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PTPRU protein tyrosine phosphatase receptor type U [ Homo sapiens (human) ]

Gene ID: 10076, updated on 9-Feb-2020

Summary

Official Symbol
PTPRUprovided by HGNC
Official Full Name
protein tyrosine phosphatase receptor type Uprovided by HGNC
Primary source
HGNC:HGNC:9683
See related
Ensembl:ENSG00000060656 MIM:602454
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
FMI; PTP; PCP-2; PTP-J; PTPRO; PTPU2; PTP-PI; PTP-RO; PTPPSI; hPTP-J; R-PTP-U; R-PTP-PSI
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 intracellular catalytic domains, and thus represents a receptor-type PTP. The extracellular region contains a meprin-A5 antigen-PTP (MAM) domain, Ig-like and fibronectin type III-like repeats. This PTP was thought to play roles in cell-cell recognition and adhesion. Studies of the similar gene in mice suggested the role of this PTP in early neural development. The expression of this gene was reported to be regulated by phorbol myristate acetate (PMA) or calcium ionophore in Jurkat T lymphoma cells. Alternatively spliced transcript variants have been reported. [provided by RefSeq, Aug 2010]
Expression
Broad expression in placenta (RPKM 9.6), lung (RPKM 7.2) and 21 other tissues See more
Orthologs

Genomic context

See PTPRU in Genome Data Viewer
Location:
1p35.3
Exon count:
33
Annotation release Status Assembly Chr Location
109.20191205 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (29236522..29326802)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (29563028..29653325)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene serine and arginine rich splicing factor 4 Neighboring gene mitochondrial trans-2-enoyl-CoA reductase Neighboring gene Sharpr-MPRA regulatory region 13643 Neighboring gene long intergenic non-protein coding RNA 1756 Neighboring gene uncharacterized LOC107984933

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

NHGRI GWAS Catalog

Description
A genome-wide meta-analysis identifies novel loci associated with schizophrenia and bipolar disorder.
NHGRI GWA Catalog
A genome-wide search for loci interacting with known prostate cancer risk-associated genetic variants.
NHGRI GWA Catalog
Genome-wide scan revealed that polymorphisms in the PNPLA3, SAMM50, and PARVB genes are associated with development and progression of nonalcoholic fatty liver disease in Japan.
NHGRI GWA Catalog

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of protein tyrosine phosphatase, receptor type U (PTPRU) by siRNA inhibits the early stages of HIV-1 replication in 293T cells infected with VSV-G pseudotyped HIV-1 PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ37530

Gene Ontology Provided by GOA

Function Evidence Code Pubs
beta-catenin binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein tyrosine phosphatase activity IBA
Inferred from Biological aspect of Ancestor
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 
transmembrane receptor protein tyrosine phosphatase activity NAS
Non-traceable Author Statement
more info
PubMed 
Process Evidence Code Pubs
animal organ regeneration IEA
Inferred from Electronic Annotation
more info
 
cell adhesion NAS
Non-traceable Author Statement
more info
PubMed 
cell differentiation IEA
Inferred from Electronic Annotation
more info
 
homotypic cell-cell adhesion IEA
Inferred from Electronic Annotation
more info
 
negative regulation of canonical Wnt signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of cell migration IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of cell proliferation IDA
Inferred from Direct Assay
more info
PubMed 
peptidyl-tyrosine dephosphorylation IEA
Inferred from Electronic Annotation
more info
 
positive regulation of cell-cell adhesion mediated by cadherin IDA
Inferred from Direct Assay
more info
PubMed 
protein dephosphorylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein dephosphorylation IDA
Inferred from Direct Assay
more info
PubMed 
protein localization to cell surface IDA
Inferred from Direct Assay
more info
PubMed 
response to glucocorticoid IEA
Inferred from Electronic Annotation
more info
 
transmembrane receptor protein tyrosine phosphatase signaling pathway NAS
Non-traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
cell-cell junction IDA
Inferred from Direct Assay
more info
PubMed 
integral component of plasma membrane NAS
Non-traceable Author Statement
more info
PubMed 
plasma membrane TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
receptor-type tyrosine-protein phosphatase U
Names
PTP pi
Receptor protein tyrosine phosphatase hPTP-J
pancreatic carcinoma phosphatase 2
pi R-PTP-Psi
protein-tyrosine phosphatase J
protein-tyrosine phosphatase pi
protein-tyrosine phosphatase receptor omicron
receptor-type protein-tyrosine phosphatase psi
NP_001181930.1
NP_005695.3
NP_573438.3
NP_573439.2
XP_006710332.1
XP_016855481.1
XP_016855482.1
XP_016855483.1
XP_016855484.1

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_033965.1 RefSeqGene

    Range
    5007..95285
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001195001.2NP_001181930.1  receptor-type tyrosine-protein phosphatase U isoform 4 precursor

    See identical proteins and their annotated locations for NP_001181930.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) lacks two alternate in-frame exons compared to variant 3. The resulting isoform (1) has the same N- and C-termini but is shorter than isoform 3.
    Source sequence(s)
    BC033131, BC146655, U73727, X97198
    Consensus CDS
    CCDS53290.1
    UniProtKB/Swiss-Prot
    Q92729
    Related
    ENSP00000392332.2, ENST00000428026.6
    Conserved Domains (4) summary
    smart00137
    Location:22186
    MAM; Domain in meprin, A5, receptor protein tyrosine phosphatase mu (and others)
    cd00047
    Location:9131130
    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 ...
    cd00063
    Location:386481
    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:494577
    fn3; Fibronectin type III domain
  2. NM_005704.5NP_005695.3  receptor-type tyrosine-protein phosphatase U isoform 3 precursor

    See identical proteins and their annotated locations for NP_005695.3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) represents the longest transcript and encodes the longest isoform (3).
    Source sequence(s)
    BC033131, BC146655, U73727, X95712, X97198
    Consensus CDS
    CCDS334.1
    UniProtKB/Swiss-Prot
    Q92729
    Related
    ENSP00000334941.5, ENST00000345512.7
    Conserved Domains (7) summary
    cd06263
    Location:27186
    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 ...
    smart00137
    Location:22186
    MAM; Domain in meprin, A5, receptor protein tyrosine phosphatase mu (and others)
    smart00194
    Location:11751438
    PTPc; Protein tyrosine phosphatase, catalytic domain
    cd00047
    Location:9231143
    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 ...
    cd00063
    Location:484585
    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:291366
    fn3; Fibronectin type III domain
    pfam00102
    Location:9181143
    Y_phosphatase; Protein-tyrosine phosphatase
  3. NM_133177.4NP_573438.3  receptor-type tyrosine-protein phosphatase U isoform 2 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon, contains an alternate in-frame exon, and uses an alternate, in-frame splice site compared to variant 3. The resulting isoform (2) has the same N- and C-termini but is 6 aa shorter than isoform 3.
    Source sequence(s)
    BC033131, BC146655, U71075, U73727, X97198
    Consensus CDS
    CCDS44098.2
    UniProtKB/Swiss-Prot
    Q92729
    Related
    ENSP00000432906.1, ENST00000460170.2
    Conserved Domains (7) summary
    cd06263
    Location:27186
    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 ...
    smart00137
    Location:22186
    MAM; Domain in meprin, A5, receptor protein tyrosine phosphatase mu (and others)
    smart00194
    Location:11711432
    PTPc; Protein tyrosine phosphatase, catalytic domain
    cd00047
    Location:9131139
    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 ...
    cd00063
    Location:484585
    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:291366
    fn3; Fibronectin type III domain
    pfam00102
    Location:9081139
    Y_phosphatase; Protein-tyrosine phosphatase
  4. NM_133178.4NP_573439.2  receptor-type tyrosine-protein phosphatase U isoform 1 precursor

    See identical proteins and their annotated locations for NP_573439.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) lacks an alternate in-frame exon compared to variant 3. The resulting isoform (1) has the same N- and C-termini but is 10 aa shorter than isoform 3.
    Source sequence(s)
    BC146655, U73727, X97198
    Consensus CDS
    CCDS335.1
    UniProtKB/Swiss-Prot
    Q92729
    Related
    ENSP00000362884.3, ENST00000373779.8
    Conserved Domains (7) summary
    cd06263
    Location:27186
    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 ...
    smart00137
    Location:22186
    MAM; Domain in meprin, A5, receptor protein tyrosine phosphatase mu (and others)
    smart00194
    Location:11651428
    PTPc; Protein tyrosine phosphatase, catalytic domain
    cd00047
    Location:9131133
    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 ...
    cd00063
    Location:484585
    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:291366
    fn3; Fibronectin type III domain
    pfam00102
    Location:9081133
    Y_phosphatase; Protein-tyrosine phosphatase

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20191205

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    29236522..29326802
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_016999992.1XP_016855481.1  receptor-type tyrosine-protein phosphatase U isoform X1

  2. XM_016999993.1XP_016855482.1  receptor-type tyrosine-protein phosphatase U isoform X2

  3. XM_016999994.1XP_016855483.1  receptor-type tyrosine-protein phosphatase U isoform X3

  4. XM_006710269.2XP_006710332.1  receptor-type tyrosine-protein phosphatase U isoform X4

    Conserved Domains (7) summary
    cd06263
    Location:27186
    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 ...
    smart00137
    Location:22186
    MAM; Domain in meprin, A5, receptor protein tyrosine phosphatase mu (and others)
    smart00194
    Location:11711434
    PTPc; Protein tyrosine phosphatase, catalytic domain
    cd00047
    Location:9131139
    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 ...
    cd00063
    Location:484585
    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:291366
    fn3; Fibronectin type III domain
    pfam00102
    Location:9081139
    Y_phosphatase; Protein-tyrosine phosphatase
  5. XM_016999995.1XP_016855484.1  receptor-type tyrosine-protein phosphatase U isoform X5

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