ROX3 / YBL093C Overview
- Standard Name
- ROX3 1
- Systematic Name
- YBL093C
- SGD ID
- SGD:S000000189
- Aliases
- MED19 4 , NUT3 5 , SSN7 , SSX2 6 , RMR1 7
- Feature Type
- ORF , Verified
- Description
- Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme 2 3
- Name Description
- Regulation by OXygen 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 | CGD Synteny Browser
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.
- Summary
- Rox3p is 220 amino acids long, low in abundance and short-lived; phosphorylated on 9 residues
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 ROX3 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
- RNA polymerase II transcription factor involved in open complex formation and preinitiation complex assembly; subunit of the core mediator complex
View computational annotations
Molecular Function
- Manually Curated
- enables transcription coactivator activity (IMP)
Biological Process
- Manually Curated
- involved in negative regulation of transcription by RNA polymerase II (IMP)
- involved in positive regulation of transcription by RNA polymerase II (IMP)
- involved in RNA polymerase II preinitiation complex assembly (IMP)
- involved in transcription open complex formation at RNA polymerase II promoter (IMP)
Cellular Component
- Manually Curated
- part of core mediator complex (IDA)
- located in nucleus (IDA)
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 in reference strain S288C; null mutant has broad competitive fitness defects across multiple media, absent respiratory growth, and petite-negative phenotype; increased cell size and abnormal lipid particle morphology; decreased chronological lifespan and telomere length; extensive chemical sensitivity including DNA-damaging agents, protein synthesis inhibitors, ER stress agents, organic acids, and various other compounds but increased resistance to myriocin and 2-deoxy-D-glucose; unable to utilize allantoin as nitrogen source; decreased oxidative stress resistance and heat sensitivity; is haploinsufficient; conditional mutants show nucleolar fragmentation at elevated temperature; increased filamentous growth in Sigma1278b; overexpression causes abnormal silencing in unidentified strains
Classical Genetics
- null
- acid pH resistance: decreased
- anaerobic growth: decreased
- cell size: increased
- chemical compound accumulation: abnormal
- chemical compound accumulation: decreased
- chronological lifespan: decreased
- competitive fitness: decreased
- filamentous growth: increased
- haploinsufficient
- heat sensitivity: increased
- innate thermotolerance: increased
- killer toxin resistance: decreased
- lipid particle morphology: abnormal
- petite-negative
- resistance to chemicals: decreased
- resistance to chemicals: increased
- resistance to enzymatic treatment: decreased
- respiratory growth: absent
- telomere length: decreased
- toxin resistance: decreased
- utilization of carbon source: decreased
- utilization of nitrogen source: absent
- vegetative growth: decreased rate
- viable
- overexpression
- conditional
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
- Rox3p interacts physically with proteins involved in transcription by RNA polymerase II; ROX3 interacts genetically with genes involved in transcription by RNA polymerase II
150 total interactions for 78 unique genes
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.
- Summary
- ROX3 (also called MED19) encodes a component of the head module of the Mediator transcriptional regulation complex. The Mediator complex is highly conserved from yeast to human, and is a central player in the transcriptional regulation of protein-coding genes, being required for nearly all transcription by RNA polymerase II (RNAPII). Mediator bridges activators and the general transcription machinery. The core Mediator complex contains three distinct head, middle, and tail modules. Other subunits of the head module are encoded by MED6, MED8, MED11, SRB2/MED20, SRB4/MED17, SRB5/MED18, and SRB6/MED22. The head module binds weakly to a minimal preinitiation complex (PIC) consisting of RNAPII, general initiation factors TFIIF, TFIIB and TBP, and promoter DNA to stimulate basal transcription. Mediator interacts physically with diverse DNA-binding transactivators to communicate transcription signals to RNAPII and general initiation factors to turn transcription on or off. Mediator also has important functions in post-initiation steps, such as recruiting and coordinating the activities of RNAPII elongation factors.
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.
All Curated Literature
All manually curated literature for the specified gene, shown as a count of references by year of publication followed by the most recent papers. Click "Literature Details" or "See all" to view all literature information for this locus, organized into topics according to their relevance to the gene (Primary Literature, Additional Literature, or Review).
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