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    VPS15 protein kinase family protein / WD-40 repeat family protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 829059, updated on 18-Sep-2024

    Summary

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    Official Symbol
    VPS15
    Official Full Name
    protein kinase family protein / WD-40 repeat family protein
    Primary source
    TAIR:AT4G29380
    Locus tag
    AT4G29380
    See related
    Araport:AT4G29380
    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 vacuolar protein sorting 15; AtVPS15; F17A13.200; F17A13_200; vacuolar protein sorting 15
    Summary
    The gene encodes phosphatidylinositol 3- kinase involved in the development and germination of pollen through the biosynthesis of phosphatidylinositol 3-phosphate (PI3P).
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    Genomic context

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    See VPS15 in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    11
    Sequence:
    Chromosome: 4; NC_003075.7 (14458648..14465684)

    Chromosome 4 - NC_003075.7Genomic Context describing neighboring genes Neighboring gene profilin 2 Neighboring gene O-Glycosyl hydrolases family 17 protein Neighboring gene Galactose oxidase/kelch repeat superfamily protein Neighboring gene Ribosomal protein S30 family protein Neighboring gene oxidoreductase/transition metal ion-binding protein (DUF3531) Neighboring gene Ribosomal L28e protein family Neighboring gene ncRNA

    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. Arabidopsis AtVPS15 is essential for pollen development and germination through modulating phosphatidylinositol 3-phosphate formation. Xu N, et al. Plant Mol Biol, 2011 Oct. PMID 21833541, Free PMC Article
    2. Arabidopsis AtVPS15 plays essential roles in pollen germination possibly by interacting with AtVPS34. Wang WY, et al. J Genet Genomics, 2012 Feb. PMID 22361507
    3. The Arabidopsis USL1 controls multiple aspects of development by affecting late endosome morphology. Yuan R, et al. New Phytol, 2018 Sep. PMID 29897620, Free PMC Article
    4. Characterization of Arabidopsis and rice DWD proteins and their roles as substrate receptors for CUL4-RING E3 ubiquitin ligases. Lee JH, et al. Plant Cell, 2008 Jan. PMID 18223036, Free PMC Article
    5. Arabidopsis DDB1-CUL4 ASSOCIATED FACTOR1 forms a nuclear E3 ubiquitin ligase with DDB1 and CUL4 that is involved in multiple plant developmental processes. Zhang Y, et al. Plant Cell, 2008 Jun. PMID 18552200, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Data demonstrated that AtVPS15 might interact directly with AtVPS34 and suggested that AtVPS15 is very important for pollen germination, possibly through modulation of the activity of PI3-kinase.
      Title: Arabidopsis AtVPS15 plays essential roles in pollen germination possibly by interacting with AtVPS34.
    2. Data suggest that AtVPS15 (At4g29380; NP_194667.1) functions in pollen development and germination by regulating PI3P biosynthesis in Arabidopsis.
      Title: Arabidopsis AtVPS15 is essential for pollen development and germination through modulating phosphatidylinositol 3-phosphate formation.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_001341967.1
    NM_119083.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein serine/threonine kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in late endosome to vacuole transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in macroautophagy IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within pollen development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within pollen germination IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in pollen germination IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of Cul4-RING E3 ubiquitin ligase complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    located_in Golgi apparatus ISM
    Inferred from Sequence Model
    more info
    		  
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in endosome membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of phosphatidylinositol 3-kinase complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in plasma membrane ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    protein kinase family protein / WD-40 repeat family protein
    NP_194667.1
    • protein kinase family protein / WD-40 repeat family protein; FUNCTIONS IN: protein serine/threonine kinase activity, binding, protein kinase activity, ATP binding; INVOLVED IN: protein amino acid phosphorylation, N-terminal protein myristoylation; LOCATED IN: CUL4 RING ubiquitin ligase complex; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: HEAT (InterPro:IPR000357), WD40 repeat 2 (InterPro:IPR019782), Armadillo-like helical (InterPro:IPR011989), WD40 repeat (InterPro:IPR001680), HEAT, type 2 (InterPro:IPR021133), Serine/threonine-protein kinase-like domain (InterPro:IPR017442), Protein kinase-like domain (InterPro:IPR011009), Serine/threonine-protein kinase, active site (InterPro:IPR008271), WD40 repeat-like-containing domain (InterPro:IPR011046), Protein kinase, catalytic domain (InterPro:IPR000719), WD40-repeat-containing domain (InterPro:IPR017986), WD40/YVTN repeat-like-containing domain (InterPro:IPR015943), Armadillo-type fold (InterPro:IPR016024), WD40 repeat, subgroup (InterPro:IPR019781); BEST Arabidopsis thaliana protein match is: Protein kinase superfamily protein (TAIR:AT1G33770.1); Has 29441 Blast hits to 28057 proteins in 1177 species: Archae - 18; Bacteria - 2884; Metazoa - 11045; Fungi - 5111; Plants - 4360; Viruses - 46; Other Eukaryotes - 5977 (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
      14458648..14465684
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_119083.3 → NP_194667.1  protein kinase family protein / WD-40 repeat family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_194667.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9M0E5
      UniProtKB/TrEMBL
      A0A178UW36
      Conserved Domains (4) summary
      cd13980
      Location:16 → 303
      STKc_Vps15; Catalytic domain of the Serine/Threonine kinase, Vacuolar protein sorting-associated protein 15
      sd00044
      Location:652 → 682
      HEAT; HEAT repeat [structural motif]
      sd00039
      Location:1085 → 1129
      7WD40; WD40 repeat [structural motif]
      cl25539
      Location:1071 → 1325
      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_001341967.1 → NP_001329182.1  protein kinase family protein / WD-40 repeat family protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UXY8, A0A1P8B6X9
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9M0E5.1

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