UBP3 / YER151C Overview

Standard Name
UBP3 1
Systematic Name
BLM3 17
Feature Type
ORF , Verified
Ubiquitin-specific protease that cleaves Ub-protein fusions; interacts with cofactor Bre5p to regulate transport between ER and Golgi, deubiquitinating COPII and COPI proteins, Sec23p and Sec27p; mediates steady-state retention of Golgi membrane proteins with Bre5p; phosphorylation (S695) by Hog1p regulates transcriptional activation by osmostress; inhibits Ras/PKA signaling through Ira2p; inhibits silencing; role in ribophagy; protein abundance increases in response to DNA replication stress 1 2 3 4 5 6 7 8 9 10
Name Description
UBiquitin-specific Protease 1
Comparative Info
Sequence Details


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.

Protein Details


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.

Protein abundance increases in response to DNA replication stress
Length (a.a.)
Mol. Weight (Da)
Isoelectric Point
Median Abundance (molecules/cell)
6584 +/- 2579
Half-life (hr)


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. Click "YeastMine" to view all alleles in YeastMine.

View all UBP3 alleles in SGD search | YeastMine

Gene Ontology Details

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.

A thiol-dependent ubiquitin-specific protease that is a component of the Ubp3-Bre5 deubiquitination complex; binds mRNA and regulates the osmotic stress response and ER to Golgi vesicle-mediated transport; also involved in ribophagy; localized to the cytoplasm

View computational annotations

Molecular Function

Manually Curated

Cellular Component

Manually Curated


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 Details


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.

Non-essential gene; null mutants grow slowly, have large cell size, are defective in vacuolar fragmentation, impaired in use of various nitrogen sources, resistant to DNA-damaging agent methyl methanesulfonate, and senstive to heat, anoxia, desiccation, caffeine, metals, butanol, various antibiotics including TOR inhibitor rapamycin, DNA topoisomerase inhibitor camptothecin, DNA synthesis inhibitor hydroxyurea, and protein synthesis inbibitor cycloheximide; ; overexpression enhances pseudohyphal growth in Sigma1278b, slows growth in S288C
Interaction Details


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.

2020 total interactions for 1198 unique genes

Physical Interactions

  • Affinity Capture-MS: 537
  • Affinity Capture-RNA: 8
  • Affinity Capture-Western: 32
  • Biochemical Activity: 13
  • Co-crystal Structure: 1
  • Co-fractionation: 1
  • Co-localization: 1
  • Co-purification: 7
  • Proximity Label-MS: 3
  • Reconstituted Complex: 5
  • Two-hybrid: 9

Genetic Interactions

  • Dosage Growth Defect: 1
  • Dosage Rescue: 13
  • Negative Genetic: 1088
  • Phenotypic Enhancement: 13
  • Phenotypic Suppression: 20
  • Positive Genetic: 153
  • Synthetic Growth Defect: 89
  • Synthetic Lethality: 14
  • Synthetic Rescue: 12
Regulation Details


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 Details


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: 2006-02-15

Literature Details


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.