vps18 VPS18 core subunit of CORVET and HOPS complexes [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: vps18provided by ZNC
Official Full Name: VPS18 core subunit of CORVET and HOPS complexesprovided by ZNC
Primary source: ZFIN:ZDB-GENE-020419-33
See related: Ensembl:ENSDARG00000070433 AllianceGenome:ZFIN:ZDB-GENE-020419-33
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: chunp6929; wu:fj35h10; hm:zehl0587
Summary: Predicted to enable protein-macromolecule adaptor activity. Acts upstream of or within several processes, including apical protein localization; endosome to pigment granule transport; and notochord cell vacuolation. Predicted to be located in late endosome membrane and lysosomal membrane. Predicted to be part of HOPS complex. Predicted to be active in endosome. Used to study cholestasis. Orthologous to human VPS18 (VPS18 core subunit of CORVET and HOPS complexes). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 20

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	20	NC_007131.7 (28354269..28361557, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	20	NC_007131.6 (28455179..28462467, complement)

Chromosome 20 - NC_007131.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

A deficiency of Vps18 in zebrafish larvae results in hepatomegaly and skin hypopigmentation.
Title: The zebrafish mutant vps18 as a model for vesicle-traffic related hypopigmentation diseases.
Mutation of the class C vacuolar protein sorting gene vps18 results in hepatomegaly associated with large, vesicle-filled hepatocytes.
Title: A genetic screen in zebrafish identifies the mutants vps18, nf2 and foie gras as models of liver disease.

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General gene information

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Gene Ontology Provided by ZFIN

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
acts_upstream_of_or_within apical protein localization	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within bile acid and bile salt transport	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in endosome organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in endosome to lysosome transport	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within endosome to lysosome transport	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within endosome to pigment granule transport	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within eye pigmentation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within intracellular protein transport	IEA Inferred from Electronic Annotation more info
involved_in lysosome organization	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within notochord cell vacuolation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within optokinetic behavior	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in organelle fusion	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within pigment granule maturation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within protein transport	IEA Inferred from Electronic Annotation more info
involved_in vesicle docking involved in exocytosis	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within vesicle-mediated transport	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
part_of HOPS complex	IBA Inferred from Biological aspect of Ancestor 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

Names: 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)

NM_173245.2 → NP_775352.2 vacuolar protein sorting-associated protein 18 homolog

See identical proteins and their annotated locations for NP_775352.2

Status: PROVISIONAL

Source sequence(s)

BC086828

UniProtKB/Swiss-Prot

P59015, Q5SPB8

UniProtKB/TrEMBL

B7ZVV5

Related

ENSDARP00000094129.3, ENSDART00000103352.4

Conserved Domains (3) summary

smart00299
Location:641 → 768

CLH; Clathrin heavy chain repeat homology

pfam00637
Location:618 → 743

Clathrin; Region in Clathrin and VPS

pfam05131
Location:291 → 435

Pep3_Vps18; Pep3/Vps18/deep orange family