DOA4 / YDR069C Overview
- Standard Name
- DOA4 1
- Systematic Name
- YDR069C
- SGD ID
- SGD:S000002476
- Aliases
- DOS1 3 , MUT4 7 , NPI2 8 9 , SSV7 10 , UBP4 11
- Feature Type
- ORF , Verified
- Description
- Ubiquitin hydrolase; deubiquitinates intralumenal vesicle (ILVs) cargo proteins; required for recycling ubiquitin from proteasome-bound ubiquitinated intermediates, acts at the late endosome/prevacuolar compartment to recover ubiquitin from ubiquitinated membrane proteins destined for the vacuole; DOA4 has a paralog, UBP5, that arose from the whole genome duplication 2 3 4 5 6
- Name Description
- Degradation Of Alpha 1
- Paralog
- UBP5 5
- 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.
- Summary
- DOA4 has a paralog, UBP5, that arose from the whole genome duplication
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.)
- 926
- Mol. Weight (Da)
- 105200.9
- Isoelectric Point
- 8.27
- Median Abundance (molecules/cell)
- 1408 +/- 866
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 DOA4 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
- Thiol-dependent ubiquitin-specific protease involved in ubiquitin homeostasis, free ubiquitin chain depolymerization, and ubiquitin-dependent protein catabolism via the multivesicular body sorting pathway; involved in endocytosis, intraluminal vesicle formation, ATP export, and regulation of DNA replication; localizes to the endosome and associates with the proteasome
View computational annotations
Molecular Function
- Manually Curated
- enables cysteine-type deubiquitinase activity (IDA, IMP)
- enables zinc ion binding (RCA)
Biological Process
- Manually Curated
- involved in ATP export (IMP)
- involved in endocytosis (IMP)
- involved in free ubiquitin chain depolymerization (IDA)
- involved in intralumenal vesicle formation (IGI)
- involved in regulation of DNA replication (IMP)
- involved in ubiquitin recycling (IMP)
- involved in ubiquitin-dependent protein catabolic process (IMP)
- involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway (IMP)
Cellular Component
- Manually Curated
- located in cytosol (HDA)
- located in endosome (IDA)
- located in mitochondrion (HDA)
- part of proteasome complex (IDA)
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 mutation confers increased sensitivity to elevated temperature, oxidative stress, canavanine, sulfometuron; conditional allele causes petite phenotype indicating respiratory deficiency; in systematic studies mutants exhibit increased sensitivity to multiple chemicals, including rapamycin, cycloheximide, tunicamycin, caffeine, Congo Red, ethanol
Classical Genetics
- null
- chemical compound accumulation: increased
- heat sensitivity: increased
- metal resistance: decreased
- metal resistance: increased
- oxidative stress resistance: decreased
- peroxisomal transport: decreased
- protein/peptide accumulation: increased
- protein/peptide modification: increased
- resistance to chemicals: absent
- resistance to chemicals: decreased
- resistance to chemicals: increased
- survival rate in stationary phase: decreased
- telomere length: decreased
- toxin resistance: increased
- utilization of carbon source: absent
- utilization of carbon source: decreased
- vacuolar transport: abnormal
- overexpression
- conditional
- null
- acid pH resistance: decreased
- budding index: increased
- chemical compound accumulation: abnormal
- chemical compound accumulation: decreased
- chemical compound accumulation: increased
- chronological lifespan: decreased
- competitive fitness: decreased
- desiccation resistance: decreased
- endocytosis: decreased
- haploinsufficient
- heat sensitivity: increased
- hyperosmotic stress resistance: decreased
- metal resistance: decreased
- metal resistance: increased
- oxidative stress resistance: decreased
- prion formation: decreased
- protein/peptide accumulation: decreased
- replicative lifespan: decreased
- resistance to chemicals: decreased
- resistance to chemicals: increased
- resistance to chemicals: normal
- respiratory growth: absent
- respiratory growth: decreased rate
- reticulophagy: decreased
- sporulation: absent
- telomere length: decreased
- toxin resistance: decreased
- toxin resistance: increased
- transposable element transposition: decreased
- utilization of iron source: decreased
- utilization of nitrogen source: decreased rate
- vacuolar morphology: abnormal
- vegetative growth: decreased rate
- viable
- overexpression
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.
- Summary
- The doa4 null mutant is viable; the null mutant of paralog ubp5 is viable; the doa4 ubp5 double mutant has not been annotated for phenotype.
380 total interactions for 290 unique genes
Physical Interactions
- Affinity Capture-MS: 16
- Affinity Capture-RNA: 4
- Affinity Capture-Western: 6
- Biochemical Activity: 1
- Co-localization: 1
- Co-purification: 2
- PCA: 9
- Reconstituted Complex: 5
- Two-hybrid: 3
Genetic Interactions
- Dosage Growth Defect: 3
- Dosage Lethality: 3
- Dosage Rescue: 5
- Negative Genetic: 175
- Phenotypic Enhancement: 15
- Phenotypic Suppression: 44
- Positive Genetic: 37
- Synthetic Growth Defect: 10
- Synthetic Lethality: 14
- Synthetic Rescue: 27
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
- 3
- 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.