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VPS18 VPS18 core subunit of CORVET and HOPS complexes [ Homo sapiens (human) ]

Gene ID: 57617, updated on 2-Nov-2024

Summary

Official Symbol
VPS18provided by HGNC
Official Full Name
VPS18 core subunit of CORVET and HOPS complexesprovided by HGNC
Primary source
HGNC:HGNC:15972
See related
Ensembl:ENSG00000104142 MIM:608551; AllianceGenome:HGNC:15972
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
PEP3
Summary
Vesicle mediated protein sorting plays an important role in segregation of intracellular molecules into distinct organelles. Genetic studies in yeast have identified more than 40 vacuolar protein sorting (VPS) genes involved in vesicle transport to vacuoles. This gene encodes the human homolog of yeast class C Vps18 protein. The mammalian class C Vps proteins are predominantly associated with late endosomes/lysosomes, and like their yeast counterparts, may mediate vesicle trafficking steps in the endosome/lysosome pathway. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in bone marrow (RPKM 7.7), kidney (RPKM 5.8) and 25 other tissues See more
Orthologs
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Genomic context

See VPS18 in Genome Data Viewer
Location:
15q15.1
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (40894450..40903975)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (38700456..38709981)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (41186648..41196173)

Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene SPINT1 antisense RNA 1 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:41135819-41136390 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6344 Neighboring gene serine peptidase inhibitor, Kunitz type 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9267 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9268 Neighboring gene uncharacterized LOC124903475 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6345 Neighboring gene ras homolog family member V Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9269 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6346 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6347 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6348 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9270 Neighboring gene Sharpr-MPRA regulatory region 6315 Neighboring gene uncharacterized LOC105370943 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6350 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9271 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:41207495-41208162 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:41217384-41218229 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6351 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6352 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:41230399-41231215 Neighboring gene delta like canonical Notch ligand 4

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

EBI GWAS Catalog

Description
Genome-wide association for abdominal subcutaneous and visceral adipose reveals a novel locus for visceral fat in women.
EBI GWAS Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Pr55(Gag) gag The CA domain of HIV-1 Gag and the clathrin heavy-chain repeat domain of VPS18 are required for the interaction between Gag and VPS18 PubMed
gag VPS18 and MON2 proteins are required for proper HIV-1 Gag localization to plasma membrane and the efficient production of infectious virions in human cells PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • KIAA1475

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables actin binding IEA
Inferred from Electronic Annotation
more info
 
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 IDA
Inferred from Direct Assay
more info
PubMed 
enables ubiquitin protein ligase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
Process Evidence Code Pubs
involved_in autophagy IEA
Inferred from Electronic Annotation
more info
 
involved_in endosomal vesicle fusion NAS
Non-traceable Author Statement
more info
PubMed 
involved_in endosome organization IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in endosome organization IDA
Inferred from Direct Assay
more info
PubMed 
involved_in endosome to lysosome transport IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in endosome to lysosome transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
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 IDA
Inferred from Direct Assay
more info
PubMed 
involved_in negative regulation of intracellular estrogen receptor signaling pathway IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in organelle fusion IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in protein ubiquitination IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of SNARE complex assembly NAS
Non-traceable Author Statement
more info
PubMed 
involved_in regulation of synaptic vesicle exocytosis EXP
Inferred from Experiment
more info
PubMed 
involved_in regulation of synaptic vesicle exocytosis IDA
Inferred from Direct Assay
more info
PubMed 
involved_in regulation of synaptic vesicle exocytosis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in symbiont entry into host cell IEA
Inferred from Electronic Annotation
more info
 
involved_in vesicle docking involved in exocytosis IBA
Inferred from Biological aspect of Ancestor
more info
 
Component Evidence Code Pubs
part_of AP-3 adaptor complex IEA
Inferred from Electronic Annotation
more info
 
part_of CORVET complex NAS
Non-traceable Author Statement
more info
PubMed 
part_of HOPS complex IBA
Inferred from Biological aspect of Ancestor
more info
 
part_of HOPS complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of HOPS complex NAS
Non-traceable Author Statement
more info
PubMed 
located_in actin filament IEA
Inferred from Electronic Annotation
more info
 
located_in autophagosome IEA
Inferred from Electronic Annotation
more info
 
located_in clathrin-coated vesicle IEA
Inferred from Electronic Annotation
more info
 
located_in early endosome IEA
Inferred from Electronic Annotation
more info
 
is_active_in endosome IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in endosome membrane TAS
Traceable Author Statement
more info
 
is_active_in glutamatergic synapse EXP
Inferred from Experiment
more info
PubMed 
is_active_in glutamatergic synapse IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in glutamatergic synapse IMP
Inferred from Mutant Phenotype
more info
PubMed 
located_in late endosome IDA
Inferred from Direct Assay
more info
PubMed 
located_in late endosome membrane IEA
Inferred from Electronic Annotation
more info
 
located_in lysosomal membrane HDA PubMed 
located_in lysosome IDA
Inferred from Direct Assay
more info
PubMed 
located_in presynapse IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
vacuolar protein sorting-associated protein 18 homolog
Names
VPS18, CORVET/HOPS core subunit
hVPS18
vacuolar protein sorting 18 homolog
vacuolar protein sorting protein 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_020857.3NP_065908.1  vacuolar protein sorting-associated protein 18 homolog

    See identical proteins and their annotated locations for NP_065908.1

    Status: REVIEWED

    Source sequence(s)
    AF308802, AL713725
    Consensus CDS
    CCDS10069.1
    UniProtKB/Swiss-Prot
    Q8TCG0, Q96DI3, Q9H268, Q9P253
    Related
    ENSP00000220509.5, ENST00000220509.10
    Conserved Domains (3) summary
    smart00299
    Location:644768
    CLH; Clathrin heavy chain repeat homology
    pfam00637
    Location:644769
    Clathrin; Region in Clathrin and VPS
    pfam05131
    Location:291434
    Pep3_Vps18; Pep3/Vps18/deep orange family

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000015.10 Reference GRCh38.p14 Primary Assembly

    Range
    40894450..40903975
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011521843.3XP_011520145.1  vacuolar protein sorting-associated protein 18 homolog isoform X1

    Conserved Domains (3) summary
    smart00299
    Location:572696
    CLH; Clathrin heavy chain repeat homology
    pfam00637
    Location:572697
    Clathrin; Region in Clathrin and VPS
    pfam05131
    Location:219362
    Pep3_Vps18; Pep3/Vps18/deep orange family

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060939.1 Alternate T2T-CHM13v2.0

    Range
    38700456..38709981
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054378541.1XP_054234516.1  vacuolar protein sorting-associated protein 18 homolog isoform X1