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    wdfy-3 WD repeat and FYVE domain-containing protein 3 [ Caenorhabditis elegans ]

    Gene ID: 178220, updated on 14-Nov-2024

    Summary

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    Official Symbol
    wdfy-3
    Official Full Name
    WD repeat and FYVE domain-containing protein 3
    Primary source
    WormBase:WBGene00007752
    Locus tag
    CELE_C26H9A.2
    See related
    AllianceGenome:WB:WBGene00007752
    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
    Predicted to enable protein kinase binding activity. Predicted to be involved in protein localization. Predicted to be active in cytosol and membrane. Human ortholog(s) of this gene implicated in primary autosomal dominant microcephaly 18. Orthologous to human WDFY3 (WD repeat and FYVE domain containing 3). [provided by Alliance of Genome Resources, Nov 2024]
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    Genomic context

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    See wdfy-3 in Genome Data Viewer
    Location:
    chromosome: IV
    Exon count:
    36
    Sequence:
    Chromosome: IV; NC_003282.8 (12653401..12674769)

    Chromosome IV - NC_003282.8Genomic Context describing neighboring genes Neighboring gene Transcriptional regulator Neighboring gene V-type proton ATPase 116 kDa subunit a 4 Neighboring gene Uncharacterized protein Neighboring gene ncRNA Neighboring gene Prokaryotic-type class I peptide chain release factors domain-containing protein Neighboring gene Transcriptional regulator Neighboring gene PRotein arginine MethylTransferase

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003282.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. A null allele in the wdfy-3 selective autophagy gene of C. elegans . Buddell T, et al. MicroPubl Biol, 2022. PMID 35903777, Free PMC Article
    2. UNC-16 interacts with LRK-1 and WDFY-3 to regulate the termination of axon growth. Drozd CJ, et al. Genetics, 2024 Jun 5. PMID 38581414,
    3. SEL-2, the C. elegans neurobeachin/LRBA homolog, is a negative regulator of lin-12/Notch activity and affects endosomal traffic in polarized epithelial cells. de Souza N, et al. Development, 2007 Feb. PMID 17215302
    4. Human amyloid β peptide and tau co-expression impairs behavior and causes specific gene expression changes in Caenorhabditis elegans. Wang C, et al. Neurobiol Dis, 2018 Jan. PMID 28982592
    5. Three sorting nexins drive the degradation of apoptotic cells in response to PtdIns(3)P signaling. Lu N, et al. Mol Biol Cell, 2011 Feb 1. PMID 21148288, Free PMC Article

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. UNC-16 interacts with LRK-1 and WDFY-3 to regulate the termination of axon growth.
      Title: UNC-16 interacts with LRK-1 and WDFY-3 to regulate the termination of axon growth.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by WormBase

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    WD repeat and FYVE domain-containing protein 3
    NP_001255656.1
    • Confirmed by transcript evidence
    NP_001255657.1
    • Confirmed by transcript evidence
    NP_001255658.1
    • Confirmed by transcript evidence
    NP_001255659.1
    • 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_003282.8 Reference assembly

      Range
      12653401..12674769
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001268729.3 → NP_001255658.1  WD repeat and FYVE domain-containing protein 3 [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_001255658.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      H2FLM3
      Conserved Domains (7) summary
      COG2319
      Location:2945 → 3149
      WD40; WD40 repeat [General function prediction only]
      cd01201
      Location:2423 → 2550
      PH_BEACH; Pleckstrin homology domain in BEACH domain containing proteins
      cd15719
      Location:3285 → 3349
      FYVE_WDFY3; FYVE domain found in WD40 repeat and FYVE domain-containing protein 3 (WDFY3) and similar proteins
      pfam02138
      Location:2591 → 2871
      Beach; Beige/BEACH domain
      pfam16057
      Location:2179 → 2260
      DUF4800; Domain of unknown function (DUF4800)
      sd00039
      Location:2971 → 3010
      7WD40; WD40 repeat [structural motif]
      cl02567
      Location:2945 → 3150
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

    2. NM_001268727.2 → NP_001255656.1  WD repeat and FYVE domain-containing protein 3 [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_001255656.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      G5EFJ7
      Conserved Domains (7) summary
      COG2319
      Location:2941 → 3145
      WD40; WD40 repeat [General function prediction only]
      cd01201
      Location:2419 → 2546
      PH_BEACH; Pleckstrin homology domain in BEACH domain containing proteins
      cd15719
      Location:3281 → 3345
      FYVE_WDFY3; FYVE domain found in WD40 repeat and FYVE domain-containing protein 3 (WDFY3) and similar proteins
      pfam02138
      Location:2587 → 2867
      Beach; Beige/BEACH domain
      pfam16057
      Location:2177 → 2258
      DUF4800; Domain of unknown function (DUF4800)
      sd00039
      Location:2967 → 3006
      7WD40; WD40 repeat [structural motif]
      cl02567
      Location:2941 → 3146
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

    3. NM_001268728.4 → NP_001255657.1  WD repeat and FYVE domain-containing protein 3 [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_001255657.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      H2FLM2
      Conserved Domains (7) summary
      COG2319
      Location:2943 → 3147
      WD40; WD40 repeat [General function prediction only]
      cd01201
      Location:2421 → 2548
      PH_BEACH; Pleckstrin homology domain in BEACH domain containing proteins
      cd15719
      Location:3283 → 3347
      FYVE_WDFY3; FYVE domain found in WD40 repeat and FYVE domain-containing protein 3 (WDFY3) and similar proteins
      pfam02138
      Location:2589 → 2869
      Beach; Beige/BEACH domain
      pfam16057
      Location:2179 → 2260
      DUF4800; Domain of unknown function (DUF4800)
      sd00039
      Location:2969 → 3008
      7WD40; WD40 repeat [structural motif]
      cl02567
      Location:2943 → 3148
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

    4. NM_001268730.3 → NP_001255659.1  WD repeat and FYVE domain-containing protein 3 [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_001255659.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      H2FLM1
      Conserved Domains (7) summary
      COG2319
      Location:2943 → 3147
      WD40; WD40 repeat [General function prediction only]
      cd01201
      Location:2421 → 2548
      PH_BEACH; Pleckstrin homology domain in BEACH domain containing proteins
      cd15719
      Location:3283 → 3347
      FYVE_WDFY3; FYVE domain found in WD40 repeat and FYVE domain-containing protein 3 (WDFY3) and similar proteins
      pfam02138
      Location:2589 → 2869
      Beach; Beige/BEACH domain
      pfam16057
      Location:2177 → 2258
      DUF4800; Domain of unknown function (DUF4800)
      sd00039
      Location:2969 → 3008
      7WD40; WD40 repeat [structural motif]
      cl02567
      Location:2943 → 3148
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
    Nucleotide Protein
    Heading Accession and Version

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