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Vps18 VPS18 CORVET/HOPS core subunit [ Mus musculus (house mouse) ]

Gene ID: 228545, updated on 11-Apr-2024

Summary

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Official Symbol
Vps18provided by MGI
Official Full Name
VPS18 CORVET/HOPS core subunitprovided by MGI
Primary source
MGI:MGI:2443626
See related
Ensembl:ENSMUSG00000034216 AllianceGenome:MGI:2443626
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
9930024E13Rik
Summary
Enables actin binding activity. Acts upstream of or within endosome organization and viral entry into host cell. Located in actin filament and early endosome. Part of AP-3 adaptor complex and CORVET complex. Is expressed in alimentary system; ganglia; nose; and peripheral nervous system. Orthologous to human VPS18 (VPS18 core subunit of CORVET and HOPS complexes). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in ovary adult (RPKM 14.4), adrenal adult (RPKM 13.3) and 28 other tissues See more
Orthologs
human all
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Genomic context

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Location:
2 E5; 2 59.97 cM
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (119119220..119128934)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (119288742..119298453)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_05478 Neighboring gene ras homolog family member V Neighboring gene STARR-positive B cell enhancer ABC_E3394 Neighboring gene ribosomal protein S27 pseudogene Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:119125812-119126013 Neighboring gene predicted gene, 52558 Neighboring gene predicted gene 14207 Neighboring gene delta like canonical Notch ligand 4

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Vps18 deficiency inhibits dendritogenesis in Purkinje cells by blocking the lysosomal degradation of Lysyl Oxidase. Peng C, et al. Biochem Biophys Res Commun, 2012 Jul 13. PMID 22699122
  2. Isoform-specific functions of synaptopodin-2 variants in cytoskeleton stabilization and autophagy regulation in muscle under mechanical stress. Lohanadan K, et al. Exp Cell Res, 2021 Nov 15. PMID 34637763
  3. Identification of mouse Vps16 and biochemical characterization of mammalian class C Vps complex. Kim BY, et al. Biochem Biophys Res Commun, 2003 Nov 21. PMID 14623309
  4. Mammalian CORVET is required for fusion and conversion of distinct early endosome subpopulations. Perini ED, et al. Traffic, 2014 Dec. PMID 25266290
  5. Clathrin-dependent mechanisms modulate the subcellular distribution of class C Vps/HOPS tether subunits in polarized and nonpolarized cells. Zlatic SA, et al. Mol Biol Cell, 2011 May 15. PMID 21411634, Free PMC Article

See all (32) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Isoform-specific functions of synaptopodin-2 variants in cytoskeleton stabilization and autophagy regulation in muscle under mechanical stress.
    Title: Isoform-specific functions of synaptopodin-2 variants in cytoskeleton stabilization and autophagy regulation in muscle under mechanical stress.
  2. important roles of Vps18 in neuron survival and migration, which are disrupted in multiple neural disorders.
    Title: Ablation of vacuole protein sorting 18 (Vps18) gene leads to neurodegeneration and impaired neuronal migration by disrupting multiple vesicle transport pathways to lysosomes.
  3. Vps18 deficiency severely blocks the dendrite development of Pukinje cells but not cerebral cortical neurons.
    Title: Vps18 deficiency inhibits dendritogenesis in Purkinje cells by blocking the lysosomal degradation of Lysyl Oxidase.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (4)  1 citation
  • Endonuclease-mediated (2) 

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC36479

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables actin binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein-macromolecule adaptor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables syntaxin binding ISO
Inferred from Sequence Orthology
more info
  
enables ubiquitin protein ligase activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within autophagy IEA
Inferred from Electronic Annotation
more info
  
involved_in endosome organization IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within endosome organization IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in endosome organization ISO
Inferred from Sequence Orthology
more info
  
involved_in endosome to lysosome transport IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in endosome to lysosome transport ISO
Inferred from Sequence Orthology
more info
  
involved_in intracellular protein transport IEA
Inferred from Electronic Annotation
more info
  
involved_in lysosome organization IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in lysosome organization ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of intracellular estrogen receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
  
involved_in organelle fusion IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within protein transport IEA
Inferred from Electronic Annotation
more info
  
involved_in protein ubiquitination ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of synaptic vesicle exocytosis ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within symbiont entry into host cell IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in vesicle docking involved in exocytosis IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in vesicle-mediated transport IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
part_of AP-3 adaptor complex IDA
Inferred from Direct Assay
more info
 PubMed 
part_of CORVET complex IDA
Inferred from Direct Assay
more info
 PubMed 
part_of HOPS complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of HOPS complex ISO
Inferred from Sequence Orthology
more info
  
located_in actin filament IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytoplasmic vesicle IEA
Inferred from Electronic Annotation
more info
  
located_in early endosome IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in endosome IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in glutamatergic synapse ISO
Inferred from Sequence Orthology
more info
  
located_in late endosome ISO
Inferred from Sequence Orthology
more info
  
located_in lysosome ISO
Inferred from Sequence Orthology
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
is_active_in presynapse ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
vacuolar protein sorting-associated protein 18 homolog
Names
vacuolar protein sorting 18

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_172269.3 → NP_758473.3  vacuolar protein sorting-associated protein 18 homolog

    See identical proteins and their annotated locations for NP_758473.3

    Status: VALIDATED

    Source sequence(s)
    AK033333, AK036915, AL929318
    Consensus CDS
    CCDS16599.1
    UniProtKB/Swiss-Prot
    Q8BGV6, Q8BZX6, Q8C126, Q8R307
    UniProtKB/TrEMBL
    Q3UG80
    Related
    ENSMUSP00000036915.5, ENSMUST00000037280.5
    Conserved Domains (3) summary
    smart00299
    Location:644 → 768
    CLH; Clathrin heavy chain repeat homology
    pfam00637
    Location:638 → 769
    Clathrin; Region in Clathrin and VPS
    pfam05131
    Location:291 → 434
    Pep3_Vps18; Pep3/Vps18/deep orange family

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000068.8 Reference GRCm39 C57BL/6J

    Range
    119119220..119128934
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036161343.1 → XP_036017236.1  vacuolar protein sorting-associated protein 18 homolog isoform X1

    UniProtKB/TrEMBL
    Q69ZI9
    Conserved Domains (3) summary
    cd16462
    Location:749 → 850
    RING-H2_Pep3p_like; RING finger, H2 subclass, found in Saccharomyces cerevisiae vacuolar membrane protein PEP3 (Pep3p) and similar proteins
    pfam00637
    Location:513 → 641
    Clathrin; Region in Clathrin and VPS
    pfam05131
    Location:189 → 332
    Pep3_Vps18; Pep3/Vps18/deep orange family
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8R307.2 GenPept UniProtKB/Swiss-Prot:Q8R307

Gene LinkOut

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