UBP6 / YFR010W Overview
- Standard Name
- UBP6 1
- Systematic Name
- YFR010W
- SGD ID
- SGD:S000001906
- Feature Type
- ORF , Verified
- Description
- Ubiquitin-specific protease; situated in the base subcomplex of the 26S proteasome, releases free ubiquitin from branched polyubiquitin chains en bloc, rather than from the distal tip of the chain; negatively regulates degradation of ubiquitinated proteins by the proteasome; works in opposition to Hul5p polyubiquitin elongation activity; mutant has aneuploidy tolerance; human homolog UBP14 complements yeast null mutant 1 2 3 4 5 6 7 8
- Name Description
- UBiquitin-specific Protease 1
- 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.)
- 499
- Mol. Weight (Da)
- 57110.3
- Isoelectric Point
- 7.17
- Median Abundance (molecules/cell)
- 9653 +/- 5741
- Half-life (hr)
- 9.2
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 UBP6 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 deubiquitinase involved in negative regulation of proteasome-mediated protein catabolism; subunit of the regulatory particle that recognizes and unfolds ubiquitinated proteins, and translocates them to the proteasome core complex
View computational annotations
Molecular Function
- Manually Curated
- enables cysteine-type deubiquitinase activity (IMP, IDA)
Biological Process
- Manually Curated
- involved in mitochondria-associated ubiquitin-dependent protein catabolic process (IMP)
- involved in negative regulation of proteasomal protein catabolic process (IMP)
- involved in protein deubiquitination (IGI, IMP)
Cellular Component
- Manually Curated
- part of proteasome complex (IDA)
- part of proteasome regulatory particle (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 mutant exhibits shorter replicative lifespan, increased intracellular glutathione, increased [Psi+] prion formation, sensitivity to canavanine, and excretion of hydrogen sulfide; in large-scale studies, the null mutant shows altered competitive fitness in several different media, altered sensitivity to a variety of chemicals, increased resistance to hyperosmotic stress and K28 killer toxin, and increased sensitivity to acid pH, heat, and oxidative stress; diploid homozygous null mutant requires myo-inositol, accumulates less glycogen and excretes glutathione, and is sensitive to cadmium and lithium ions, tricothecin, and desiccation
Classical Genetics
- null
- chemical compound accumulation: increased
- chemical compound excretion: increased
- metal resistance: decreased
- prion formation: increased
- protein/peptide accumulation: decreased
- protein/peptide accumulation: increased
- protein/peptide distribution: abnormal
- protein/peptide modification: decreased
- protein/peptide modification: increased
- replicative lifespan: decreased
- resistance to chemicals: decreased
- resistance to chemicals: increased
- overexpression
- null
- acid pH resistance: decreased
- auxotrophy
- chemical compound accumulation: decreased
- chemical compound excretion: increased
- competitive fitness: decreased
- competitive fitness: increased
- desiccation resistance: decreased
- endocytosis: decreased
- heat sensitivity: increased
- hyperosmotic stress resistance: increased
- innate thermotolerance: decreased
- killer toxin resistance: increased
- metal resistance: decreased
- metal resistance: increased
- oxidative stress resistance: decreased
- protein activity: increased
- resistance to chemicals: decreased
- resistance to chemicals: increased
- sporulation: decreased
- toxin resistance: decreased
- vacuolar morphology: abnormal
- vegetative growth: abnormal
- viable
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 UBP6 is homologous to human USP14, and has been used to study prion disease
Manually Curated
- prion disease (ISS, IGI)
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.
1212 total interactions for 704 unique genes
Physical Interactions
- Affinity Capture-MS: 178
- Affinity Capture-RNA: 2
- Affinity Capture-Western: 12
- Biochemical Activity: 12
- Co-crystal Structure: 2
- Co-localization: 1
- Co-purification: 6
- Far Western: 1
- PCA: 4
- Proximity Label-MS: 1
- Reconstituted Complex: 10
- Two-hybrid: 1
Genetic Interactions
- Dosage Growth Defect: 2
- Dosage Lethality: 1
- Dosage Rescue: 3
- Negative Genetic: 751
- Phenotypic Enhancement: 9
- Phenotypic Suppression: 5
- Positive Genetic: 119
- Synthetic Growth Defect: 47
- Synthetic Lethality: 27
- Synthetic Rescue: 18
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.
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.