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    dep-1 Receptor-type tyrosine-protein phosphatase dep-1 [ Caenorhabditis elegans ]

    Gene ID: 174437, updated on 9-Dec-2024

    Summary

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    Official Symbol
    dep-1
    Official Full Name
    Receptor-type tyrosine-protein phosphatase dep-1
    Primary source
    WormBase:WBGene00009717
    Locus tag
    CELE_F44G4.8
    See related
    AllianceGenome:WB:WBGene00009717
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Caenorhabditis elegans (strain: Bristol N2)
    Lineage
    Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
    Summary
    Enables phosphatase activity. Involved in positive regulation of vulval development; protein dephosphorylation; and vulval cell fate specification. Predicted to be located in membrane. Is expressed in several structures, including P5.p hermaphrodite; P5.ppp; P6.p hermaphrodite; P7.p hermaphrodite; and P7.paa. Human ortholog(s) of this gene implicated in angiosarcoma; breast angiosarcoma; carcinoma (multiple); central nervous system cancer (multiple); and sarcoma. Orthologous to human PTPRB (protein tyrosine phosphatase receptor type B). [provided by Alliance of Genome Resources, Dec 2024]
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    Genomic context

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    See dep-1 in Genome Data Viewer
    Location:
    chromosome: II
    Exon count:
    18
    Sequence:
    Chromosome: II; NC_003280.10 (9005796..9019798, complement)

    Chromosome II - NC_003280.10Genomic Context describing neighboring genes Neighboring gene Sarcospan Neighboring gene Uncharacterized protein Neighboring gene ncRNA Neighboring gene ncRNA

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003280.10

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. R3 receptor tyrosine phosphatases: conserved regulators of receptor tyrosine kinase signaling and tubular organ development. Jeon M, et al. Semin Cell Dev Biol, 2015 Jan. PMID 25242281, Free PMC Article
    2. Phosphotyrosine phosphatase R3 receptors: Origin, evolution and structural diversification. Chicote JU, et al. PLoS One, 2017. PMID 28257417, Free PMC Article
    3. The C. elegans homolog of the mammalian tumor suppressor Dep-1/Scc1 inhibits EGFR signaling to regulate binary cell fate decisions. Berset TA, et al. Genes Dev, 2005 Jun 1. PMID 15901674, Free PMC Article
    4. EGFR signal transduction is downregulated in C. elegans vulval precursor cells during dauer diapause. O'Keeffe C, et al. Development, 2022 Nov 1. PMID 36227589, Free PMC Article
    5. The love-hate relationship between Ras and Notch. Sundaram MV. Genes Dev, 2005 Aug 15. PMID 16103211

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. DEP-1 attenuates EGFR signaling in part by de-phosphorylating Y792 in the beta-integrin cytoplasmic tail, besides the direct de-phosphorylation of the EGFR.
      Title: β-Integrin de-phosphorylation by the Density-Enhanced Phosphatase DEP-1 attenuates EGFR signaling in C. elegans.
    Submit: New GeneRIF Correction

    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 WormBase

    Function Evidence Code Pubs
    enables phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables phosphatase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables phosphoprotein phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein tyrosine phosphatase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein tyrosine phosphatase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in axon guidance IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of vulval development IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in protein dephosphorylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein dephosphorylation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in signal transduction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in vulval cell fate specification IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    Receptor-type tyrosine-protein phosphatase dep-1
    NP_001254192.1
    • Confirmed by transcript evidence
    NP_001254193.1
    • Confirmed by transcript evidence

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

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

    Reference assembly

    Genomic

    1. NC_003280.10 Reference assembly

      Range
      9005796..9019798 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001267263.4 → NP_001254192.1  Receptor-type tyrosine-protein phosphatase dep-1 [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_001254192.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      B6VQ49, G5EGJ9
      Conserved Domains (3) summary
      smart00194
      Location:1072 → 1333
      PTPc; Protein tyrosine phosphatase, catalytic domain
      cd00047
      Location:1098 → 1333
      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:640 → 736
      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 ...

    2. NM_001267264.3 → NP_001254193.1  Receptor-type tyrosine-protein phosphatase dep-1 [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_001254193.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      G5EGJ9
      Conserved Domains (2) summary
      smart00194
      Location:120 → 381
      PTPc; Protein tyrosine phosphatase, catalytic domain
      cd00047
      Location:146 → 381
      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 ...
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    G5EGJ9.1

    Gene LinkOut

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