vps-41 Vacuolar protein sorting-associated protein 41 homolog [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: vps-41
Official Full Name: Vacuolar protein sorting-associated protein 41 homolog
Primary source: WormBase:WBGene00017974
Locus tag: CELE_F32A6.3
See related: AllianceGenome:WB:WBGene00017974
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 metal ion binding activity. Involved in negative regulation of apoptotic process; vacuolar protein processing; and vacuolar transport. Predicted to be located in vacuole. Predicted to be part of HOPS complex. Predicted to be active in late endosome. Used to study Parkinson's disease. Human ortholog(s) of this gene implicated in autosomal recessive spinocerebellar ataxia 29. Orthologous to human VPS41 (VPS41 subunit of HOPS complex). [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

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See vps-41 in Genome Data Viewer

Location:: chromosome: X

Exon count:: 13

Sequence:: Chromosome: X; NC_003284.9 (5283831..5289724)

Chromosome X - NC_003284.9 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003284.9

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Both a functional heterotetrameric adaptor protein complex and a homotypic fusion and vacuole protein sorting-tethering complex are required for VPS41 to elicit neuroprotection in a model of Parkinson's disease.
Title: Functional analysis of VPS41-mediated neuroprotection in Caenorhabditis elegans and mammalian models of Parkinson's disease.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

F32A6.3 (e-PCR)
- UniSTS:310075

Y34B4A.g (e-PCR)
- UniSTS:322733

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 molecular_function	ND No biological Data available more info

Process	Evidence Code	Pubs
involved_in apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in cellular response to starvation	IBA Inferred from Biological aspect of Ancestor more info
involved_in endosomal vesicle fusion	IBA Inferred from Biological aspect of Ancestor more info
involved_in endosomal vesicle fusion	IEA Inferred from Electronic Annotation more info
involved_in intracellular protein transport	IEA Inferred from Electronic Annotation more info
involved_in intracellular transport	IEA Inferred from Electronic Annotation more info
involved_in macroautophagy	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein targeting to vacuole	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein targeting to vacuole	IEA Inferred from Electronic Annotation more info
involved_in protein transport	IEA Inferred from Electronic Annotation more info
involved_in vacuolar protein processing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in vacuolar transport	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in vesicle-mediated transport	IEA Inferred from Electronic Annotation more info
involved_in vesicle-mediated transport	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in Golgi apparatus	IEA Inferred from Electronic Annotation more info
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 clathrin-coated vesicle	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in early endosome membrane	IEA Inferred from Electronic Annotation more info
located_in endosome	IEA Inferred from Electronic Annotation more info
is_active_in late endosome	IBA Inferred from Biological aspect of Ancestor 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
located_in vacuole	IC Inferred by Curator more info	PubMed

General protein information

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Preferred Names: Vacuolar protein sorting-associated protein 41 homolog

NP_001367568.1

Confirmed by transcript evidence

NP_001370495.1

Confirmed by transcript evidence

NP_001370496.1

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_003284.9 Reference assembly

Range

5283831..5289724

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001383575.2 → NP_001370495.1 Vacuolar protein sorting-associated protein 41 homolog [Caenorhabditis elegans]

Status: REVIEWED

Conserved Domains (4) summary

smart00299
Location:479 → 613

CLH; Clathrin heavy chain repeat homology

COG5243
Location:649 → 741

HRD1; HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]

cd00162
Location:697 → 750

RING_Ubox; RING-H2 finger (C3H2C3-type) [structural motif]

cl17238
Location:696 → 751

RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
NM_001380962.1 → NP_001367568.1 Vacuolar protein sorting-associated protein 41 homolog [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/Swiss-Prot

A3RMR9, A3RMS0, Q19954

Conserved Domains (5) summary

smart00299
Location:621 → 755

CLH; Clathrin heavy chain repeat homology

COG2319
Location:38 → 294

WD40; WD40 repeat [General function prediction only]

COG5243
Location:791 → 883

HRD1; HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]

sd00039
Location:61 → 98

7WD40; WD40 repeat [structural motif]

cl17238
Location:838 → 893

RING_Ubox; The superfamily of RING finger (Really Interesting New Gene) domain and U-box domain
NM_001383576.1 → NP_001370496.1 Vacuolar protein sorting-associated protein 41 homolog [Caenorhabditis elegans]

Status: REVIEWED

Conserved Domains (1) summary

smart00299
Location:479 → 613

CLH; Clathrin heavy chain repeat homology