UBR1 / YGR184C Overview
- Standard Name
- UBR1 1
- Systematic Name
- YGR184C
- SGD ID
- SGD:S000003416
- Aliases
- PTR1 11
- Feature Type
- ORF , Verified
- Description
- E3 Ub-ligase (N-recognin); recognizes and ubiquitinates N-end rule pathway substrates in complex with Rad6p; Roq1p-bound form accelerates degradation of misfolded and native ER membrane and cytosolic proteins as part of the stress-induced homeostatically regulated protein degradation (SHRED) pathway; role in ER-associated protein degradation; modifies Cup9p to regulate peptide transport; mutation in human UBR1 causes Johansson-Blizzard Syndrome (JBS) 1 2 3 4 5 6 7 8 9 10
- 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.)
- 1950
- Mol. Weight (Da)
- 224775.0
- Isoelectric Point
- 5.22
- Median Abundance (molecules/cell)
- 3840 +/- 848
- Half-life (hr)
- 6.0
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 UBR1 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
- E3 ubiquitin ligase; N-recognin of the UBR1-RAD6 ubiquitin ligase complex involved in the polyubiquitination step of N-end rule mediated substrate catabolism; involved in ER-associated protein degradation (ERAD) and the stress-induced homeostatically regulated protein degradation (SHRED) pathway; involved in ubiquitin-dependent degradation of misfolded cytoplasmic proteins and ribosome associated degradation (RAD) of aberrant nascent polypeptides; localizes to the cytoplasm and interacts with subunits of the 19S proteasome regulatory particle
View computational annotations
Molecular Function
- Manually Curated
- enables proteasome regulatory particle binding (IPI)
- enables ubiquitin-protein transferase activity (IMP)
- enables zinc ion binding (RCA)
Biological Process
- Manually Curated
- involved in cellular response to unfolded protein (IGI, IMP)
- involved in cytoplasm protein quality control by the ubiquitin-proteasome system (IMP, IGI)
- involved in ERAD pathway (IGI, IMP)
- involved in mitochondria-associated ubiquitin-dependent protein catabolic process (IMP)
- involved in protein monoubiquitination (IDA)
- involved in protein polyubiquitination (IMP, IDA)
- involved in regulation of dipeptide transport (IMP)
- involved in ribosome-associated ubiquitin-dependent protein catabolic process (IMP)
- involved in stress-induced homeostatically regulated protein degradation pathway (IMP)
- involved in ubiquitin-dependent protein catabolic process via the N-end rule pathway (IMP)
Cellular Component
- Manually Curated
- located in cytoplasm (IGI, IMP)
- part of proteasome regulatory particle, base subcomplex (IPI)
- part of UBR1-RAD6 ubiquitin ligase complex (IPI)
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 accumulates short-lived substrates of N-end rule based degradation, mis- and unfolded cytosolic quality control pathway substrates, as well as substrates of stress-induced ER-associated protein degradation; null mutant displays chromosomal instability, impaired filamentous and invasive growth, a strong vacuolar fragmentation defect, decreased competitive fitness in various media, and both decreased uptake and increased resistance to specific dipeptides; homozygous diploid null mutant has decreased resistance to gamma rays, and sporulation defects
Classical Genetics
- null
- chromosome/plasmid maintenance: abnormal
- chromosome/plasmid maintenance: decreased
- colony sectoring: increased
- gamma ray resistance: decreased
- growth in exponential phase: decreased rate
- protein/peptide accumulation: abnormal
- protein/peptide accumulation: decreased
- protein/peptide accumulation: increased
- resistance to chemicals: decreased
- resistance to chemicals: increased
- RNA accumulation: decreased
- small molecule transport: decreased
- sporulation: abnormal
- toxin resistance: increased
- overexpression
- null
- chemical compound accumulation: abnormal
- chronological lifespan: decreased
- chronological lifespan: increased
- colony sectoring: increased
- competitive fitness: decreased
- competitive fitness: increased
- filamentous growth: decreased
- gamma ray resistance: decreased
- invasive growth: absent
- metal resistance: decreased
- mutation frequency: increased
- nutrient utilization: decreased
- protein/peptide accumulation: increased
- resistance to chemicals: decreased
- resistance to chemicals: increased
- resistance to enzymatic treatment: decreased
- stress resistance: decreased
- toxin resistance: increased
- vacuolar morphology: 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 UBR1 is homologous to human UBR1, and has been used to study how the N-end rule pathway is involved in neurodegenerative diseases such as Alzheimer's and Parkinson's diseases
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.
422 total interactions for 258 unique genes
Physical Interactions
- Affinity Capture-MS: 25
- Affinity Capture-RNA: 6
- Affinity Capture-Western: 22
- Biochemical Activity: 5
- Co-purification: 1
- PCA: 2
- Protein-peptide: 1
- Reconstituted Complex: 20
- Two-hybrid: 8
Genetic Interactions
- Dosage Growth Defect: 1
- Dosage Lethality: 1
- Dosage Rescue: 1
- Negative Genetic: 208
- Phenotypic Enhancement: 33
- Phenotypic Suppression: 17
- Positive Genetic: 31
- Synthetic Growth Defect: 22
- Synthetic Lethality: 6
- Synthetic Rescue: 12
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.