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PTPN5 protein tyrosine phosphatase non-receptor type 5 [ Homo sapiens (human) ]

Gene ID: 84867, updated on 27-Nov-2024

Summary

Official Symbol
PTPN5provided by HGNC
Official Full Name
protein tyrosine phosphatase non-receptor type 5provided by HGNC
Primary source
HGNC:HGNC:9657
See related
Ensembl:ENSG00000110786 MIM:176879; AllianceGenome:HGNC:9657
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
STEP; STEP61; PTPSTEP
Summary
Enables phosphotyrosine residue binding activity. Predicted to be involved in signal transduction. Predicted to act upstream of or within protein dephosphorylation. Predicted to be located in membrane and nucleoplasm. Predicted to be active in cell junction; cytosol; and plasma membrane. Biomarker of Alzheimer's disease. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in brain (RPKM 11.0), testis (RPKM 0.9) and 1 other tissue See more
Orthologs
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Genomic context

See PTPN5 in Genome Data Viewer
Location:
11p15.1
Exon count:
16
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (18727928..18792721, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (18825966..18890761, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (18749475..18814268, complement)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene MPRA-validated peak1228 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:18690003-18690504 Neighboring gene SRSF3 pseudogene 1 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:18720033-18720534 Neighboring gene IGSF22 antisense RNA 1 Neighboring gene transmembrane protein 86A Neighboring gene immunoglobulin superfamily member 22 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4508 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4509 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4510 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4511 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:18770656-18771538 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:18783056-18783556 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:18783557-18784057 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4512 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:18792057-18792558 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:18792559-18793058 Neighboring gene Sharpr-MPRA regulatory region 5421 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr11:18819993-18821192 Neighboring gene MAS related GPR family member X8, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4513 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4514 Neighboring gene MAS related GPR family member X7, pseudogene

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

EBI GWAS Catalog

Description
Genome-wide association study of chemotherapeutic agent-induced severe neutropenia/leucopenia for patients in Biobank Japan.
EBI GWAS Catalog

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • FLJ14427

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables histone H2AXY142 phosphatase activity IEA
Inferred from Electronic Annotation
more info
 
enables non-membrane spanning protein tyrosine phosphatase activity IEA
Inferred from Electronic Annotation
more info
 
enables phosphotyrosine residue binding IDA
Inferred from Direct Assay
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein kinase binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables protein tyrosine phosphatase activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables protein tyrosine phosphatase activity TAS
Traceable Author Statement
more info
PubMed 
enables protein tyrosine phosphatase activity, metal-dependent IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in chromatin remodeling IEA
Inferred from Electronic Annotation
more info
 
involved_in protein dephosphorylation TAS
Traceable Author Statement
more info
PubMed 
involved_in signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
 
Component Evidence Code Pubs
is_active_in cell junction IBA
Inferred from Biological aspect of Ancestor
more info
 
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in endoplasmic reticulum membrane IEA
Inferred from Electronic Annotation
more info
 
located_in membrane TAS
Traceable Author Statement
more info
 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
 

General protein information

Preferred Names
tyrosine-protein phosphatase non-receptor type 5
Names
neural-specific protein-tyrosine phosphatase
protein tyrosine phosphatase, non-receptor type 5 (striatum-enriched)
protein-tyrosine phosphatase striatum-enriched
striatal-enriched protein tyrosine phosphatase
striatum-enriched protein-tyrosine phosphatase
NP_001035059.1
NP_001265165.1
NP_001265167.1
NP_001265168.1
NP_008837.1
NP_116170.3
XP_016873923.1
XP_016873924.1
XP_016873925.1
XP_016873926.1
XP_016873927.1
XP_016873928.1
XP_054226212.1
XP_054226213.1
XP_054226214.1
XP_054226215.1
XP_054226216.1
XP_054226217.1

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.

mRNA and Protein(s)

  1. NM_001039970.2NP_001035059.1  tyrosine-protein phosphatase non-receptor type 5 isoform b

    See identical proteins and their annotated locations for NP_001035059.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) has an alternate splice site in the 5' coding region, compared to variant 1. The resulting isoform (b) lacks an internal segment, compared to isoform a.
    Source sequence(s)
    AK127312, AL832541, BC046435
    Consensus CDS
    CCDS41626.1
    UniProtKB/TrEMBL
    B7Z2F8
    Conserved Domains (2) summary
    smart00194
    Location:267520
    PTPc; Protein tyrosine phosphatase, catalytic domain
    cd00047
    Location:293520
    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 ...
  2. NM_001278236.1NP_001265165.1  tyrosine-protein phosphatase non-receptor type 5 isoform b

    See identical proteins and their annotated locations for NP_001265165.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR and 5' coding region, compared to variant 1. The resulting isoform (b) lacks an internal segment, compared to isoform a. Variants 3 and 4 encode the same isoform b.
    Source sequence(s)
    AK127312, AL832541, BC046435
    Consensus CDS
    CCDS41626.1
    UniProtKB/TrEMBL
    B7Z2F8
    Related
    ENSP00000379473.1, ENST00000396170.5
    Conserved Domains (2) summary
    smart00194
    Location:267520
    PTPc; Protein tyrosine phosphatase, catalytic domain
    cd00047
    Location:293520
    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 ...
  3. NM_001278238.2NP_001265167.1  tyrosine-protein phosphatase non-receptor type 5 isoform c

    See identical proteins and their annotated locations for NP_001265167.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) lacks an internal exon in the 5' region which causes translation initiation at a downstream start codon, compared to variant 1. The resulting isoform (c) has a shorter N-teminus, compared to isoform a.
    Source sequence(s)
    AK127312, AK295604, AL832541, BC046435
    Consensus CDS
    CCDS60746.1
    UniProtKB/TrEMBL
    B7Z2F8
    Related
    ENSP00000379471.1, ENST00000396168.1
    Conserved Domains (2) summary
    smart00194
    Location:275528
    PTPc; Protein tyrosine phosphatase, catalytic domain
    cd00047
    Location:301528
    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 ...
  4. NM_001278239.2NP_001265168.1  tyrosine-protein phosphatase non-receptor type 5 isoform d

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) lacks an internal exon in the 5' region which causes translation initiation at a downstream start codon, and also has an alternate splice site in the 5' coding region, compared to variant 1. The resulting isoform (d) has a shorter N-terminus and lacks an internal segment, compared to isoform a.
    Source sequence(s)
    AK294673, AL832541, BC046435, BC064807
    UniProtKB/TrEMBL
    B7Z2F8
    Conserved Domains (2) summary
    smart00194
    Location:243496
    PTPc; Protein tyrosine phosphatase, catalytic domain
    cd00047
    Location:269496
    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_006906.2NP_008837.1  tyrosine-protein phosphatase non-receptor type 5 isoform a

    See identical proteins and their annotated locations for NP_008837.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) and variant 2 encode the same longest isoform (a).
    Source sequence(s)
    AL832541, BC046435, BC064807
    Consensus CDS
    CCDS7845.1
    UniProtKB/Swiss-Prot
    B3KXG7, B7Z386, B7ZAF5, D3DQY7, P54829, Q6P1Z2, Q8N2A1, Q8NDP8
    UniProtKB/TrEMBL
    Q86TL6
    Related
    ENSP00000351342.2, ENST00000358540.7
    Conserved Domains (1) summary
    smart00194
    Location:299552
    PTPc; Protein tyrosine phosphatase, catalytic domain
  6. NM_032781.4NP_116170.3  tyrosine-protein phosphatase non-receptor type 5 isoform a

    See identical proteins and their annotated locations for NP_116170.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) has an alternate splice site in the 5' UTR, compared to variant 1. Variants 1 and 2 encode the same isoform a.
    Source sequence(s)
    AK127312, BC046435, BC064807
    Consensus CDS
    CCDS7845.1
    UniProtKB/Swiss-Prot
    B3KXG7, B7Z386, B7ZAF5, D3DQY7, P54829, Q6P1Z2, Q8N2A1, Q8NDP8
    UniProtKB/TrEMBL
    Q86TL6
    Conserved Domains (1) summary
    smart00194
    Location:299552
    PTPc; Protein tyrosine phosphatase, catalytic domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    18727928..18792721 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017018439.2XP_016873928.1  tyrosine-protein phosphatase non-receptor type 5 isoform X5

  2. XM_017018436.2XP_016873925.1  tyrosine-protein phosphatase non-receptor type 5 isoform X2

  3. XM_017018435.3XP_016873924.1  tyrosine-protein phosphatase non-receptor type 5 isoform X1

  4. XM_017018437.2XP_016873926.1  tyrosine-protein phosphatase non-receptor type 5 isoform X3

  5. XM_017018434.3XP_016873923.1  tyrosine-protein phosphatase non-receptor type 5 isoform X1

  6. XM_017018438.3XP_016873927.1  tyrosine-protein phosphatase non-receptor type 5 isoform X4

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    18825966..18890761 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054370242.1XP_054226217.1  tyrosine-protein phosphatase non-receptor type 5 isoform X5

  2. XM_054370239.1XP_054226214.1  tyrosine-protein phosphatase non-receptor type 5 isoform X2

  3. XM_054370238.1XP_054226213.1  tyrosine-protein phosphatase non-receptor type 5 isoform X1

  4. XM_054370240.1XP_054226215.1  tyrosine-protein phosphatase non-receptor type 5 isoform X3

  5. XM_054370237.1XP_054226212.1  tyrosine-protein phosphatase non-receptor type 5 isoform X1

  6. XM_054370241.1XP_054226216.1  tyrosine-protein phosphatase non-receptor type 5 isoform X4