VPS4 / YPR173C Overview
- Standard Name
- VPS4 1 2
- Systematic Name
- YPR173C
- SGD ID
- SGD:S000006377
- Aliases
- VPL4 10 , VPT10 1 , DID6 11 , CSC1 12 , END13 13 14 , GRD13 15
- Feature Type
- ORF , Verified
- Description
- AAA-ATPase involved in multivesicular body (MVB) protein sorting; ATP-bound Vps4p localizes to endosomes and catalyzes ESCRT-III disassembly and membrane release; ATPase activity is activated by Vta1p; regulates cellular sterol metabolism 3 4 5 6 7 8 9
- 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.)
- 437
- Mol. Weight (Da)
- 48160.7
- Isoelectric Point
- 4.85
- Median Abundance (molecules/cell)
- 4959 +/- 2052
- Half-life (hr)
- 7.0
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 VPS4 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
- ATPase with homodimerization activity; involved in late endosome to vacuole transport via the multivesicular body sorting pathway, intralumenal vesicle formation, macroautophagy, sterol metabolism, and protein retention in the Golgi apparatus; localizes to the endosome and membrane
View computational annotations
Molecular Function
- Manually Curated
- enables ATP binding (IDA, IMP)
- enables ATP hydrolysis activity (IMP, IDA)
Biological Process
- Manually Curated
- involved in intralumenal vesicle formation (IMP)
- involved in late endosome to vacuole transport (IMP)
- involved in late endosome to vacuole transport via multivesicular body sorting pathway (IMP)
- involved in macroautophagy (IMP)
- involved in protein retention in Golgi apparatus (IMP)
- involved in reticulophagy (IDA)
- involved in sterol metabolic process (IGI, IMP)
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.
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 displays defective trafficking of MVB cargo proteins, missorting cargo to the limiting vacuolar membrane and class E compartment rather than the vacuolar lumen; null mutant has decreased endocytosis, secretion defects and abnormal vacuolar morphology; null mutant also displays decreased acid pH resistance, decreased autophagy and starvation resistance while a gain-of-function mutant induces autophagy in rich medium; overexpression results in increased invasive filamentation while a null mutant is unable to undergo invasive growth; diploid null mutants have a severe sporulation defect
Classical Genetics
- null
- autophagy: decreased
- endocytosis: decreased
- heat sensitivity: increased
- metal resistance: decreased
- metal resistance: increased
- protein secretion: absent
- protein/peptide accumulation: increased
- protein/peptide distribution: abnormal
- protein/peptide modification: abnormal
- protein/peptide modification: absent
- replicative lifespan: decreased
- resistance to chemicals: absent
- resistance to chemicals: decreased
- resistance to chemicals: increased
- starvation resistance: decreased
- subcellular morphology: abnormal
- vacuolar morphology: abnormal
- vacuolar transport: abnormal
- vacuolar transport: absent
- vacuolar transport: decreased
- viability: decreased
- overexpression
- reduction of function
- gain of function
- dominant negative
- conditional
- null
- acid pH resistance: decreased
- autophagy: decreased
- auxotrophy
- chemical compound accumulation: decreased
- chemical compound accumulation: increased
- chemical compound excretion: increased
- chronological lifespan: decreased
- competitive fitness: decreased
- desiccation resistance: decreased
- endocytosis: decreased
- filamentous growth: decreased
- haploinsufficient
- heat sensitivity: increased
- innate thermotolerance: decreased
- invasive growth: absent
- lipid particle morphology: abnormal
- metal resistance: decreased
- metal resistance: increased
- oxidative stress resistance: decreased
- protein/peptide distribution: abnormal
- resistance to chemicals: decreased
- resistance to chemicals: increased
- respiratory growth: decreased rate
- reticulophagy: decreased
- sporulation efficiency: decreased
- sporulation: absent
- sporulation: decreased
- toxin resistance: decreased
- transposable element transposition: decreased
- utilization of carbon source: decreased
- vacuolar morphology: abnormal
- vegetative growth: decreased
- vegetative growth: decreased rate
- viable
- overexpression
- unspecified
- activation
Large-scale Survey
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.
982 total interactions for 675 unique genes
Physical Interactions
- Affinity Capture-MS: 28
- Affinity Capture-RNA: 4
- Affinity Capture-Western: 16
- Co-crystal Structure: 12
- Co-localization: 4
- Co-purification: 4
- Far Western: 2
- PCA: 3
- Protein-peptide: 1
- Reconstituted Complex: 33
- Two-hybrid: 28
Genetic Interactions
- Dosage Growth Defect: 1
- Dosage Lethality: 2
- Dosage Rescue: 3
- Negative Genetic: 575
- Phenotypic Enhancement: 16
- Phenotypic Suppression: 17
- Positive Genetic: 71
- Synthetic Growth Defect: 34
- Synthetic Lethality: 114
- Synthetic Rescue: 14
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.
- Regulators
- 2
- Targets
- 0
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.
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.