TUP1 / YCR084C Overview
- Standard Name
- TUP1 1
- Systematic Name
- YCR084C
- SGD ID
- SGD:S000000680
- Aliases
- AAR1 35 , AER2 36 , AMM1 37 , CRT4 38 , CYC9 39 40 , FLK1 41 , ROX4 , SFL2 42 , UMR7 40
- Feature Type
- ORF , Verified
- Description
- Transcriptional regulator; functions primarily as a transcriptional co-repressor with Cyc8p but can also function as a co-activator, recruiting SWI/SNF and SAGA complexes to promoters; target genes may be uniquely repressed by Tup1p or Cyc8p, subject to redundant repression, or in some cases de-repression of target genes in a tup1 mutant is dependent upon CYC8 and vice versa; establishes a repressive chromatin structure via histone H3/H4 interactions and stabilizing nucleosomes over promoters 2 3 4 5 6 7 8 9 10 11
- Name Description
- dTMP-UPtake 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.
- Summary
- Tup1p is 713 amino acids long, shorter lived, of moderate abundance; contains several WD40 repeats; succinylated on K39, acetylated on 2 lysines, ubiquitinylated on 4 lysines, sumoylated on 8 lysines, phosphorylated on 26 residues
- Length (a.a.)
- 713
- Mol. Weight (Da)
- 78292.5
- Isoelectric Point
- 5.4
- Median Abundance (molecules/cell)
- 9774 +/- 3380
- Half-life (hr)
- 8.6
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 TUP1 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
- General transcription repressor that binds histones and is involved in nucleosome positioning; forms repressor complex with Cyc8p
View computational annotations
Molecular Function
- Manually Curated
- enables histone binding (IDA)
- enables histone deacetylase binding (IDA, IPI)
- enables mediator complex binding (IDA, IPI)
- enables phosphatidylinositol-3,5-bisphosphate binding (IDA)
- enables transcription corepressor activity (IMP, IDA)
Biological Process
- Manually Curated
- involved in DNA damage response (IMP)
- involved in mitotic cell cycle (IMP)
- involved in negative regulation of dipeptide transport (IMP)
- involved in negative regulation of transcription by RNA polymerase II (IMP)
- involved in positive regulation of transcription by RNA polymerase II (IMP)
- involved in regulation of fatty acid biosynthetic process (IMP)
- involved in regulation of transcription by RNA polymerase II (IMP)
Cellular Component
- Manually Curated
- located in nucleus (IDA)
- part of transcription repressor 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 grows slowly, cannot respire, has decreased fitness, shortened lifespan, and is sensitive to heat, various antibiotics, antimalarial quinine; homozygous diploid null has rounded cells, abnormal budding pattern, cannot sporulate
Classical Genetics
- null
- cellular morphology: abnormal
- fermentative growth: increased rate
- flocculation: increased
- growth in exponential phase: decreased rate
- metal resistance: decreased
- metal resistance: increased
- mitochondrial rho- mutation frequency: decreased
- nuclear morphology: abnormal
- oxidative stress resistance: decreased
- oxidative stress resistance: increased
- protein/peptide distribution: abnormal
- protein/peptide modification: increased
- replicative lifespan: decreased
- resistance to chemicals: decreased
- resistance to chemicals: increased
- RNA accumulation: increased
- sporulation: absent
- dominant negative
- reduction of function
- null
- budding pattern: abnormal
- cell cycle progression in G1 phase: delayed
- cell shape: abnormal
- chemical compound accumulation: decreased
- chemical compound accumulation: increased
- chronological lifespan: decreased
- competitive fitness: decreased
- haploinsufficient
- heat sensitivity: increased
- killer toxin resistance: increased
- oxidative stress resistance: decreased
- resistance to chemicals: decreased
- resistance to enzymatic treatment: increased
- respiratory growth: absent
- sporulation: absent
- stress resistance: decreased
- toxin resistance: decreased
- transposable element transposition: decreased
- utilization of nitrogen source: decreased rate
- vegetative growth: decreased rate
- viable
- unspecified
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
- Tup1p interacts physically with proteins involved in transcription; TUP1 interacts genetically with genes involved in transcription
210 total interactions for 134 unique genes
Physical Interactions
- Affinity Capture-MS: 37
- Affinity Capture-RNA: 3
- Affinity Capture-Western: 29
- Co-crystal Structure: 1
- Co-fractionation: 2
- Co-localization: 2
- Co-purification: 1
- PCA: 8
- Protein-peptide: 1
- Proximity Label-MS: 2
- Reconstituted Complex: 40
- Two-hybrid: 40
Genetic Interactions
- Dosage Growth Defect: 1
- Dosage Rescue: 3
- Phenotypic Enhancement: 5
- Phenotypic Suppression: 16
- Positive Genetic: 1
- Synthetic Growth Defect: 6
- Synthetic Lethality: 1
- Synthetic Rescue: 11
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
- Tup1p acts with its partner Cyc8p (also known as Ssn6p) as a corepressor to regulate the expression of multiple genes under a variety of conditions. Tup1p-Cyc8p does not bind to DNA directly but is recruited to specific promoters by DNA binding proteins such as Alpha2p, Mig1p, and Crt1p. Evidence suggests that Tup1p-Cyc8p represses transcription by masking and inhibiting the transcriptional activation domains of the recruiting proteins. Tup1p interacts directly with histones H3 and H4, and mutation of these histones synergistically compromises Tup1p-Cyc8p-mediated repression. Histone hyperacetylation caused by combined mutations in genes encoding the histone deacetylases Rpd3p, Hos1p, and Hos2p abolishes repression by Tup1p-Cyc8p. Regulatory regions bound by Tup1p assume a distinct chromatin architecture including nucleosome-depleted regions, poorly positioned promoter nucleosomes and a larger number and wider distribution of accessible transcription factor binding sites. The Tup1p-Cyc8p corepressor complex is composed of one Cyc8p and four Tup1p subunits.
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.
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: 2005-06-28
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.