VMA3 / YEL027W Overview
- Standard Name
- VMA3 1 2
- Systematic Name
- YEL027W
- SGD ID
- SGD:S000000753
- Aliases
- CUP5 11 , CLS7 12 , GEF2
- Feature Type
- ORF , Verified
- Description
- Proteolipid subunit c of the V0 domain of vacuolar H(+)-ATPase; dicyclohexylcarbodiimide binding subunit; required for vacuolar acidification and important for copper and iron metal ion homeostasis 3 4
- Name Description
- Vacuolar Membrane Atpase
- 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.)
- 160
- Mol. Weight (Da)
- 16352.8
- Isoelectric Point
- 8.1
- Median Abundance (molecules/cell)
- 5416 +/- 2701
- Half-life (hr)
- >= 100
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 VMA3 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
- Subunit of vacuolar proton-transporting V-type ATPase involved in endocytosis, vacuolar protein targeting, vacuole acidification, and metal ion homeostasis
View computational annotations
Molecular Function
- Manually Curated
- enables proton transmembrane transporter activity (TAS)
Biological Process
- Manually Curated
- involved in endocytosis (IMP)
- involved in intracellular copper ion homeostasis (IMP)
- involved in intracellular iron ion homeostasis (IMP)
- involved in protein targeting to vacuole (IMP)
- involved in vacuolar acidification (IMP)
- involved in vacuole organization (IMP)
Cellular Component
- Manually Curated
- located in membrane (IDA)
- part of vacuolar proton-transporting V-type ATPase, V0 domain (TAS)
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
- VMA3/YEL027W is a non-essential gene; null mutants are viable but exhibit a range of phenotypic changes including altered chemical compound accumulation, decreased metal resistance, decreased oxidative stress resistance, increased protein/peptide accumulation, abnormal protein/peptide distribution, decreased resistance to chemicals, absent respiratory growth, decreased small molecule transport, decreased vegetative growth rate, decreased alkaline pH resistance, auxotrophy, abnormal budding pattern, increased duration of cell cycle progression in the G1 phase, abnormal cell shape, decreased chronological lifespan, decreased competitive fitness, decreased desiccation resistance, decreased freeze-thaw resistance, increased heat sensitivity, decreased hyperosmotic stress resistance, abnormal mitochondrial morphology, increased mitophagy, decreased protein/peptide modification, decreased resistance to enzymatic treatment, altered toxin resistance, decreased utilization rates of carbon and iron sources, and decreased vegetative growth. Overexpression of VMA3 results in decreased vegetative growth.
Classical Genetics
- null
- chemical compound accumulation: decreased
- chemical compound accumulation: increased
- metal resistance: decreased
- oxidative stress resistance: decreased
- protein/peptide accumulation: increased
- protein/peptide distribution: abnormal
- resistance to chemicals: decreased
- respiratory growth: absent
- small molecule transport: decreased
- vegetative growth: decreased rate
- overexpression
- unspecified
- null
- alkaline pH resistance: decreased
- auxotrophy
- budding pattern: abnormal
- cell cycle progression in G1 phase: increased duration
- cell shape: abnormal
- chemical compound accumulation: abnormal
- chemical compound accumulation: decreased
- chemical compound accumulation: increased
- chronological lifespan: decreased
- competitive fitness: decreased
- desiccation resistance: decreased
- freeze-thaw resistance: decreased
- heat sensitivity: increased
- hyperosmotic stress resistance: decreased
- metal resistance: decreased
- mitochondrial morphology: abnormal
- mitophagy: increased
- oxidative stress resistance: decreased
- protein/peptide accumulation: decreased
- protein/peptide modification: decreased
- resistance to chemicals: absent
- resistance to chemicals: decreased
- resistance to enzymatic treatment: decreased
- respiratory growth: absent
- respiratory growth: decreased rate
- respiratory growth: increased
- toxin resistance: decreased
- toxin resistance: increased
- utilization of carbon source: decreased
- utilization of iron source: decreased
- 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.
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.
486 total interactions for 397 unique genes
Physical Interactions
- Affinity Capture-MS: 7
- Affinity Capture-RNA: 5
- Affinity Capture-Western: 8
- Co-fractionation: 1
- Co-localization: 1
- Co-purification: 3
- PCA: 14
- Protein-peptide: 1
- Reconstituted Complex: 2
- Two-hybrid: 1
Genetic Interactions
- Dosage Rescue: 1
- Negative Genetic: 265
- Phenotypic Enhancement: 2
- Phenotypic Suppression: 2
- Positive Genetic: 136
- Synthetic Growth Defect: 17
- Synthetic Haploinsufficiency: 11
- Synthetic Lethality: 6
- Synthetic Rescue: 3
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
- 4
- 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.
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: 2000-05-18
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.