VPS15 ubiquitin-binding serine/threonine protein kinase VPS15 [Saccharomyces cerevisiae S288C] - Gene

Summary

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Official Symbol: VPS15
Official Full Name: ubiquitin-binding serine/threonine protein kinase VPS15
Primary source: SGD:S000000301
Locus tag: YBR097W
See related: AllianceGenome:SGD:S000000301; FungiDB:YBR097W; VEuPathDB:YBR097W
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: GRD8; VAC4; VPL19; VPS40; VPT15
Summary: Enables protein serine/threonine kinase activity and ubiquitin binding activity. Involved in several processes, including cellular response to potassium ion starvation; pexophagy; and vacuolar transport. Located in nucleus-vacuole junction and vacuole-isolation membrane contact site. Part of phosphatidylinositol 3-kinase complex, class III, type I and phosphatidylinositol 3-kinase complex, class III, type II. Orthologous to human PIK3R4 (phosphoinositide-3-kinase regulatory subunit 4). [provided by Alliance of Genome Resources, Jul 2025]
Orthologs: all
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Genomic context

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See VPS15 in Genome Data Viewer

Location:: chromosome: II

Exon count:: 1

Sequence:: Chromosome: II; NC_001134.8 (436951..441315)

Chromosome II - NC_001134.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001134.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

mutants lacking Vps15 display multiple phenotypes indicating impaired transcription elongation.
Title: Vps factors are required for efficient transcription elongation in budding yeast.
Gpa1 is present at endosomes, where it interacts directly with both Vps34 and Vps15 and stimulates increased production of phosphatidylinositol 3-phosphate.
Title: Activation of the phosphatidylinositol 3-kinase Vps34 by a G protein alpha subunit at the endosome.

Submit: New GeneRIF Correction

Pathways from PubChem

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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

NCBI Orthologs

Orthologs from OrthoDB

Gene Ontology Provided by SGD

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables kinase activity	IEA Inferred from Electronic Annotation more info
enables nucleotide binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein kinase activity	IEA Inferred from Electronic Annotation more info
enables protein serine kinase activity	IEA Inferred from Electronic Annotation more info
enables protein serine/threonine kinase activity	IBA Inferred from Biological aspect of Ancestor more info
enables protein serine/threonine kinase activity	IDA Inferred from Direct Assay more info	PubMed
enables protein serine/threonine kinase activity	IEA Inferred from Electronic Annotation more info
enables transferase activity	IEA Inferred from Electronic Annotation more info
enables ubiquitin binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in autophagy	IDA Inferred from Direct Assay more info	PubMed
involved_in autophagy	IEA Inferred from Electronic Annotation more info
involved_in cellular response to potassium ion starvation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in late endosome to vacuole transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in late endosome to vacuole transport	IEA Inferred from Electronic Annotation more info
involved_in late endosome to vacuole transport	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in late endosome to vacuole transport	NAS Non-traceable Author Statement more info	PubMed
involved_in macroautophagy	IEA Inferred from Electronic Annotation more info
involved_in macroautophagy	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in pexophagy	IBA Inferred from Biological aspect of Ancestor more info
involved_in pexophagy	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in phosphatidylinositol phosphate biosynthetic process	IDA Inferred from Direct Assay more info	PubMed
involved_in phosphatidylinositol phosphate biosynthetic process	NAS Non-traceable Author Statement more info	PubMed
involved_in positive regulation of transcription elongation by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein localization to vacuole	IEA Inferred from Electronic Annotation more info
involved_in protein retention in Golgi apparatus	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	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein transport	IEA Inferred from Electronic Annotation more info
involved_in vacuole inheritance	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in Golgi apparatus	IEA Inferred from Electronic Annotation more info
located_in Golgi membrane	NAS Non-traceable Author Statement more info	PubMed
located_in endosome	IEA Inferred from Electronic Annotation more info
located_in endosome membrane	IEA Inferred from Electronic Annotation more info
located_in endosome membrane	NAS Non-traceable Author Statement more info	PubMed
located_in fungal-type vacuole membrane	HDA more info	PubMed
is_active_in late endosome	IBA Inferred from Biological aspect of Ancestor more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in mitochondrion	HDA more info	PubMed
is_active_in nucleus-vacuole junction	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus-vacuole junction	IDA Inferred from Direct Assay more info	PubMed
located_in phagophore assembly site membrane	NAS Non-traceable Author Statement more info	PubMed
part_of phosphatidylinositol 3-kinase complex, class III, type I	IBA Inferred from Biological aspect of Ancestor more info
part_of phosphatidylinositol 3-kinase complex, class III, type I	IDA Inferred from Direct Assay more info	PubMed
part_of phosphatidylinositol 3-kinase complex, class III, type I	IPI Inferred from Physical Interaction more info	PubMed
part_of phosphatidylinositol 3-kinase complex, class III, type II	IBA Inferred from Biological aspect of Ancestor more info
part_of phosphatidylinositol 3-kinase complex, class III, type II	IDA Inferred from Direct Assay more info	PubMed
part_of phosphatidylinositol 3-kinase complex, class III, type II	IPI Inferred from Physical Interaction more info	PubMed
located_in vacuole-isolation membrane contact site	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: ubiquitin-binding serine/threonine protein kinase VPS15

NP_009655.2

EC 2.7.11.1

Serine/threonine protein kinase involved in vacuolar protein sorting; functions as a membrane-associated complex with Vps34p; active form recruits Vps34p to the Golgi membrane; interacts with the GDP-bound form of Gpa1p; myristoylated; a fraction is localized, with Vps34p, to nuclear pores at nucleus-vacuole junctions and may facilitate transcription elongation for genes positioned at the nuclear periphery

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_001134.8 Reference assembly

Range

436951..441315

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001178445.2 → NP_009655.2 TPA: ubiquitin-binding serine/threonine protein kinase VPS15

See identical proteins and their annotated locations for NP_009655.2

Status: REVIEWED

UniProtKB/Swiss-Prot

D6VQ98, P22219

UniProtKB/TrEMBL

G2W9A4, N1P8E3

Conserved Domains (4) summary

cd13980
Location:26 → 304

STKc_Vps15; Catalytic domain of the Serine/Threonine kinase, Vacuolar protein sorting-associated protein 15

sd00044
Location:511 → 538

HEAT; HEAT repeat [structural motif]

sd00039
Location:1083 → 1127

7WD40; WD40 repeat [structural motif]

cl29593
Location:1080 → 1312

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...