U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

PTP4A1 protein tyrosine phosphatase 4A1 [ Homo sapiens (human) ]

Gene ID: 7803, updated on 7-Apr-2024

Summary

Go to the top of the page Help
Official Symbol
PTP4A1provided by HGNC
Official Full Name
protein tyrosine phosphatase 4A1provided by HGNC
Primary source
HGNC:HGNC:9634
See related
Ensembl:ENSG00000112245 MIM:601585; AllianceGenome:HGNC:9634
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
HH72; PRL1; PRL-1; PTPCAAX1; PTP(CAAX1)
Summary
This gene encodes a member of a small class of prenylated protein tyrosine phosphatases (PTPs), which contain a PTP domain and a characteristic C-terminal prenylation motif. The encoded protein is a cell signaling molecule that plays regulatory roles in a variety of cellular processes, including cell proliferation and migration. The protein may also be involved in cancer development and metastasis. This tyrosine phosphatase is a nuclear protein, but may associate with plasma membrane by means of its prenylation motif. Pseudogenes related to this gene are located on chromosomes 1, 2, 5, 7, 11 and X. [provided by RefSeq, Jun 2013]
Expression
Broad expression in liver (RPKM 141.5), adrenal (RPKM 72.5) and 24 other tissues See more
Orthologs
mouse all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
6q12
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (63516440..63583588)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (64662355..64729529)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (64226345..64293493)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene HNF1 motif-containing MPRA enhancer 15 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24717 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24718 Neighboring gene leucine rich repeat containing 59 pseudogene Neighboring gene lengsin, lens protein with glutamine synthetase domain Neighboring gene translation initiation factor IF-2-like Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:64282845-64283580 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:64283581-64284316 Neighboring gene uncharacterized LOC128125822 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:64282109-64282844 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:64281371-64282108 Neighboring gene Sharpr-MPRA regulatory region 1413 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24720 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24721 Neighboring gene eukaryotic translation elongation factor 1 beta 2 pseudogene 5 Neighboring gene NANOG hESC enhancer GRCh37_chr6:64344395-64344932 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr6:64345464-64346284 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17311 Neighboring gene ribosomal protein L7a pseudogene 34 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 24722 Neighboring gene ribosomal protein L9 pseudogene 18 Neighboring gene PHD finger protein 3 Neighboring gene eyes shut homolog

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • 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

Go to the top of the pageHelp

Related articles in PubMed

  1. Phosphatase of Regenerating Liver-1 (PRL-1) Regulates Actin Dynamics During Immunological Synapse Assembly and T Cell Effector Function. Castro-Sánchez P, et al. Front Immunol, 2018. PMID 30515156, Free PMC Article
  2. Phosphatase of regenerating liver maintains cellular magnesium homeostasis. Yoshida A, et al. Biochem J, 2018 Mar 26. PMID 29487165
  3. Protein tyrosine phosphatase PTP4A1 promotes proliferation and epithelial-mesenchymal transition in intrahepatic cholangiocarcinoma via the PI3K/AKT pathway. Liu LZ, et al. Oncotarget, 2016 Nov 15. PMID 27655691, Free PMC Article
  4. Oncogenic function and prognostic significance of protein tyrosine phosphatase PRL-1 in hepatocellular carcinoma. Jin S, et al. Oncotarget, 2014 Jun 15. PMID 25003523, Free PMC Article
  5. Identification of PRL1 as a novel diagnostic and therapeutic target for castration-resistant prostate cancer by the Escherichia coli ampicillin secretion trap (CAST) method. Shinmei S, et al. Urol Oncol, 2014 Aug. PMID 24968948

See all (81) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Endothelial PTP4A1 mitigates vascular inflammation via USF1/A20 axis-mediated NF-kappaB inactivation.
    Title: Endothelial PTP4A1 mitigates vascular inflammation via USF1/A20 axis-mediated NF-κB inactivation.
  2. GINS2 regulates the proliferation and apoptosis of colon cancer cells through PTP4A1.
    Title: GINS2 regulates the proliferation and apoptosis of colon cancer cells through PTP4A1.
  3. LncRNA NEAT1 promotes cell proliferation, migration, and invasion via the miR-186-5p/PTP4A1 axis in cholangiocarcinoma.
    Title: LncRNA NEAT1 promotes cell proliferation, migration, and invasion via the miR-186-5p/PTP4A1 axis in cholangiocarcinoma.
  4. These results provide evidence indicating a regulatory role of PRL-1 during Immunological Synapse assembly and highlight the involvement of PRLs in immune responses by mature T cells.
    Title: Phosphatase of Regenerating Liver-1 (PRL-1) Regulates Actin Dynamics During Immunological Synapse Assembly and T Cell Effector Function.
  5. Overexpression of miR-339-5p enhanced radiosensitivity of A549 and H460 cells by inhibiting cell viability, increasing apoptosis, inducing cell cycle arrest, and suppressing cell proliferation. Further exploration validated that miR-339-5p can target phosphatases of regenerating liver-1 (PRL-1) in lung cancer cells.
    Title: miR-339-5p Increases Radiosensitivity of Lung Cancer Cells by Targeting Phosphatases of Regenerating Liver-1 (PRL-1).
  6. PRL mRNA transcription was stimulated by Mg(2+) depletion. A series of analyses revealed the activation and the crucial importance of signal transducer and activator of transcription 1 in this process. Collectively, these results implicate PRL in maintaining cellular Mg(2+) homeostasis.
    Title: Phosphatase of regenerating liver maintains cellular magnesium homeostasis.
  7. PTP4A1 is a direct downstream target of miR-1271 in the hepatocellular carcinoma.
    Title: MicroRNA-1271 functions as a metastasis and epithelial-mesenchymal transition inhibitor in human HCC by targeting the PTP4A1/c-Src axis.
  8. PTP4A1 is highly expressed in fibroblasts from patients with systemic sclerosis and enhances pro-fibrotic TGFbeta signaling in these cells.
    Title: PTP4A1 promotes TGFβ signaling and fibrosis in systemic sclerosis.
  9. PTP4A1 was overexpressed in ICC and played an important role in the progression and metastasis of ICC. The functional role of PTP4A1 was assumed to be acted by activation PI3K/AKT signaling and promoting the EMT process through two pivotal transcriptional factors Zeb1 and Snail.
    Title: Protein tyrosine phosphatase PTP4A1 promotes proliferation and epithelial-mesenchymal transition in intrahepatic cholangiocarcinoma via the PI3K/AKT pathway.
  10. Results showed that SIAH1 and PTP4A1 expression was regulated by mir-944 in breast cancer cells. miR-944 binds directly the 3 UTR of their promotor region.
    Title: Suppression of cell migration is promoted by miR-944 through targeting of SIAH1 and PTP4A1 in breast cancer cells.
Submit: New GeneRIF Correction See all GeneRIFs (34)

Phenotypes

Go to the top of the page Help

Review eQTL and phenotype association data in this region using PheGenI

Variation

Go to the top of the page Help

See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Pathways from PubChem

Go to the top of the page

Interactions

Go to the top of the page Help
Products Interactant Other Gene Complex Source Pubs Description

General gene information

Go to the top of the page Help

Markers

Homology

Clone Names

  • DKFZp779M0721

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein 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 NAS
Non-traceable Author Statement
more info
 PubMed 
enables protein tyrosine/serine/threonine phosphatase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in cell cycle IEA
Inferred from Electronic Annotation
more info
  
involved_in dephosphorylation IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of cell migration IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoplasm IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytoplasmic side of plasma membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in early endosome IEA
Inferred from Electronic Annotation
more info
  
located_in endoplasmic reticulum IEA
Inferred from Electronic Annotation
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in spindle IEA
Inferred from Electronic Annotation
more info
  

General protein information

Go to the top of the page Help
Preferred Names
protein tyrosine phosphatase type IVA 1
Names
PVT1/PTP4A1 fusion
phosphatase of regenerating liver 1
protein tyrosine phosphatase type IVA protein 1
protein tyrosine phosphatase type IVA, member 1
protein-tyrosine phosphatase of regenerating liver 1
NP_001372183.1
NP_001372184.1
NP_001372185.1
NP_001372186.1
NP_001372187.1
NP_001372188.1
NP_001372189.1
NP_001372191.1
NP_001372192.1
NP_001372194.1
NP_001372195.1
NP_001372196.1
NP_001372197.1
NP_003454.1

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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)

  1. NM_001385254.1 → NP_001372183.1  protein tyrosine phosphatase type IVA 1 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AL135905
    Consensus CDS
    CCDS4965.1
    UniProtKB/Swiss-Prot
    B2R6C8, O00648, Q49A54, Q93096
    UniProtKB/TrEMBL
    B5BU78
    Conserved Domains (1) summary
    cd18537
    Location:1 → 167
    PTP-IVa1; protein tyrosine phosphatase type IVA 1

  2. NM_001385255.1 → NP_001372184.1  protein tyrosine phosphatase type IVA 1 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AL135905
    Consensus CDS
    CCDS4965.1
    UniProtKB/Swiss-Prot
    B2R6C8, O00648, Q49A54, Q93096
    UniProtKB/TrEMBL
    B5BU78
    Conserved Domains (1) summary
    cd18537
    Location:1 → 167
    PTP-IVa1; protein tyrosine phosphatase type IVA 1

  3. NM_001385256.1 → NP_001372185.1  protein tyrosine phosphatase type IVA 1 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AL135905
    Consensus CDS
    CCDS4965.1
    UniProtKB/Swiss-Prot
    B2R6C8, O00648, Q49A54, Q93096
    UniProtKB/TrEMBL
    B5BU78
    Related
    ENSP00000497588.1, ENST00000648894.1
    Conserved Domains (1) summary
    cd18537
    Location:1 → 167
    PTP-IVa1; protein tyrosine phosphatase type IVA 1

  4. NM_001385257.1 → NP_001372186.1  protein tyrosine phosphatase type IVA 1 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AL135905
    Consensus CDS
    CCDS4965.1
    UniProtKB/Swiss-Prot
    B2R6C8, O00648, Q49A54, Q93096
    UniProtKB/TrEMBL
    B5BU78
    Conserved Domains (1) summary
    cd18537
    Location:1 → 167
    PTP-IVa1; protein tyrosine phosphatase type IVA 1

  5. NM_001385258.1 → NP_001372187.1  protein tyrosine phosphatase type IVA 1 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AL135905
    Consensus CDS
    CCDS4965.1
    UniProtKB/Swiss-Prot
    B2R6C8, O00648, Q49A54, Q93096
    UniProtKB/TrEMBL
    B5BU78
    Conserved Domains (1) summary
    cd18537
    Location:1 → 167
    PTP-IVa1; protein tyrosine phosphatase type IVA 1

  6. NM_001385259.1 → NP_001372188.1  protein tyrosine phosphatase type IVA 1 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AL135905
    Consensus CDS
    CCDS4965.1
    UniProtKB/Swiss-Prot
    B2R6C8, O00648, Q49A54, Q93096
    UniProtKB/TrEMBL
    B5BU78
    Related
    ENSP00000500859.1, ENST00000673199.1
    Conserved Domains (1) summary
    cd18537
    Location:1 → 167
    PTP-IVa1; protein tyrosine phosphatase type IVA 1

  7. NM_001385260.1 → NP_001372189.1  protein tyrosine phosphatase type IVA 1 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AL135905
    Consensus CDS
    CCDS4965.1
    UniProtKB/Swiss-Prot
    B2R6C8, O00648, Q49A54, Q93096
    UniProtKB/TrEMBL
    B5BU78
    Related
    ENSP00000500952.1, ENST00000672924.1
    Conserved Domains (1) summary
    cd18537
    Location:1 → 167
    PTP-IVa1; protein tyrosine phosphatase type IVA 1

  8. NM_001385262.2 → NP_001372191.1  protein tyrosine phosphatase type IVA 1 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AL135905
    Consensus CDS
    CCDS4965.1
    UniProtKB/Swiss-Prot
    B2R6C8, O00648, Q49A54, Q93096
    UniProtKB/TrEMBL
    B5BU78
    Conserved Domains (1) summary
    cd18537
    Location:1 → 167
    PTP-IVa1; protein tyrosine phosphatase type IVA 1

  9. NM_001385263.2 → NP_001372192.1  protein tyrosine phosphatase type IVA 1 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AL135905
    UniProtKB/TrEMBL
    B5BU78
    Conserved Domains (1) summary
    cl28904
    Location:1 → 151
    PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily

  10. NM_001385265.1 → NP_001372194.1  protein tyrosine phosphatase type IVA 1 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AL135905
    Conserved Domains (1) summary
    cl28904
    Location:1 → 135
    PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily

  11. NM_001385266.1 → NP_001372195.1  protein tyrosine phosphatase type IVA 1 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AL135905
    Conserved Domains (1) summary
    cl28904
    Location:1 → 135
    PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily

  12. NM_001385267.2 → NP_001372196.1  protein tyrosine phosphatase type IVA 1 isoform 1

    Status: VALIDATED

    Source sequence(s)
    AL135905
    Consensus CDS
    CCDS4965.1
    UniProtKB/Swiss-Prot
    B2R6C8, O00648, Q49A54, Q93096
    UniProtKB/TrEMBL
    B5BU78
    Conserved Domains (1) summary
    cd18537
    Location:1 → 167
    PTP-IVa1; protein tyrosine phosphatase type IVA 1

  13. NM_001385268.2 → NP_001372197.1  protein tyrosine phosphatase type IVA 1 isoform 5

    Status: VALIDATED

    Source sequence(s)
    AL135905
    UniProtKB/TrEMBL
    B5BU78
    Conserved Domains (1) summary
    cl28904
    Location:1 → 154
    PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily

  14. NM_003463.5 → NP_003454.1  protein tyrosine phosphatase type IVA 1 isoform 1

    See identical proteins and their annotated locations for NP_003454.1

    Status: VALIDATED

    Source sequence(s)
    AL135905
    Consensus CDS
    CCDS4965.1
    UniProtKB/Swiss-Prot
    B2R6C8, O00648, Q49A54, Q93096
    UniProtKB/TrEMBL
    B5BU78
    Related
    ENSP00000485687.1, ENST00000626021.3
    Conserved Domains (1) summary
    cd18537
    Location:1 → 167
    PTP-IVa1; protein tyrosine phosphatase type IVA 1

RNA

  1. NR_169593.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL135905

  2. NR_169594.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL135905

  3. NR_169595.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL135905

  4. NR_169596.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL135905

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_000006.12 Reference GRCh38.p14 Primary Assembly

    Range
    63516440..63583588
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060930.1 Alternate T2T-CHM13v2.0

    Range
    64662355..64729529
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q93096.2 GenPept UniProtKB/Swiss-Prot:Q93096

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
Molecular Biology Databases
Research Materials
Tools
Miscellaneous