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PTPN2 protein tyrosine phosphatase non-receptor type 2 [ Homo sapiens (human) ]

Gene ID: 5771, updated on 10-Oct-2020

Summary

Official Symbol
PTPN2provided by HGNC
Official Full Name
protein tyrosine phosphatase non-receptor type 2provided by HGNC
Primary source
HGNC:HGNC:9650
See related
Ensembl:ENSG00000175354 MIM:176887
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
PTN2; PTPT; TCPTP; TC-PTP; TCELLPTP
Summary
The protein encoded by this gene is a member of the protein tyrosine phosphatase (PTP) family. Members of the PTP family share a highly conserved catalytic motif, which is essential for the catalytic activity. PTPs are known to be signaling molecules that regulate a variety of cellular processes including cell growth, differentiation, mitotic cycle, and oncogenic transformation. Epidermal growth factor receptor and the adaptor protein Shc were reported to be substrates of this PTP, which suggested the roles in growth factor mediated cell signaling. Multiple alternatively spliced transcript variants encoding different isoforms have been found. Two highly related but distinctly processed pseudogenes that localize to chromosomes 1 and 13, respectively, have been reported. [provided by RefSeq, May 2011]
Expression
Ubiquitous expression in appendix (RPKM 7.7), lymph node (RPKM 7.4) and 25 other tissues See more
Orthologs

Genomic context

See PTPN2 in Genome Data Viewer
Location:
18p11.21
Exon count:
16
Annotation release Status Assembly Chr Location
109.20200815 current GRCh38.p13 (GCF_000001405.39) 18 NC_000018.10 (12785478..12884351, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 18 NC_000018.9 (12785477..12884337, complement)

Chromosome 18 - NC_000018.10Genomic Context describing neighboring genes Neighboring gene proteasome assembly chaperone 2 Neighboring gene centrosomal protein 76 Neighboring gene long intergenic non-protein coding RNA 1882 Neighboring gene eukaryotic translation initiation factor 4A2 pseudogene 1 Neighboring gene serine/threonine kinase 25 pseudogene 1

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

Associated conditions

Description Tests
Genetics of rheumatoid arthritis contributes to biology and drug discovery.
GeneReviews: Not available
Genome-wide association analyses of esophageal squamous cell carcinoma in Chinese identify multiple susceptibility loci and gene-environment interactions.
GeneReviews: Not available
Genome-wide association analysis of autoantibody positivity in type 1 diabetes cases.
GeneReviews: Not available
Genome-wide association defines more than 30 distinct susceptibility loci for Crohn's disease.
GeneReviews: Not available
Genome-wide association study and meta-analysis find that over 40 loci affect risk of type 1 diabetes.
GeneReviews: Not available
Genome-wide association study of 14,000 cases of seven common diseases and 3,000 shared controls.
GeneReviews: Not available
Genome-wide meta-analysis increases to 71 the number of confirmed Crohn's disease susceptibility loci.
GeneReviews: Not available
Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease.
GeneReviews: Not available
Meta-analysis identifies nine new loci associated with rheumatoid arthritis in the Japanese population.
GeneReviews: Not available
Meta-analysis of genome-wide association studies in >80 000 subjects identifies multiple loci for C-reactive protein levels.
GeneReviews: Not available
Meta-analysis of genome-wide association studies in celiac disease and rheumatoid arthritis identifies fourteen non-HLA shared loci.
GeneReviews: Not available
Meta-analysis of genome-wide association study data identifies additional type 1 diabetes risk loci.
GeneReviews: Not available
Multiple common variants for celiac disease influencing immune gene expression.
GeneReviews: Not available
Robust associations of four new chromosome regions from genome-wide analyses of type 1 diabetes.
GeneReviews: Not available
Sequence variants in the autophagy gene IRGM and multiple other replicating loci contribute to Crohn's disease susceptibility.
GeneReviews: Not available

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
STAT family protein binding IEA
Inferred from Electronic Annotation
more info
 
integrin binding IPI
Inferred from Physical Interaction
more info
PubMed 
non-membrane spanning protein tyrosine phosphatase activity IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein kinase binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein tyrosine phosphatase activity EXP
Inferred from Experiment
more info
PubMed 
protein tyrosine phosphatase activity IDA
Inferred from Direct Assay
more info
PubMed 
protein tyrosine phosphatase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
receptor tyrosine kinase binding IPI
Inferred from Physical Interaction
more info
PubMed 
syntaxin binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
B cell differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
T cell differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
cellular response to cytokine stimulus TAS
Traceable Author Statement
more info
 
erythrocyte differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
glucose homeostasis ISS
Inferred from Sequence or Structural Similarity
more info
 
insulin receptor signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of ERK1 and ERK2 cascade ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of T cell receptor signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of chemotaxis ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of epidermal growth factor receptor signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of inflammatory response ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of insulin receptor signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of interferon-gamma-mediated signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of interleukin-2-mediated signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of interleukin-4-mediated signaling pathway IEA
Inferred from Electronic Annotation
more info
 
negative regulation of interleukin-6-mediated signaling pathway IEA
Inferred from Electronic Annotation
more info
 
negative regulation of lipid storage ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of macrophage colony-stimulating factor signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of macrophage differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of platelet-derived growth factor receptor-beta signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of positive thymic T cell selection ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of protein tyrosine kinase activity IEA
Inferred from Electronic Annotation
more info
 
negative regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 
negative regulation of tumor necrosis factor-mediated signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of type I interferon-mediated signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of tyrosine phosphorylation of STAT protein IMP
Inferred from Mutant Phenotype
more info
PubMed 
peptidyl-tyrosine dephosphorylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of PERK-mediated unfolded protein response IEA
Inferred from Electronic Annotation
more info
 
positive regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway IEA
Inferred from Electronic Annotation
more info
 
positive regulation of gluconeogenesis ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of hepatocyte growth factor receptor signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of interferon-gamma-mediated signaling pathway TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
cytosol IDA
Inferred from Direct Assay
more info
 
cytosol TAS
Traceable Author Statement
more info
 
endoplasmic reticulum IDA
Inferred from Direct Assay
more info
PubMed 
endoplasmic reticulum-Golgi intermediate compartment IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
colocalizes_with plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
tyrosine-protein phosphatase non-receptor type 2
Names
T-cell protein tyrosine phosphatase
NP_001193942.1
NP_001295216.1
NP_002819.2
NP_536347.1
NP_536348.1
XP_005258181.1
XP_005258182.1
XP_011524007.1
XP_011524008.1
XP_011524009.1
XP_016881373.1
XP_016881374.1
XP_016881375.1
XP_016881376.1
XP_016881377.1
XP_024306996.1
XP_024306997.1
XP_024306998.1

NCBI Reference Sequences (RefSeq)

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.

Genomic

  1. NG_029116.1 RefSeqGene

    Range
    5001..103858
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001207013.2NP_001193942.1  tyrosine-protein phosphatase non-receptor type 2 isoform 4

    See identical proteins and their annotated locations for NP_001193942.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) contains an additional in-frame exon in the middle coding region and an alternate 3' region, which includes a part of the C-terminal coding region, when compared to variant 1. The resulting isoform (4) has an additional internal segment and a shorter and distinct C-terminus, as compared to isoform 1.
    Source sequence(s)
    AK225706, BG699440, BQ010946
    Consensus CDS
    CCDS59306.1
    UniProtKB/Swiss-Prot
    P17706
    Related
    ENSP00000466936.1, ENST00000591115.5
    Conserved Domains (1) summary
    cl28904
    Location:19295
    PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily
  2. NM_001308287.1NP_001295216.1  tyrosine-protein phosphatase non-receptor type 2 isoform 5

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation from an alternate start codon compared to variant 1. The resulting isoform (5) has a shorter and distinct N-terminus, as compared to isoform 1.
    Source sequence(s)
    AB209569, AP001077
    Consensus CDS
    CCDS77155.1
    UniProtKB/TrEMBL
    K7EQG9, Q59F91
    Related
    ENSP00000467823.1, ENST00000591497.5
    Conserved Domains (2) summary
    cd00047
    Location:26245
    PTPc; Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr ...
    pfam00102
    Location:26245
    Y_phosphatase; Protein-tyrosine phosphatase
  3. NM_002828.4NP_002819.2  tyrosine-protein phosphatase non-receptor type 2 isoform 1

    See identical proteins and their annotated locations for NP_002819.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AB209569, AK292570, AP001077, BG699440, DB350067
    Consensus CDS
    CCDS11865.1
    UniProtKB/Swiss-Prot
    P17706
    UniProtKB/TrEMBL
    Q59F91
    Related
    ENSP00000311857.3, ENST00000309660.10
    Conserved Domains (1) summary
    cd14607
    Location:19272
    PTPc-N2; catalytic domain of tyrosine-protein phosphatase non-receptor type 2
  4. NM_080422.3NP_536347.1  tyrosine-protein phosphatase non-receptor type 2 isoform 2

    See identical proteins and their annotated locations for NP_536347.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) contains an alternate 3' region, which includes a part of the C-terminal coding region, when compared to variant 1. The resulting isoform (2) has a shorter and distinct C-terminus, as compared to isoform 1.
    Source sequence(s)
    AK290649, BG699440, BQ010946
    Consensus CDS
    CCDS11863.1
    UniProtKB/Swiss-Prot
    P17706
    UniProtKB/TrEMBL
    A8K3N4
    Related
    ENSP00000320298.3, ENST00000327283.7
    Conserved Domains (1) summary
    cd14607
    Location:19272
    PTPc-N2; catalytic domain of tyrosine-protein phosphatase non-receptor type 2
  5. NM_080423.3NP_536348.1  tyrosine-protein phosphatase non-receptor type 2 isoform 3

    See identical proteins and their annotated locations for NP_536348.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) contains an alternate 3' region, which includes a part of the C-terminal coding region, when compared to variant 1. The resulting isoform (3) has a shorter and distinct C-terminus, as compared to isoform 1.
    Source sequence(s)
    BC016727, BQ010946
    Consensus CDS
    CCDS11864.1
    UniProtKB/Swiss-Prot
    P17706
    Related
    ENSP00000320546.3, ENST00000353319.8
    Conserved Domains (2) summary
    smart00194
    Location:5274
    PTPc; Protein tyrosine phosphatase, catalytic domain
    cd00047
    Location:45274
    PTPc; Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr ...

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20200815

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000018.10 Reference GRCh38.p13 Primary Assembly

    Range
    12785478..12884351 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005258125.4XP_005258182.1  tyrosine-protein phosphatase non-receptor type 2 isoform X2

    Conserved Domains (2) summary
    cd00047
    Location:45297
    PTPc; Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr ...
    pfam00102
    Location:42297
    Y_phosphatase; Protein-tyrosine phosphatase
  2. XM_017025888.2XP_016881377.1  tyrosine-protein phosphatase non-receptor type 2 isoform X10

    Conserved Domains (2) summary
    cd00047
    Location:1175
    PTPc; Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr ...
    pfam00102
    Location:1175
    Y_phosphatase; Protein-tyrosine phosphatase
  3. XM_024451228.1XP_024306996.1  tyrosine-protein phosphatase non-receptor type 2 isoform X7

    Conserved Domains (1) summary
    pfam00102
    Location:42229
    Y_phosphatase; Protein-tyrosine phosphatase
  4. XM_017025884.1XP_016881373.1  tyrosine-protein phosphatase non-receptor type 2 isoform X4

  5. XM_017025887.2XP_016881376.1  tyrosine-protein phosphatase non-receptor type 2 isoform X9

  6. XM_005258124.4XP_005258181.1  tyrosine-protein phosphatase non-receptor type 2 isoform X1

    Conserved Domains (2) summary
    cd00047
    Location:45297
    PTPc; Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr ...
    pfam00102
    Location:42297
    Y_phosphatase; Protein-tyrosine phosphatase
  7. XM_017025886.1XP_016881375.1  tyrosine-protein phosphatase non-receptor type 2 isoform X8

    UniProtKB/TrEMBL
    D3DUJ3
    Conserved Domains (1) summary
    cd00047
    Location:1175
    PTPc; Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr ...
  8. XM_011525706.2XP_011524008.1  tyrosine-protein phosphatase non-receptor type 2 isoform X6

    Conserved Domains (2) summary
    cd00047
    Location:45229
    PTPc; Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr ...
    pfam00102
    Location:42229
    Y_phosphatase; Protein-tyrosine phosphatase
  9. XM_011525705.3XP_011524007.1  tyrosine-protein phosphatase non-receptor type 2 isoform X3

    Conserved Domains (2) summary
    cd00047
    Location:26268
    PTPc; Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr ...
    pfam00102
    Location:26268
    Y_phosphatase; Protein-tyrosine phosphatase
  10. XM_017025885.2XP_016881374.1  tyrosine-protein phosphatase non-receptor type 2 isoform X5

    UniProtKB/TrEMBL
    K7EQG9
    Conserved Domains (2) summary
    cd00047
    Location:26245
    PTPc; Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr ...
    pfam00102
    Location:26245
    Y_phosphatase; Protein-tyrosine phosphatase
  11. XM_024451229.1XP_024306997.1  tyrosine-protein phosphatase non-receptor type 2 isoform X8

    Related
    ENSP00000493693.1, ENST00000645191.1
    Conserved Domains (1) summary
    cd00047
    Location:1175
    PTPc; Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr ...
  12. XM_024451230.1XP_024306998.1  tyrosine-protein phosphatase non-receptor type 2 isoform X8

    Related
    ENSP00000496181.1, ENST00000646492.1
    Conserved Domains (1) summary
    cd00047
    Location:1175
    PTPc; Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr ...
  13. XM_011525707.2XP_011524009.1  tyrosine-protein phosphatase non-receptor type 2 isoform X11

    Conserved Domains (2) summary
    cd00047
    Location:8118
    PTPc; Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr ...
    pfam00102
    Location:9118
    Y_phosphatase; Protein-tyrosine phosphatase
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