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    PTPRB protein tyrosine phosphatase receptor type B [ Homo sapiens (human) ]

    Gene ID: 5787, updated on 2-Nov-2024

    Summary

    Official Symbol
    PTPRBprovided by HGNC
    Official Full Name
    protein tyrosine phosphatase receptor type Bprovided by HGNC
    Primary source
    HGNC:HGNC:9665
    See related
    Ensembl:ENSG00000127329 MIM:176882; AllianceGenome:HGNC:9665
    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
    PTPB; HPTPB; VEPTP; HPTP-BETA; R-PTP-BETA
    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 contains an extracellular domain, a single transmembrane segment and one intracytoplasmic catalytic domain, thus belongs to receptor type PTP. The extracellular region of this PTP is composed of multiple fibronectin type_III repeats, which was shown to interact with neuronal receptor and cell adhesion molecules, such as contactin and tenascin C. This protein was also found to interact with sodium channels, and thus may regulate sodium channels by altering tyrosine phosphorylation status. The functions of the interaction partners of this protein implicate the roles of this PTP in cell adhesion, neurite growth, and neuronal differentiation. Alternate transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, May 2011]
    Expression
    Broad expression in lung (RPKM 16.0), spleen (RPKM 13.5) and 22 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See PTPRB in Genome Data Viewer
    Location:
    12q15
    Exon count:
    37
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (70515870..70637429, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (70495299..70616833, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (70909650..71031209, complement)

    Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4656 Neighboring gene MPRA-validated peak1805 silencer Neighboring gene MPRA-validated peak1806 silencer Neighboring gene potassium calcium-activated channel subfamily M regulatory beta subunit 4 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:70861588-70862560 Neighboring gene uncharacterized LOC105369828 Neighboring gene RNA, U4 small nuclear 65, pseudogene Neighboring gene protein tyrosine phosphatase receptor type R Neighboring gene fumarylacetoacetate hydrolase domain containing 2 pseudogene 1 Neighboring gene uncharacterized LOC124902960 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr12:71151597-71152403

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues 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 peripheral neuropathy with D-drug-containing regimens in AIDS Clinical Trials Group protocol 384.
    EBI GWAS Catalog

    HIV-1 interactions

    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
    Tat tat HIV-1 Tat C treated human brain microvascular endothelial cells result in downregulation and dissociation of VE-PTP and SHP2 from VE-cadherin 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

    Clone Names

    • FLJ44133, MGC59935, MGC142023, DKFZp686E2262, DKFZp686H15164

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables cadherin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables cadherin binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables transmembrane receptor protein tyrosine phosphatase activity TAS
    Traceable Author Statement
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in angiogenesis IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in dephosphorylation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in glial cell migration IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in osteoblast differentiation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in phosphate-containing compound metabolic process TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in protein dephosphorylation IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    is_active_in plasma membrane IC
    Inferred by Curator
    more info
    PubMed 
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
     
    part_of receptor complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of receptor complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in specific granule membrane TAS
    Traceable Author Statement
    more info
     
    located_in tertiary granule membrane TAS
    Traceable Author Statement
    more info
     

    General protein information

    Preferred Names
    receptor-type tyrosine-protein phosphatase beta
    Names
    VE-PTP
    protein tyrosine phosphatase, receptor type, beta polypeptide
    vascular endothelial protein tyrosine phosphatase
    NP_001103224.1
    NP_001193900.1
    NP_001193901.1
    NP_001317133.1
    NP_002828.3
    XP_006719591.1
    XP_006719592.1
    XP_011536916.1
    XP_016875213.1
    XP_054228695.1
    XP_054228696.1
    XP_054228697.1
    XP_054228698.1

    NCBI Reference Sequences (RefSeq)

    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.

    Genomic

    1. NG_029940.2 RefSeqGene

      Range
      5012..126571
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001109754.4NP_001103224.1  receptor-type tyrosine-protein phosphatase beta isoform a

      See identical proteins and their annotated locations for NP_001103224.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).
      Source sequence(s)
      AC025569, AI688145, BC051329, BC101679, BC143360, BQ710210, DN999550
      Consensus CDS
      CCDS44943.1
      UniProtKB/TrEMBL
      Q6MZF6
      Related
      ENSP00000334928.6, ENST00000334414.11
      Conserved Domains (5) summary
      smart00194
      Location:19202178
      PTPc; Protein tyrosine phosphatase, catalytic domain
      cd00047
      Location:19472178
      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:507582
      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 ...
      cd00161
      Location:2294
      RICIN; Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific ...
      pfam00041
      Location:14801562
      fn3; Fibronectin type III domain
    2. NM_001206971.3NP_001193900.1  receptor-type tyrosine-protein phosphatase beta isoform c precursor

      See identical proteins and their annotated locations for NP_001193900.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR and coding region compared to variant 1. The resulting isoform (c) is shorter and has a distinct N-terminus compared to isoform a.
      Source sequence(s)
      AC025569, AC083809, AI688145, BC143360, BQ710210, X54131
      Consensus CDS
      CCDS55845.1
      UniProtKB/TrEMBL
      Q6MZF6
      Related
      ENSP00000447302.1, ENST00000550857.5
      Conserved Domains (4) summary
      smart00194
      Location:16121870
      PTPc; Protein tyrosine phosphatase, catalytic domain
      cd00047
      Location:16391870
      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:289364
      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:11721254
      fn3; Fibronectin type III domain
    3. NM_001206972.3NP_001193901.1  receptor-type tyrosine-protein phosphatase beta isoform d precursor

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR and coding region compared to variant 1. The resulting isoform (d) is shorter and has a distinct N-terminus compared to isoform a.
      Source sequence(s)
      AC025569, AC083809, AI688145, BC101679, BC143356, BC143360, BQ710210, X54131
      Consensus CDS
      CCDS55846.1
      UniProtKB/TrEMBL
      Q6MZF6
      Related
      ENSP00000438927.1, ENST00000538708.5
      Conserved Domains (4) summary
      smart00194
      Location:16121870
      PTPc; Protein tyrosine phosphatase, catalytic domain
      cd00047
      Location:16391870
      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:289364
      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:11721254
      fn3; Fibronectin type III domain
    4. NM_001330204.2NP_001317133.1  receptor-type tyrosine-protein phosphatase beta isoform e

      Status: REVIEWED

      Description
      Transcript Variant: This variant (5) lacks an alternate in-frame exon in the 3' coding region compared to variant 1. The resulting isoform (e) is shorter but has the same N- and C-termini compared to isoform a.
      Source sequence(s)
      AC025569, AI688145, AK097371, BC051329, BC101679, BC143360, BQ710210, CR749546, DN999550
      Consensus CDS
      CCDS81713.1
      UniProtKB/TrEMBL
      F8VU56, Q6MZF6
      Related
      ENSP00000448058.1, ENST00000550358.5
    5. NM_002837.6NP_002828.3  receptor-type tyrosine-protein phosphatase beta isoform b precursor

      See identical proteins and their annotated locations for NP_002828.3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and coding region compared to variant 1. The resulting isoform (b) is shorter and has a distinct N-terminus compared to isoform a.
      Source sequence(s)
      AC025569, AC083809, AI688145, BC101679, BC143360, BQ710210, X54131
      Consensus CDS
      CCDS44944.1
      UniProtKB/Swiss-Prot
      B7ZKS8, B7ZKT0, C9JX87, F5H3G6, P23467, Q14D85, Q3MIV7
      UniProtKB/TrEMBL
      Q6MZF6
      Related
      ENSP00000261266.5, ENST00000261266.9
      Conserved Domains (4) summary
      smart00194
      Location:17021960
      PTPc; Protein tyrosine phosphatase, catalytic domain
      cd00047
      Location:17291960
      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:289364
      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:12621344
      fn3; Fibronectin type III 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_000012.12 Reference GRCh38.p14 Primary Assembly

      Range
      70515870..70637429 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011538614.2XP_011536916.1  receptor-type tyrosine-protein phosphatase beta isoform X2

      UniProtKB/TrEMBL
      Q6MZF6
      Conserved Domains (5) summary
      smart00194
      Location:18322090
      PTPc; Protein tyrosine phosphatase, catalytic domain
      cd00047
      Location:18592090
      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:507582
      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 ...
      cd00161
      Location:2294
      RICIN; Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific ...
      pfam00041
      Location:13921474
      fn3; Fibronectin type III domain
    2. XM_006719528.2XP_006719591.1  receptor-type tyrosine-protein phosphatase beta isoform X1

      UniProtKB/TrEMBL
      Q6MZF6
      Conserved Domains (5) summary
      smart00194
      Location:19202178
      PTPc; Protein tyrosine phosphatase, catalytic domain
      cd00047
      Location:19472178
      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:507582
      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 ...
      cd00161
      Location:2294
      RICIN; Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific ...
      pfam00041
      Location:14801562
      fn3; Fibronectin type III domain
    3. XM_006719529.5XP_006719592.1  receptor-type tyrosine-protein phosphatase beta isoform X3

      UniProtKB/TrEMBL
      Q6MZF6
      Conserved Domains (4) summary
      smart00194
      Location:17021960
      PTPc; Protein tyrosine phosphatase, catalytic domain
      cd00047
      Location:17291960
      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:289364
      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:12621344
      fn3; Fibronectin type III domain
    4. XM_017019724.1XP_016875213.1  receptor-type tyrosine-protein phosphatase beta isoform X4

    RNA

    1. XR_944651.2 RNA Sequence

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060936.1 Alternate T2T-CHM13v2.0

      Range
      70495299..70616833 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054372721.1XP_054228696.1  receptor-type tyrosine-protein phosphatase beta isoform X2

    2. XM_054372720.1XP_054228695.1  receptor-type tyrosine-protein phosphatase beta isoform X1

    3. XM_054372722.1XP_054228697.1  receptor-type tyrosine-protein phosphatase beta isoform X3

    4. XM_054372723.1XP_054228698.1  receptor-type tyrosine-protein phosphatase beta isoform X4

    RNA

    1. XR_008488648.1 RNA Sequence