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    vps-54 Vacuolar protein sorting-associated protein 54 [ Caenorhabditis elegans ]

    Gene ID: 179473, updated on 9-Dec-2024

    Summary

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    Official Symbol
    vps-54
    Official Full Name
    Vacuolar protein sorting-associated protein 54
    Primary source
    WormBase:WBGene00006934
    Locus tag
    CELE_T21C9.2
    See related
    AllianceGenome:WB:WBGene00006934
    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 syntaxin binding activity. Predicted to be involved in Golgi to vacuole transport and retrograde transport, endosome to Golgi. Part of GARP complex. Is expressed in body wall musculature; intestine; and nervous system. Orthologous to human VPS54 (VPS54 subunit of GARP complex). [provided by Alliance of Genome Resources, Dec 2024]
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    Genomic context

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    See vps-54 in Genome Data Viewer
    Location:
    chromosome: V
    Exon count:
    9
    Sequence:
    Chromosome: V; NC_003283.11 (10566402..10576419, complement)

    Chromosome V - NC_003283.11Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene GTP cyclohydrolase 1 Neighboring gene ncRNA Neighboring gene Amiloride-sensitive sodium channel Neighboring gene Mitochondrial scaffolding protein 1;PDZ domain-containing protein Neighboring gene Enhancer of rudimentary homolog

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003283.11

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. The Caenorhabditis elegans GARP complex contains the conserved Vps51 subunit and is required to maintain lysosomal morphology. Luo L, et al. Mol Biol Cell, 2011 Jul 15. PMID 21613545, Free PMC Article
    2. Genetic analysis of lysosomal trafficking in Caenorhabditis elegans. Hermann GJ, et al. Mol Biol Cell, 2005 Jul. PMID 15843430, Free PMC Article
    3. The EARP Complex and Its Interactor EIPR-1 Are Required for Cargo Sorting to Dense-Core Vesicles. Topalidou I, et al. PLoS Genet, 2016 May. PMID 27191843, Free PMC Article
    4. OrthoList: a compendium of C. elegans genes with human orthologs. Shaye DD, et al. PLoS One, 2011. PMID 21647448, Free PMC Article
    5. OrthoList 2: A New Comparative Genomic Analysis of Human and Caenorhabditis elegans Genes. Kim W, et al. Genetics, 2018 Oct. PMID 30120140, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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 protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables syntaxin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables syntaxin binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in Golgi to vacuole transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    NOT involved_in regulation of dense core granule transport IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    NOT involved_in regulation of locomotion involved in locomotory behavior IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in retrograde transport, endosome to Golgi IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in retrograde transport, endosome to Golgi IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of GARP complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of GARP complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of GARP complex IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    part_of GARP complex TAS
    Traceable Author Statement
    more info
    		 PubMed 
    located_in Golgi apparatus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    Vacuolar protein sorting-associated protein 54
    NP_001256226.1
    • Confirmed by transcript evidence
    NP_001256227.1
    • 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_003283.11 Reference assembly

      Range
      10566402..10576419 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001269297.3 → NP_001256226.1  Vacuolar protein sorting-associated protein 54 [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_001256226.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q22639
      Conserved Domains (2) summary
      pfam07928
      Location:819 → 949
      Vps54; Vps54-like protein
      cl19297
      Location:300 → 449
      Dor1; Dor1-like family

    2. NM_001269298.3 → NP_001256227.1  Vacuolar protein sorting-associated protein 54 [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_001256227.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      D7SFN0
      Conserved Domains (2) summary
      pfam07928
      Location:510 → 640
      Vps54; Vps54-like protein
      cl19297
      Location:3 → 140
      Dor1; Dor1-like family
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q22639.2

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