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 protein contains a C-terminal PTP domain and an N-terminal domain homologous to the band 4.1 superfamily of ... See more...

Aliases for PTPN4 Gene

Aliases for PTPN4 Gene

  • Protein Tyrosine Phosphatase Non-Receptor Type 4 2 3 5
  • Protein Tyrosine Phosphatase, Non-Receptor Type 4 (Megakaryocyte) 2 3
  • Tyrosine-Protein Phosphatase Non-Receptor Type 4 3 4
  • PTPase-MEG1 3 4
  • EC 3.1.3.48 4 52
  • MEG 3 4
  • Megakaryocyte Protein-Tyrosine Phosphatase 3
  • Protein Tyrosine Phosphatase MEG1 3
  • Protein-Tyrosine Phosphatase MEG1 4
  • Megakaryocyte Phosphatase 3
  • PTPMEG1 3
  • PTPMEG 3

External Ids for PTPN4 Gene

Previous GeneCards Identifiers for PTPN4 Gene

  • GC02P117722
  • GC02P118437
  • GC02P120424
  • GC02P120612
  • GC02P120233
  • GC02P112841

Summaries for PTPN4 Gene

Entrez Gene Summary for PTPN4 Gene

  • 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 protein contains a C-terminal PTP domain and an N-terminal domain homologous to the band 4.1 superfamily of cytoskeletal-associated proteins. This PTP has been shown to interact with glutamate receptor delta 2 and epsilon subunits, and is thought to play a role in signalling downstream of the glutamate receptors through tyrosine dephosphorylation. [provided by RefSeq, Jul 2008]

GeneCards Summary for PTPN4 Gene

PTPN4 (Protein Tyrosine Phosphatase Non-Receptor Type 4) is a Protein Coding gene. Diseases associated with PTPN4 include Rabies. Among its related pathways are Innate Immune System and Activated TLR4 signalling. Gene Ontology (GO) annotations related to this gene include phosphatase activity and cytoskeletal protein binding. An important paralog of this gene is PTPN3.

UniProtKB/Swiss-Prot Summary for PTPN4 Gene

  • Phosphatase that plays a role in immunity, learning, synaptic plasticity or cell homeostasis (PubMed:25825441, PubMed:27246854). Regulates neuronal cell homeostasis by protecting neurons against apoptosis (PubMed:20086240). Negatively regulates TLR4-induced interferon beta production by dephosphorylating adapter TICAM2 and inhibiting subsequent TRAM-TRIF interaction (PubMed:25825441). Dephosphorylates also the immunoreceptor tyrosine-based activation motifs/ITAMs of the TCR zeta subunit and thereby negatively regulates TCR-mediated signaling pathway (By similarity). May act at junctions between the membrane and the cytoskeleton.

Gene Wiki entry for PTPN4 Gene

Additional gene information for PTPN4 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for PTPN4 Gene

Genomics for PTPN4 Gene

GeneHancer (GH) Regulatory Elements for PTPN4 Gene

Promoters and enhancers for PTPN4 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH02J119758 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE CraniofacialAtlas 500.7 +1.6 1573 5.2 FOXK2 ZBTB40 ZNF217 EP300 SIN3A TCF12 NRF1 POLR2G SP1 NCOR1 LOC101927764 PTPN4 lnc-SCTR-2 EPB41L5 piR-45035-113
GH02J119820 Enhancer 1 FANTOM5 Ensembl 14.6 +64.0 63988 10 CTCF JUND ZIC2 REST ZNF423 TRIM28 RAD21 TRIM22 SMC3 OSR2 EPB41L5 PTPN4 TMEM177 SCTR piR-38344-074 piR-46256-016
GH02J119694 Promoter/Enhancer 1.2 Ensembl ENCODE CraniofacialAtlas 10.7 -64.3 -64281 2 POLR2G USF1 FOXA1 RFX1 TEAD1 ZNF282 FOXA2 CEBPB ZFHX2 GLI4 piR-39533 PTPN4 lnc-TMEM177-3
GH02J119791 Enhancer 0.9 Ensembl ENCODE 11.6 +38.1 38055 12.2 USF1 TEAD4 POLR2A PCBP1 RXRA ZNF316 MAFF CTCF TRIM28 YY1 piR-45035-113 PTPN4 EPB41L5 LOC101927764
GH02J119856 Enhancer 0.8 Ensembl 10.7 +97.0 96970 6 TCF12 POLR2A OSR2 NCOR1 FOXA2 ZBTB17 GABPA TRIM24 YY1 PBX2 PTPN4 EPB41L5 TMEM177 piR-37097-052 piR-52438-059
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around PTPN4 on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for PTPN4

Top Transcription factor binding sites by QIAGEN in the PTPN4 gene promoter:
  • aMEF-2
  • C/EBPbeta
  • Chx10
  • MEF-2
  • MEF-2A
  • MyoD
  • Pax-2
  • Pax-2a
  • Pax-2b
  • Pax-5

Genomic Locations for PTPN4 Gene

Genomic Locations for PTPN4 Gene
chr2:119,759,631-119,984,899
(GRCh38/hg38)
Size:
225,269 bases
Orientation:
Plus strand
chr2:120,517,207-120,741,394
(GRCh37/hg19)
Size:
224,188 bases
Orientation:
Plus strand

Genomic View for PTPN4 Gene

Genes around PTPN4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PTPN4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PTPN4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PTPN4 Gene

Proteins for PTPN4 Gene

  • Protein details for PTPN4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P29074-PTN4_HUMAN
    Recommended name:
    Tyrosine-protein phosphatase non-receptor type 4
    Protein Accession:
    P29074
    Secondary Accessions:
    • B2RBV8
    • Q9UDA7

    Protein attributes for PTPN4 Gene

    Size:
    926 amino acids
    Molecular mass:
    105911 Da
    Quaternary structure:
    • Interacts with MAPK12 (via C-terminus); this interaction abolishes PTPN4 catalytic autoinhibition and thus activates the phosphatase activity.
    • (Microbial infection) Interacts with attenuated rabies virus protein G; this interaction is required for virally-induced apoptosis.

    Three dimensional structures from OCA and Proteopedia for PTPN4 Gene

neXtProt entry for PTPN4 Gene

Selected DME Specific Peptides for PTPN4 Gene

P29074:
  • YPLDIVR
  • VVHCSAG
  • DYINANY
  • KCHQYWP
  • WPDHGVP
  • HCSAGIGR

Post-translational modifications for PTPN4 Gene

Other Protein References for PTPN4 Gene

Domains & Families for PTPN4 Gene

Gene Families for PTPN4 Gene

Suggested Antigen Peptide Sequences for PTPN4 Gene

GenScript: Design optimal peptide antigens:
  • Protein-tyrosine phosphatase MEG1 (PTN4_HUMAN)

Graphical View of Domain Structure for InterPro Entry

P29074

UniProtKB/Swiss-Prot:

PTN4_HUMAN :
  • Belongs to the protein-tyrosine phosphatase family. Non-receptor class subfamily.
Family:
  • Belongs to the protein-tyrosine phosphatase family. Non-receptor class subfamily.
genes like me logo Genes that share domains with PTPN4: view

Function for PTPN4 Gene

Molecular function for PTPN4 Gene

UniProtKB/Swiss-Prot Function:
Phosphatase that plays a role in immunity, learning, synaptic plasticity or cell homeostasis (PubMed:25825441, PubMed:27246854). Regulates neuronal cell homeostasis by protecting neurons against apoptosis (PubMed:20086240). Negatively regulates TLR4-induced interferon beta production by dephosphorylating adapter TICAM2 and inhibiting subsequent TRAM-TRIF interaction (PubMed:25825441). Dephosphorylates also the immunoreceptor tyrosine-based activation motifs/ITAMs of the TCR zeta subunit and thereby negatively regulates TCR-mediated signaling pathway (By similarity). May act at junctions between the membrane and the cytoskeleton.
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=H2O + O-phospho-L-tyrosyl-[protein] = L-tyrosyl-[protein] + phosphate; Xref=Rhea:RHEA:10684, Rhea:RHEA-COMP:10136, Rhea:RHEA-COMP:10137, ChEBI:CHEBI:15377, ChEBI:CHEBI:43474, ChEBI:CHEBI:46858, ChEBI:CHEBI:82620; EC=3.1.3.48; Evidence=. ;.

Enzyme Numbers (IUBMB) for PTPN4 Gene

Phenotypes From GWAS Catalog for PTPN4 Gene

Gene Ontology (GO) - Molecular Function for PTPN4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004725 protein tyrosine phosphatase activity IEA --
GO:0004726 non-membrane spanning protein tyrosine phosphatase activity TAS,IEA --
GO:0005515 protein binding IPI,IEA 16169070
GO:0008092 cytoskeletal protein binding IEA --
GO:0016787 hydrolase activity IEA --
genes like me logo Genes that share ontologies with PTPN4: view
genes like me logo Genes that share phenotypes with PTPN4: view

Animal Models for PTPN4 Gene

MGI Knock Outs for PTPN4:

Animal Model Products

  • Taconic Biosciences Mouse Models for PTPN4

CRISPR Products

miRNA for PTPN4 Gene

miRTarBase miRNAs that target PTPN4

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for PTPN4

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for PTPN4 Gene

Localization for PTPN4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PTPN4 Gene

Cell membrane; Peripheral membrane protein; Cytoplasmic side. Cytoplasm, cytoskeleton. Cytoplasm.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for PTPN4 gene
Compartment Confidence
plasma membrane 5
nucleus 5
cytosol 5
cytoskeleton 4
extracellular 1
mitochondrion 1
endoplasmic reticulum 1
lysosome 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Nucleoplasm (2)
  • Plasma membrane (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for PTPN4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005654 nucleoplasm TAS --
GO:0005737 cytoplasm IDA,TAS 10940933
GO:0005829 cytosol TAS --
GO:0005856 cytoskeleton IEA --
GO:0005886 plasma membrane IEA --
genes like me logo Genes that share ontologies with PTPN4: view

Pathways & Interactions for PTPN4 Gene

PathCards logo

SuperPathways for PTPN4 Gene

genes like me logo Genes that share pathways with PTPN4: view

Pathways by source for PTPN4 Gene

1 Qiagen pathway for PTPN4 Gene
  • Epithelial Adherens Junctions

Gene Ontology (GO) - Biological Process for PTPN4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006470 protein dephosphorylation IEA,TAS 1648233
GO:0016311 dephosphorylation IEA --
GO:0035335 peptidyl-tyrosine dephosphorylation IEA --
GO:0071345 cellular response to cytokine stimulus TAS --
genes like me logo Genes that share ontologies with PTPN4: view

No data available for SIGNOR curated interactions for PTPN4 Gene

Drugs & Compounds for PTPN4 Gene

(4) Drugs for PTPN4 Gene - From: DrugBank, DGIdb, HMDB, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Alendronate Approved Pharma Inhibition, Inhibitor, Target, inhibitor Bone resorption inhibitor, Osteoclast function modifiers (important in bone metastasis) 173
Phosphoric acid Approved Pharma 0
Water Approved Pharma 0

(1) Additional Compounds for PTPN4 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
Phosphate
  • [po(OH)3]
  • Acide phosphorique
  • Acidum phosphoricum
  • H3PO4
  • Orthophosphoric acid
14066-19-4, 14265-44-2
genes like me logo Genes that share compounds with PTPN4: view

Transcripts for PTPN4 Gene

mRNA/cDNA for PTPN4 Gene

1 REFSEQ mRNAs :
7 NCBI additional mRNA sequence :
12 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for PTPN4

Alternative Splicing Database (ASD) splice patterns (SP) for PTPN4 Gene

ExUns: 1a · 1b ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15a · 15b ^ 16a · 16b ^ 17 ^ 18 ^ 19 ^ 20 ^ 21 ^ 22 ^
SP1: - - -
SP2:
SP3:

ExUns: 23 ^ 24 ^ 25 ^ 26 ^ 27 ^ 28
SP1:
SP2:
SP3:

Relevant External Links for PTPN4 Gene

GeneLoc Exon Structure for
PTPN4

Expression for PTPN4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for PTPN4 Gene

mRNA differential expression in normal tissues according to GTEx for PTPN4 Gene

This gene is overexpressed in Brain - Cerebellum (x4.2).

Protein differential expression in normal tissues from HIPED for PTPN4 Gene

This gene is overexpressed in NK cells (19.8), CD8 Tcells (14.3), Plasma (14.2), and Spinal cord (12.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for PTPN4 Gene



Transcriptomic regulation report from SPP (The Signaling Pathways Project) for PTPN4

SOURCE GeneReport for Unigene cluster for PTPN4 Gene:

Hs.469809

Evidence on tissue expression from TISSUES for PTPN4 Gene

  • Nervous system(4.7)
  • Intestine(4.1)
genes like me logo Genes that share expression patterns with PTPN4: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for PTPN4 Gene

Orthologs for PTPN4 Gene

This gene was present in the common ancestor of animals.

Orthologs for PTPN4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PTPN4 31 30
  • 99.68 (n)
OneToOne
dog
(Canis familiaris)
Mammalia PTPN4 31 30
  • 95.39 (n)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia PTPN4 31
  • 93 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 31
  • 93 (a)
OneToMany
-- 31
  • 89 (a)
OneToMany
cow
(Bos Taurus)
Mammalia PTPN4 31 30
  • 92.58 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Ptpn4 17 31 30
  • 92.44 (n)
rat
(Rattus norvegicus)
Mammalia Ptpn4 30
  • 92.19 (n)
chicken
(Gallus gallus)
Aves PTPN4 31 30
  • 85.31 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia PTPN4 31
  • 91 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.14815 30
zebrafish
(Danio rerio)
Actinopterygii ptpn4a 31 30
  • 72.89 (n)
OneToMany
ptpn4b 31
  • 72 (a)
OneToMany
wufi40g11 30
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP007130 30
  • 49.77 (n)
fruit fly
(Drosophila melanogaster)
Insecta Ptpmeg 31 32 30
  • 48.48 (n)
OneToMany
CG5022 32
  • 33 (a)
worm
(Caenorhabditis elegans)
Secernentea ptp-1 31 32 30
  • 59.97 (n)
OneToMany
F25H5.7 32
  • 36 (a)
F55F8.7 32
  • 36 (a)
C02B10.6 32
  • 32 (a)
F36H12.10 32
  • 32 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 31
  • 47 (a)
OneToMany
Cin.11441 30
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.11441 30
Species where no ortholog for PTPN4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for PTPN4 Gene

ENSEMBL:
Gene Tree for PTPN4 (if available)
TreeFam:
Gene Tree for PTPN4 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for PTPN4: view image

Paralogs for PTPN4 Gene

(54) SIMAP similar genes for PTPN4 Gene using alignment to 12 proteins:

  • PTN4_HUMAN
  • F5H020_HUMAN
  • F5H1A0_HUMAN
  • J3KQD3_HUMAN
  • J3KQP5_HUMAN
  • J3QT41_HUMAN
  • J3QT59_HUMAN
  • J3QT89_HUMAN
  • Q4ZG31_HUMAN
  • Q53Q76_HUMAN
  • Q53QV5_HUMAN
  • Q580X3_HUMAN

Pseudogenes.org Pseudogenes for PTPN4 Gene

genes like me logo Genes that share paralogs with PTPN4: view

Variants for PTPN4 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for PTPN4 Gene

SNP ID Clinical significance and condition Chr 02 pos Variation AA Info Type
rs3189128 - p.Thr924Ser

Additional dbSNP identifiers (rs#s) for PTPN4 Gene

Structural Variations from Database of Genomic Variants (DGV) for PTPN4 Gene

Variant ID Type Subtype PubMed ID
esv3592173 CNV loss 21293372
nsv1007653 CNV loss 25217958
nsv2893 CNV insertion 18451855
nsv471832 CNV novel sequence insertion 20440878
nsv476638 CNV novel sequence insertion 20440878
nsv834345 CNV gain 17160897

Variation tolerance for PTPN4 Gene

Residual Variation Intolerance Score: 21.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.33; 63.10% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for PTPN4 Gene

Human Gene Mutation Database (HGMD)
PTPN4
SNPedia medical, phenotypic, and genealogical associations of SNPs for
PTPN4

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PTPN4 Gene

Disorders for PTPN4 Gene

MalaCards: The human disease database

(1) MalaCards diseases for PTPN4 Gene - From: GeneCards

Disorder Aliases PubMed IDs
rabies
  • lyssa
- elite association - COSMIC cancer census association via MalaCards
Search PTPN4 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for PTPN4

genes like me logo Genes that share disorders with PTPN4: view

No data available for UniProtKB/Swiss-Prot and Genatlas for PTPN4 Gene

Publications for PTPN4 Gene

  1. Identification, cloning, and expression of a cytosolic megakaryocyte protein-tyrosine-phosphatase with sequence homology to cytoskeletal protein 4.1. (PMID: 1648233) Gu MX … Majerus PW (Proceedings of the National Academy of Sciences of the United States of America 1991) 2 3 4 23 54
  2. Molecular Basis of the Interaction of the Human Protein Tyrosine Phosphatase Non-receptor Type 4 (PTPN4) with the Mitogen-activated Protein Kinase p38γ. (PMID: 27246854) Maisonneuve P … Wolff N (The Journal of biological chemistry 2016) 3 4 54
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 54
  4. Molecular cloning and characterization of a protein tyrosine phosphatase enriched in testis, a putative murine homologue of human PTPMEG. (PMID: 11054567) Park KW … Baik J (Gene 2000) 3 23 54
  5. The properties of the protein tyrosine phosphatase PTPMEG. (PMID: 8910369) Gu M … Majerus PW (The Journal of biological chemistry 1996) 3 4 54

Products for PTPN4 Gene

Sources for PTPN4 Gene