptor-type tyrosine-protein phosphatase kappa isoform d precursor

See identical proteins and their annotated locations for NP_001278911.1

Status: VALIDATED

Description

Transcript Variant: This variant (4) differs in the 3' UTR and coding sequence compared to variant 3. The resulting isoform (d) has a shorter and distinct C-terminus compared to isoform c.

Source sequence(s)

AK295028, AL035465

UniProtKB/TrEMBL

B4DHC3, Q59EZ1

Related

ENST00000524481.5

Conserved Domains (3) summary

smart00137
Location:32 → 192

MAM; Domain in meprin, A5, receptor protein tyrosine phosphatase mu (and others)

smart00409
Location:202 → 288

IG; Immunoglobulin

pfam00041
Location:488 → 583

fn3; Fibronectin type III domain
NM_001291983.2 → NP_001278912.1 receptor-type tyrosine-protein phosphatase kappa isoform e

Status: VALIDATED

Description

Transcript Variant: This variant (5) differs in the 5' and 3' UTRs and coding sequence compared to variant 3. The resulting isoform (d) has shorter and distinct N- and C-termini compared to isoform c.

Source sequence(s)

AB209670, AK295028, AL035465, AL590006

UniProtKB/TrEMBL

Q59EZ1

Conserved Domains (5) summary

cd06263
Location:36 → 63

MAM; Meprin, A5 protein, and protein tyrosine phosphatase Mu (MAM) domain. MAM is an extracellular domain which mediates protein-protein interactions and is found in a diverse set of proteins, many of which are known to function in cell adhesion. Members ...

smart00410
Location:73 → 159

IG_like; Immunoglobulin like

cd00063
Location:359 → 460

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam00041
Location:165 → 243

fn3; Fibronectin type III domain

cl11960
Location:75 → 155

Ig; Immunoglobulin domain
NM_001291984.2 → NP_001278913.1 receptor-type tyrosine-protein phosphatase kappa isoform f precursor

See identical proteins and their annotated locations for NP_001278913.1

Status: VALIDATED

Description

Transcript Variant: This variant (6) lacks three alternate in-frame exons and uses an alternate in-frame splice junction compared to variant 3. The resulting isoform (f) has the same N- and C-termini but is shorter compared to isoform c.

Source sequence(s)

AL357621, AL590006, BC144513, BQ018138, DB020920, Z70660

Consensus CDS

CCDS75517.1

UniProtKB/Swiss-Prot

B2RTQ8, B7ZMG0, Q14763, Q15262, Q5TG10, Q5TG11

UniProtKB/TrEMBL

Q86WJ2

Related

ENSP00000357198.3, ENST00000368215.7

Conserved Domains (5) summary

smart00137
Location:32 → 192

MAM; Domain in meprin, A5, receptor protein tyrosine phosphatase mu (and others)

smart00409
Location:202 → 288

IG; Immunoglobulin

cd14636
Location:1229 → 1434

R-PTPc-K-2; PTP domain of receptor-type tyrosine-protein phosphatase K, repeat 2

pfam00041
Location:488 → 581

fn3; Fibronectin type III domain

cl28904
Location:871 → 1143

PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily
NM_002844.4 → NP_002835.2 receptor-type tyrosine-protein phosphatase kappa isoform b precursor

See identical proteins and their annotated locations for NP_002835.2

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks two alternate in-frame exons compared to variant 3. The resulting isoform (b) has the same N- and C-termini but is shorter compared to isoform c.

Source sequence(s)

AF533875, AK295028, BC140775, BQ018138, DA790525

Consensus CDS

CCDS5137.1

UniProtKB/TrEMBL

Q86WJ2

Related

ENSP00000357209.4, ENST00000368226.9

Conserved Domains (5) summary

smart00137
Location:32 → 192

MAM; Domain in meprin, A5, receptor protein tyrosine phosphatase mu (and others)

smart00409
Location:202 → 288

IG; Immunoglobulin

cd14636
Location:1230 → 1435

R-PTPc-K-2; PTP domain of receptor-type tyrosine-protein phosphatase K, repeat 2

pfam00041
Location:488 → 581

fn3; Fibronectin type III domain

cl28904
Location:872 → 1144

PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily