VPS41 Vps41p [Saccharomyces cerevisiae S288C] - Gene

Summary

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Official Symbol: VPS41
Official Full Name: Vps41p
Primary source: SGD:S000002487
Locus tag: YDR080W
See related: AllianceGenome:SGD:S000002487; FungiDB:YDR080W; VEuPathDB:YDR080W
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Saccharomyces cerevisiae S288C (strain: S288C)
Lineage: Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
Also known as: CVT8; FET2; SVL2; VAM2; VPL20
Summary: Enables small GTPase binding activity. Contributes to phosphatidylinositol binding activity. Involved in several processes, including piecemeal microautophagy of the nucleus; vacuolar protein processing; and vacuole fusion, non-autophagic. Located in fungal-type vacuole membrane. Part of HOPS complex. 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 VPS41 in Genome Data Viewer

Location:: chromosome: IV

Exon count:: 1

Sequence:: Chromosome: IV; NC_001136.10 (604008..606986)

Chromosome IV - NC_001136.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001136.10

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Cargo Release from Myosin V Requires the Convergence of Parallel Pathways that Phosphorylate and Ubiquitylate the Cargo Adaptor.
Title: Cargo Release from Myosin V Requires the Convergence of Parallel Pathways that Phosphorylate and Ubiquitylate the Cargo Adaptor.
AP-3 vesicle uncoating occurs after HOPS-dependent vacuole tethering.
Title: AP-3 vesicle uncoating occurs after HOPS-dependent vacuole tethering.
Results describe a phosphorylation-based switch mechanism, which allows the homotypic vacuole fusion protein sorting effector subunit Vps41 to operate in two distinct fusion events, namely endosome-vacuole and AP-3 vesicle-vacuole fusion.
Title: Phosphorylation of a membrane curvature-sensing motif switches function of the HOPS subunit Vps41 in membrane tethering.
Data show that although the AP-3 delta subunit, Apl5, binds Vps41 directly, this interaction occurs preferentially within the context of the HOPS docking complex.
Title: HOPS interacts with Apl5 at the vacuole membrane and is required for consumption of AP-3 transport vesicles.
Both Ypt7 and Yck3-mediated phosphorylation modulate the Vps41 localization to the endosome-vacuole junction.
Title: Vps41 phosphorylation and the Rab Ypt7 control the targeting of the HOPS complex to endosome-vacuole fusion sites.
Mutants in the V0-part of the V0/V1-ATPase accumulate Vps41.
Title: The vacuolar V1/V0-ATPase is involved in the release of the HOPS subunit Vps41 from vacuoles, vacuole fragmentation and fusion.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

Orthologs from OrthoDB

Gene Ontology Provided by SGD

Function	Evidence Code	Pubs
contributes_to phosphatidylinositol binding	IDA Inferred from Direct Assay more info	PubMed
enables small GTPase binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in cellular response to starvation	IBA Inferred from Biological aspect of Ancestor more info
involved_in cytoplasm to vacuole targeting by the Cvt pathway	IMP Inferred from Mutant Phenotype more info	PubMed
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 macroautophagy	IBA Inferred from Biological aspect of Ancestor more info
involved_in macroautophagy	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in piecemeal microautophagy of the nucleus	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 protein transport	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of SNARE complex assembly	IDA Inferred from Direct Assay more info	PubMed
involved_in vacuolar protein processing	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in vacuole fusion, non-autophagic	IDA Inferred from Direct Assay more info	PubMed
involved_in vacuole fusion, non-autophagic	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in vacuole organization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in vesicle tethering	IDA Inferred from Direct Assay more info	PubMed
involved_in vesicle-mediated transport	IEA Inferred from Electronic Annotation more info
involved_in vesicle-mediated transport	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
part_of HOPS complex	IBA Inferred from Biological aspect of Ancestor more info
part_of HOPS complex	IPI Inferred from Physical Interaction more info	PubMed
located_in bounding membrane of organelle	IEA Inferred from Electronic Annotation more info
located_in endosome	HDA more info	PubMed
located_in fungal-type vacuole membrane	HDA more info	PubMed
located_in fungal-type vacuole membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in late endosome	IBA Inferred from Biological aspect of Ancestor more info
located_in vacuole	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: Vps41p

NP_010365.3

Subunit of the HOPS endocytic tethering complex; vacuole membrane protein that functions as a Rab GTPase effector, interacting specifically with the GTP-bound conformation of Ypt7p, facilitating tethering, docking and promoting membrane fusion events at the late endosome and vacuole; required for both membrane and protein trafficking; Yck3p-mediated phosphorylation regulates the organization of vacuolar fusion sites

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_001136.10 Reference assembly

Range

604008..606986

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001180388.3 → NP_010365.3 TPA: Vps41p [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_010365.3

Status: REVIEWED

UniProtKB/Swiss-Prot

D6VS67, P38959, P87334, Q12011

UniProtKB/TrEMBL

A6ZY46, C7GVQ6, N1P4N1

Conserved Domains (2) summary

smart00299
Location:753 → 896

CLH; Clathrin heavy chain repeat homology

smart00320
Location:145 → 179

WD40; WD40 repeats