VPS34 / YLR240W Overview
- Standard Name
- VPS34 1 2
- Systematic Name
- YLR240W
- SGD ID
- SGD:S000004230
- Aliases
- STT8 34 35 , VPS7 36 , END12 16 , PEP15 37 , VPL7 38 , VPT29 1
- Feature Type
- ORF , Verified
- Description
- Phosphatidylinositol (PI) 3-kinase that synthesizes PI-3-phosphate; forms membrane-associated signal transduction complex with Vps15p to regulate protein sorting; activated by the GTP-bound form of Gpa1p; a fraction is localized, with Vps15p, to nuclear pores at nucleus-vacuole junctions and may facilitate transcription elongation for genes positioned at the nuclear periphery 3 4 5 6
- Name Description
- Vacuolar Protein Sorting 1 2
- Comparative Info
-
Sequence
The S. cerevisiae Reference Genome sequence is derived from laboratory strain S288C. Download DNA or protein sequence, view genomic context and coordinates. Click "Sequence Details" to view all sequence information for this locus, including that for other strains.
Analyze Sequence
S288C only
BLASTN | BLASTP | Design Primers | Restriction Fragment Map | Restriction Fragment Sizes | Six-Frame Translation
S288C vs. other species
BLASTN vs. fungi | BLASTP at NCBI | BLASTP vs. fungi
S288C vs. other strains
Protein
Basic sequence-derived (length, molecular weight, isoelectric point) and experimentally-determined (median abundance, median absolute deviation) protein information. Click "Protein Details" for further information about the protein such as half-life, abundance, domains, domains shared with other proteins, protein sequence retrieval for various strains, physico-chemical properties, protein modification sites, and external identifiers for the protein.
- Length (a.a.)
- 875
- Mol. Weight (Da)
- 100924.3
- Isoelectric Point
- 7.9
- Median Abundance (molecules/cell)
- 1561 +/- 752
- Half-life (hr)
- 6.5
Alleles
Curated mutant alleles for the specified gene, listed alphabetically. Click on the allele name to open the allele page. Click "SGD search" to view all alleles in search results.
View all VPS34 alleles in SGD search
Gene Ontology
GO Annotations consist of four mandatory components: a gene product, a term from one of the three Gene Ontology (GO) controlled vocabularies (Molecular Function, Biological Process, and Cellular Component), a reference, and an evidence code. SGD has manually curated and high-throughput GO Annotations, both derived from the literature, as well as computational, or predicted, annotations. Click "Gene Ontology Details" to view all GO information and evidence for this locus as well as biological processes it shares with other genes.
- Summary
- 1-phosphatidylinositol-3-kinase and protein kinase; subunit of phosphatidylinositol 3-kinase complexes I and II; involved in pexophagy and positive regulation of transcription elongation from RNA pol II promoters; colocalizes with the nuclear pore and localizes to the vacuole membrane, pre-autophagosomal structure, endosome, peroxisome, and nucleus-vacuole junction
View computational annotations
Molecular Function
- Manually Curated
- enables 1-phosphatidylinositol-3-kinase activity (IDA, IMP)
- enables protein kinase activity (IDA)
Biological Process
- Manually Curated
- involved in cellular response to potassium ion starvation (IMP)
- involved in macroautophagy (IMP)
- involved in pexophagy (IMP)
- involved in phosphatidylinositol phosphate biosynthetic process (IDA, IMP)
- involved in positive regulation of transcription elongation by RNA polymerase II (IMP)
Cellular Component
- Manually Curated
- located in cytosol (HDA)
- located in endosome (IDA)
- located in fungal-type vacuole membrane (HDA, IDA)
- located in nucleus-vacuole junction (IDA)
- located in peroxisome (IDA)
- located in phagophore assembly site (IDA)
- part of phosphatidylinositol 3-kinase complex, class III, type I (IDA)
- part of phosphatidylinositol 3-kinase complex, class III, type II (IDA)
Complex
Macromolecular complex annotations are imported from the Complex Portal. These annotations have been derived from physical molecular interaction evidence extracted from the literature and cross-referenced in the entry, or by curator inference from information on homologs in closely related species or by inference from scientific background.
Pathways
Phenotype
Phenotype annotations for a gene are curated single mutant phenotypes that require an observable (e.g., "cell shape"), a qualifier (e.g., "abnormal"), a mutant type (e.g., null), strain background, and a reference. In addition, annotations are classified as classical genetics or high-throughput (e.g., large scale survey, systematic mutation set). Whenever possible, allele information and additional details are provided. Click "Phenotype Details" to view all phenotype annotations and evidence for this locus as well as phenotypes it shares with other genes.
- Summary
- Non-essential gene; null mutant is defective in vacuolar protein sorting, resulting in decreased processing and aberrant secretion; conditional mutants are defective in both receptor-mediated and fluid-phase endocytosis; mutants display enlarged vacuoles, have vacuolar segregation defects and accumulate Berkeley bodies; null mutant has a severe autophagy defect, a large, round cell morphology, increased thermosensitivity, decreased hyperosmotic and ionic stress resistance, and is unable to accumulate the phospholipid, PI3P
Classical Genetics
- reduction of function
- null
- acid pH resistance: decreased
- alkaline pH resistance: decreased
- autophagy: absent
- autophagy: decreased
- chemical compound accumulation: absent
- growth in exponential phase: decreased rate
- heat sensitivity: increased
- hydrostatic pressure resistance: decreased
- hyperosmotic stress resistance: decreased
- ionic stress resistance: decreased
- mating efficiency: decreased
- metal resistance: decreased
- protein secretion: decreased
- protein transport: abnormal
- protein transport: decreased
- protein/peptide distribution: abnormal
- protein/peptide modification: absent
- protein/peptide modification: decreased
- replicative lifespan: decreased
- resistance to chemicals: decreased
- resistance to enzymatic treatment: decreased
- vacuolar morphology: abnormal
- vacuolar transport: decreased
- viability: decreased
- viable
- unspecified
- activation
- conditional
- dominant negative
- overexpression
- null
- acid pH resistance: decreased
- alkaline pH resistance: decreased
- anaerobic growth: decreased
- budding pattern: abnormal
- cell shape: abnormal
- cell size: increased
- chemical compound accumulation: abnormal
- chemical compound accumulation: decreased
- chemical compound excretion: increased
- chronological lifespan: decreased
- competitive fitness: decreased
- haploinsufficient
- heat sensitivity: decreased
- heat sensitivity: increased
- hydrostatic pressure resistance: decreased
- inviable
- metal resistance: decreased
- protein/peptide distribution: abnormal
- protein/peptide modification: decreased
- resistance to chemicals: decreased
- respiratory growth: absent
- reticulophagy: decreased
- starvation resistance: decreased
- stress resistance: decreased
- telomere length: decreased
- toxin resistance: decreased
- transposable element transposition: decreased
- utilization of nitrogen source: absent
- vegetative growth: decreased
- vegetative growth: decreased rate
- viable
- overexpression
Large-scale Survey
Disease
Disease Annotations consist of three mandatory components: a gene product, a term from the Disease Ontology (DO) controlled vocabulary and an evidence code. SGD provides manually curated DO Annotations derived from the literature. Click "Disease Details" to view all Disease information and evidence for this locus as well as diseases it shares with other genes.
- Summary
- Yeast VPS34 is homologous to human PIK3C3, and has been used to study Parkinson's disease risk
Manually Curated
Interaction
Interaction annotations are curated by BioGRID and include physical or genetic interactions observed between at least two genes. An interaction annotation is composed of the interaction type, name of the interactor, assay type (e.g., Two-Hybrid), annotation type (e.g., manual or high-throughput), and a reference, as well as other experimental details. Click "Interaction Details" to view all interaction annotations and evidence for this locus, including an interaction visualization.
173 total interactions for 130 unique genes
Physical Interactions
- Affinity Capture-MS: 91
- Affinity Capture-RNA: 1
- Affinity Capture-Western: 14
- Biochemical Activity: 2
- Co-crystal Structure: 1
- Co-fractionation: 2
- Co-localization: 2
- Co-purification: 3
- PCA: 2
- Proximity Label-MS: 1
- Reconstituted Complex: 3
- Two-hybrid: 4
Genetic Interactions
- Dosage Growth Defect: 1
- Dosage Rescue: 1
- Negative Genetic: 3
- Phenotypic Enhancement: 1
- Phenotypic Suppression: 1
- Synthetic Growth Defect: 23
- Synthetic Lethality: 17
Regulation
The number of putative Regulators (genes that regulate it) and Targets (genes it regulates) for the given locus, based on experimental evidence. This evidence includes data generated through high-throughput techniques. Click "Regulation Details" to view all regulation annotations, shared GO enrichment among regulation Targets, and a regulator/target diagram for the locus.
Expression
Expression data are derived from records contained in the Gene Expression Omnibus (GEO), and are first log2 transformed and normalized. Referenced datasets may contain one or more condition(s), and as a result there may be a greater number of conditions than datasets represented in a single clickable histogram bar. The histogram division at 0.0 separates the down-regulated (green) conditions and datasets from those that are up-regulated (red). Click "Expression Details" to view all expression annotations and details for this locus, including a visualization of genes that share a similar expression pattern.
Summary Paragraph
A summary of the locus, written by SGD Biocurators following a thorough review of the literature. Links to gene names and curated GO terms are included within the Summary Paragraphs.
Last Updated: 2008-06-20
Literature
All manually curated literature for the specified gene, organized into topics according to their relevance to the gene (Primary Literature, Additional Literature, or Review). Click "Literature Details" to view all literature information for this locus, including shared literature between genes.