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    VPS54 VPS54 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 827690, updated on 18-Sep-2024

    Summary

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    Official Symbol
    VPS54
    Official Full Name
    VPS54
    Primary source
    TAIR:AT4G19490
    Locus tag
    AT4G19490
    See related
    Araport:AT4G19490
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Arabidopsis thaliana (ecotype: Columbia)
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
    Also known as
    ARABIDOPSIS THALIANA VPS54 HOMOLOG; ATVPS54; F24J7.50; F24J7_50
    Summary
    Putative homolog of yeast Vps54. Thought to associate with POK and ATVPS53 in a plant GARP-like complex involved in the membrane trafficking system.
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    Genomic context

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    See VPS54 in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    18
    Sequence:
    Chromosome: 4; NC_003075.7 (10615696..10623524)

    Chromosome 4 - NC_003075.7Genomic Context describing neighboring genes Neighboring gene Leucine-rich repeat (LRR) family protein Neighboring gene uncharacterized protein Neighboring gene uncharacterized protein Neighboring gene nucleoside-triphosphatase/transmembrane receptor/nucleotide binding/ATP binding protein Neighboring gene Disease resistance protein (TIR-NBS-LRR class)

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003075.7

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Involvement of the Arabidopsis HIT1/AtVPS53 tethering protein homologue in the acclimation of the plasma membrane to heat stress. Wang LC, et al. J Exp Bot, 2011 Jun. PMID 21398432
    2. Analysis of the Arabidopsis cytosolic proteome highlights subcellular partitioning of central plant metabolism. Ito J, et al. J Proteome Res, 2011 Apr 1. PMID 21166475
    3. Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana. Mayer K, et al. Nature, 1999 Dec 16. PMID 10617198

    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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    NM_118069.5
    NM_179078.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in retrograde transport, endosome to Golgi IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of GARP complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in Golgi apparatus ISM
    Inferred from Sequence Model
    more info
    		  
    located_in Golgi membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    NOT located_in cytosol RCA
    inferred from Reviewed Computational Analysis
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    VPS54
    NP_193684.4
    • VPS54; INVOLVED IN: retrograde transport, endosome to Golgi; LOCATED IN: chloroplast; EXPRESSED IN: male gametophyte; EXPRESSED DURING: L mature pollen stage; CONTAINS InterPro DOMAIN/s: Vacuolar protein sorting-associated protein 54 (InterPro:IPR019515), Vps54-like (InterPro:IPR012501); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink).
    NP_849409.2
    • VPS54; INVOLVED IN: retrograde transport, endosome to Golgi; LOCATED IN: chloroplast; EXPRESSED IN: male gametophyte; EXPRESSED DURING: L mature pollen stage; CONTAINS InterPro DOMAIN/s: Vacuolar protein sorting-associated protein 54 (InterPro:IPR019515), Vps54-like (InterPro:IPR012501); Has 471 Blast hits to 377 proteins in 168 species: Archae - 2; Bacteria - 4; Metazoa - 149; Fungi - 188; Plants - 45; Viruses - 0; Other Eukaryotes - 83 (source: NCBI BLink).

    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_003075.7 Reference assembly

      Range
      10615696..10623524
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_179078.3 → NP_849409.2  VPS54 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_849409.2

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      F4JT76, O49467, Q0WUR3
      UniProtKB/TrEMBL
      A0A654FQX4
      Conserved Domains (1) summary
      pfam07928
      Location:772 → 902
      Vps54; Vps54-like protein

    2. NM_118069.5 → NP_193684.4  VPS54 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_193684.4

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      F4JT76, O49467, Q0WUR3
      UniProtKB/TrEMBL
      A0A654FQX4
      Conserved Domains (1) summary
      pfam07928
      Location:772 → 902
      Vps54; Vps54-like protein
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    F4JT76.1

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