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PTPRO protein tyrosine phosphatase receptor type O [ Homo sapiens (human) ]

Gene ID: 5800, updated on 3-Apr-2024

Summary

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Official Symbol
PTPROprovided by HGNC
Official Full Name
protein tyrosine phosphatase receptor type Oprovided by HGNC
Primary source
HGNC:HGNC:9678
See related
Ensembl:ENSG00000151490 MIM:600579; AllianceGenome:HGNC:9678
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
NPHS6; PTPU2; GLEPP1; PTP-OC; PTP-U2; PTPROT; R-PTP-O
Summary
This gene encodes a member of the R3 subtype family of receptor-type protein tyrosine phosphatases. These proteins are localized to the apical surface of polarized cells and may have tissue-specific functions through activation of Src family kinases. This gene contains two distinct promoters, and alternatively spliced transcript variants encoding multiple isoforms have been observed. The encoded proteins may have multiple isoform-specific and tissue-specific functions, including the regulation of osteoclast production and activity, inhibition of cell proliferation and facilitation of apoptosis. This gene is a candidate tumor suppressor, and decreased expression of this gene has been observed in several types of cancer. [provided by RefSeq, May 2011]
Expression
Biased expression in kidney (RPKM 3.7), brain (RPKM 2.7) and 11 other tissues See more
Orthologs
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Genomic context

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See PTPRO in Genome Data Viewer
Location:
12p12.3; 12p13-p12
Exon count:
28
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (15322508..15598331)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (15199775..15475561)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (15475442..15751265)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene RAS like estrogen regulated growth inhibitor Neighboring gene uncharacterized LOC124902886 Neighboring gene uncharacterized LOC105369673 Neighboring gene methyltransferase like 8 pseudogene 1 Neighboring gene ribosomal protein S2 pseudogene 42 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr12:15678492-15679691 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6067 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr12:15687897-15689096 Neighboring gene uncharacterized LOC105369672 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6068 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6069 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6070 Neighboring gene HNF4 motif-containing MPRA enhancer 23 Neighboring gene EGFR pathway substrate 8, signaling adaptor Neighboring gene RNA, U6 small nuclear 251, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4278 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4279 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4280 Neighboring gene mitochondrial ribosomal protein S7 pseudogene 2

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. PTPRO-related CD8(+) T-cell signatures predict prognosis and immunotherapy response in patients with breast cancer. Dong H, et al. Front Immunol, 2022. PMID 36003382, Free PMC Article
  2. PTPRO activates TLR4/NF-κB signaling to intensify lipopolysaccharide-induced pneumonia cell injury. Chen Y, et al. Allergol Immunopathol (Madr), 2022. PMID 35527665
  3. IL-6 promotes PD-L1 expression in monocytes and macrophages by decreasing protein tyrosine phosphatase receptor type O expression in human hepatocellular carcinoma. Zhang W, et al. J Immunother Cancer, 2020 Jun. PMID 32581055, Free PMC Article
  4. PTPRO exaggerates inflammation in ulcerative colitis through TLR4/NF-κB pathway. Zhao J, et al. J Cell Biochem, 2020 Feb. PMID 31452237
  5. Epigenetically silenced PTPRO functions as a prognostic marker and tumor suppressor in human lung squamous cell carcinoma. Ming F, et al. Mol Med Rep, 2017 Jul. PMID 28586036, Free PMC Article

See all (70) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Protein tyrosine phosphatase PTPRO represses lung adenocarcinoma progression by inducing mitochondria-dependent apoptosis and restraining tumor metastasis.
    Title: Protein tyrosine phosphatase PTPRO represses lung adenocarcinoma progression by inducing mitochondria-dependent apoptosis and restraining tumor metastasis.
  2. PTPRO-related CD8(+) T-cell signatures predict prognosis and immunotherapy response in patients with breast cancer.
    Title: PTPRO-related CD8(+) T-cell signatures predict prognosis and immunotherapy response in patients with breast cancer.
  3. PTPRO activates TLR4/NF-kappaB signaling to intensify lipopolysaccharide-induced pneumonia cell injury.
    Title: PTPRO activates TLR4/NF-κB signaling to intensify lipopolysaccharide-induced pneumonia cell injury.
  4. MiR-6869-5p Induces M2 Polarization by Regulating PTPRO in Gestational Diabetes Mellitus.
    Title: MiR-6869-5p Induces M2 Polarization by Regulating PTPRO in Gestational Diabetes Mellitus.
  5. Protein tyrosine phosphatase receptor type O (PTPRO) knockdown enhances the proliferative, invasive and angiogenic activities of trophoblast cells by suppressing ER resident protein 44 (ERp44) expression in preeclampsia.
    Title: Protein tyrosine phosphatase receptor type O (PTPRO) knockdown enhances the proliferative, invasive and angiogenic activities of trophoblast cells by suppressing ER resident protein 44 (ERp44) expression in preeclampsia.
  6. PTPRO exaggerates inflammation in ulcerative colitis through TLR4/NF-kappaB pathway.
    Title: PTPRO exaggerates inflammation in ulcerative colitis through TLR4/NF-κB pathway.
  7. IL-6 promotes PD-L1 expression in monocytes and macrophages by decreasing protein tyrosine phosphatase receptor type O expression in human hepatocellular carcinoma.
    Title: IL-6 promotes PD-L1 expression in monocytes and macrophages by decreasing protein tyrosine phosphatase receptor type O expression in human hepatocellular carcinoma.
  8. LncRNA HULC promotes lung squamous cell carcinoma by regulating PTPRO via NF-kappaB.
    Title: LncRNA HULC promotes lung squamous cell carcinoma by regulating PTPRO via NF-κB.
  9. PTPRO was significantly upregulated and negatively associated with miR-548c-5p in placental mononuclear cells in patients with preeclampsia.
    Title: MiRNA-548c-5p downregulates inflammatory response in preeclampsia via targeting PTPRO.
  10. the present study demonstrated that PTPRO inhibits tumor growth in vitro and in vivo, indicating the tumor suppressive function of PTPRO in LSCC. This study highlights PTPRO as an epigenetically silenced gene, and a candidate tumor-suppressor of LSCC.
    Title: Epigenetically silenced PTPRO functions as a prognostic marker and tumor suppressor in human lung squamous cell carcinoma.
Submit: New GeneRIF Correction See all GeneRIFs (39)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Associated conditions

Description Tests
Nephrotic syndrome, type 6
MedGen: C3280100 OMIM: 614196 GeneReviews: Genetic Steroid-Resistant Nephrotic Syndrome Overview
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EBI GWAS Catalog

Description
Genome-wide study identifies PTPRO and WDR72 and FOXQ1-SUMO1P1 interaction associated with neurocognitive function.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 gp120 induces CD4 association with lymphocyte surface molecules CD3, CD11a, CD27, CD45RA, CD45RB, CD45RO, CD49d, CD38, CD26, CD59, CD95 and class I MHC molecules PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables Wnt-protein binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables Wnt-protein binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables cadherin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables cadherin binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables phosphatase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein homodimerization activity ISS
Inferred from Sequence or Structural Similarity
more info
  
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 IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables protein tyrosine phosphatase activity TAS
Traceable Author Statement
more info
 PubMed 
enables transmembrane receptor protein tyrosine phosphatase activity NAS
Non-traceable Author Statement
more info
 PubMed 
Process Evidence Code Pubs
involved_in axon guidance IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in axon guidance ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in cell morphogenesis ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in glomerulus development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in lamellipodium assembly ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in monocyte chemotaxis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of canonical Wnt signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in negative regulation of canonical Wnt signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in negative regulation of cell-substrate adhesion ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in negative regulation of glomerular filtration ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in negative regulation of neuron projection development ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in negative regulation of retinal ganglion cell axon guidance ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in peptidyl-tyrosine dephosphorylation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in peptidyl-tyrosine dephosphorylation involved in inactivation of protein kinase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in podocyte differentiation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in podocyte differentiation ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in protein dephosphorylation ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in protein dephosphorylation TAS
Traceable Author Statement
more info
 PubMed 
involved_in regulation of glomerular filtration IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of glomerular filtration ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in regulation of synapse organization IEA
Inferred from Electronic Annotation
more info
  
involved_in slit diaphragm assembly ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in slit diaphragm assembly NAS
Non-traceable Author Statement
more info
 PubMed 
Component Evidence Code Pubs
is_active_in GABA-ergic synapse IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in apical plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in axon ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in dendritic spine ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in extracellular exosome HDA PubMed 
is_active_in glutamatergic synapse IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in growth cone ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in lamellipodium ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in lateral plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in membrane TAS
Traceable Author Statement
more info
 PubMed 
located_in neuron projection ISS
Inferred from Sequence or Structural Similarity
more info
  
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in plasma membrane NAS
Non-traceable Author Statement
more info
 PubMed 
located_in postsynaptic density membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
receptor-type tyrosine-protein phosphatase O
Names
PTP phi
PTPase U2
glomerular epithelial protein 1
osteoclastic transmembrane protein-tyrosine phosphatase
phosphotyrosine phosphatase U2
protein tyrosine phosphatase PTP-U2
NP_002839.1
NP_109592.1
NP_109593.1
NP_109594.1
NP_109595.1
NP_109596.1
XP_016875214.1
XP_054228699.1
XP_054228700.1

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.

Genomic

  1. NG_031857.1 RefSeqGene

    Range
    5252..281075
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_002848.4 → NP_002839.1  receptor-type tyrosine-protein phosphatase O isoform b precursor

    See identical proteins and their annotated locations for NP_002839.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an exon in the coding region but maintains the reading frame, compared to variant 1. The encoded isoform (b) is shorter than isoform a.
    Source sequence(s)
    AC007542, DR000351, U20489
    Consensus CDS
    CCDS8674.1
    UniProtKB/TrEMBL
    A8K169
    Related
    ENSP00000343434.2, ENST00000348962.7
    Conserved Domains (4) summary
    smart00194
    Location:909 → 1164
    PTPc; Protein tyrosine phosphatase, catalytic domain
    cd00047
    Location:937 → 1165
    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:434 → 526
    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:725 → 805
    fn3; Fibronectin type III domain

  2. NM_030667.3 → NP_109592.1  receptor-type tyrosine-protein phosphatase O isoform a precursor

    See identical proteins and their annotated locations for NP_109592.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).
    Source sequence(s)
    AC007542, BC126201, DR000351
    Consensus CDS
    CCDS8675.1
    UniProtKB/Swiss-Prot
    A0AV39, Q13101, Q16827, Q8IYG3, Q9UBF0, Q9UBT5
    UniProtKB/TrEMBL
    A8K169
    Related
    ENSP00000281171.4, ENST00000281171.9
    Conserved Domains (3) summary
    cd00047
    Location:965 → 1193
    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:530 → 630
    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:435 → 521
    fn3; Fibronectin type III domain

  3. NM_030668.3 → NP_109593.1  receptor-type tyrosine-protein phosphatase O isoform d

    See identical proteins and their annotated locations for NP_109593.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR and has multiple differences in the coding region but maintains the reading frame, compared to variant 1. Variants 4 and 6 encode the same isoform (d), which is shorter than isoform a.
    Source sequence(s)
    AC007542, AF187044
    Consensus CDS
    CCDS53754.1
    UniProtKB/TrEMBL
    A0A6I8PRG8
    Related
    ENSP00000437571.1, ENST00000542557.5
    Conserved Domains (1) summary
    cd14614
    Location:112 → 356
    R-PTPc-O; catalytic domain of receptor-type tyrosine-protein phosphatase O

  4. NM_030669.3 → NP_109594.1  receptor-type tyrosine-protein phosphatase O isoform c

    See identical proteins and their annotated locations for NP_109594.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR, lacks a portion of the 5' coding region and initiates translation at a downstream, in-frame start codon, compared to variant 1. Variants 3 and 5 encode the same isoform (c), which has a shorter N-terminus compared to isoform a.
    Source sequence(s)
    AC007542, AF187043
    Consensus CDS
    CCDS44837.1
    UniProtKB/TrEMBL
    A0A6I8PRG8
    Related
    ENSP00000501494.1, ENST00000674388.1
    Conserved Domains (1) summary
    cd00047
    Location:154 → 382
    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 ...

  5. NM_030670.3 → NP_109595.1  receptor-type tyrosine-protein phosphatase O isoform d

    See identical proteins and their annotated locations for NP_109595.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) differs in the 5' UTR and 3' UTR, and has multiple differences in the coding region but maintains the reading frame, compared to variant 1. Variants 4 and 6 encode the same isoform (d), which is shorter than isoform a.
    Source sequence(s)
    AC007542, AF187042
    Consensus CDS
    CCDS53754.1
    UniProtKB/TrEMBL
    A0A6I8PRG8
    Related
    ENSP00000439234.1, ENST00000544244.5
    Conserved Domains (1) summary
    cd14614
    Location:112 → 356
    R-PTPc-O; catalytic domain of receptor-type tyrosine-protein phosphatase O

  6. NM_030671.3 → NP_109596.1  receptor-type tyrosine-protein phosphatase O isoform c

    See identical proteins and their annotated locations for NP_109596.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR and 3' UTR, lacks a portion of the 5' coding region and initiates translation at a downstream, in-frame start codon, compared to variant 1. Variants 3 and 5 encode the same isoform (c), which has a shorter N-terminus compared to isoform a.
    Source sequence(s)
    AC007542, AF152378
    Consensus CDS
    CCDS44837.1
    UniProtKB/TrEMBL
    A0A6I8PRG8
    Related
    ENSP00000393449.2, ENST00000445537.6
    Conserved Domains (1) summary
    cd00047
    Location:154 → 382
    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: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    15322508..15598331
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017019725.3 → XP_016875214.1  receptor-type tyrosine-protein phosphatase O isoform X1

RNA

  1. XR_931316.4 RNA Sequence

  2. XR_007063106.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    15199775..15475561
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054372724.1 → XP_054228699.1  receptor-type tyrosine-protein phosphatase O isoform X1

  2. XM_054372725.1 → XP_054228700.1  receptor-type tyrosine-protein phosphatase O isoform X2

RNA

  1. XR_008488649.1 RNA Sequence

  2. XR_008488650.1 RNA Sequence

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q16827.2 GenPept UniProtKB/Swiss-Prot:Q16827

Gene LinkOut

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