vps-18 Vacuolar protein sorting-associated protein 18 homolog [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: vps-18
Official Full Name: Vacuolar protein sorting-associated protein 18 homolog
Primary source: WormBase:WBGene00021058
Locus tag: CELE_W06B4.3
See related: AllianceGenome:WB:WBGene00021058
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: Predicted to enable protein-macromolecule adaptor activity. Involved in endosome organization; phagosome-lysosome fusion involved in apoptotic cell clearance; and regulation of endosome size. Located in cytoplasm. Is expressed in body wall musculature; coelomocyte; hermaphrodite gonad; hypodermis; and intestine. Orthologous to human VPS18 (VPS18 core subunit of CORVET and HOPS complexes). [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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See vps-18 in Genome Data Viewer

Location:: chromosome: II

Exon count:: 8

Sequence:: Chromosome: II; NC_003280.10 (4461130..4467896)

Chromosome II - NC_003280.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003280.10

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Results show that VPS-18, the Caenorhabditis elegans homologue of yeast Vps18p, is critical to cell corpse degradation in apoptosis.
Title: Lysosome biogenesis mediated by vps-18 affects apoptotic cell degradation in Caenorhabditis elegans.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

W06B4.3 (e-PCR)
- UniSTS:315174

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

Function	Evidence Code	Pubs
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables protein-macromolecule adaptor activity	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in autophagy	IEA Inferred from Electronic Annotation more info
involved_in endosome organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in endosome organization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in endosome to lysosome transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in lysosome organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in lysosome organization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in organelle fusion	IBA Inferred from Biological aspect of Ancestor more info
involved_in organelle fusion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in phagosome-lysosome fusion involved in apoptotic cell clearance	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in vesicle docking involved in exocytosis	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
part_of HOPS complex	IBA Inferred from Biological aspect of Ancestor more info
part_of HOPS complex	ISS Inferred from Sequence or Structural Similarity more info	PubMed
located_in autophagosome	IEA Inferred from Electronic Annotation more info
located_in clathrin-coated vesicle	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	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	IEA Inferred from Electronic Annotation more info
located_in late endosome membrane	IEA Inferred from Electronic Annotation more info
located_in lysosomal membrane	IEA Inferred from Electronic Annotation more info
located_in lysosome	IEA Inferred from Electronic Annotation more info
located_in membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: Vacuolar protein sorting-associated protein 18 homolog

NP_494788.3

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

NC_003280.10 Reference assembly

Range

4461130..4467896

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_062387.6 → NP_494788.3 Vacuolar protein sorting-associated protein 18 homolog [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_494788.3

Status: REVIEWED

UniProtKB/Swiss-Prot

G4SQH0, Q23194

Conserved Domains (3) summary

pfam05131
Location:300 → 450

Pep3_Vps18; Pep3/Vps18/deep orange family

cl17238
Location:906 → 1004

RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain

cl26078
Location:638 → 756

Clathrin; Region in Clathrin and VPS