SWI4 / YER111C Overview
- Standard Name
- SWI4 1
- Systematic Name
- YER111C
- SGD ID
- SGD:S000000913
- Aliases
- ART1
- Feature Type
- ORF , Verified
- Description
- DNA binding component of the SBF complex (Swi4p-Swi6p); a transcriptional activator that in concert with MBF (Mbp1-Swi6p) regulates late G1-specific transcription of targets including cyclins and genes required for DNA synthesis and repair; Slt2p-independent regulator of cold growth; acetylation at two sites, K1016 and K1066, regulates interaction with Swi6p 2 3 4 5 6 7 8 9 10
- Name Description
- SWItching deficient 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.)
- 1093
- Mol. Weight (Da)
- 123820.0
- Isoelectric Point
- 9.2
- Median Abundance (molecules/cell)
- 1278 +/- 335
- Half-life (hr)
- 5.7
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 SWI4 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
- Sequence-specific DNA binding transcription factor that activates transcription by RNA polymerase II during heat stress and during the G1/S mitotic transition; component of the SBF complex
View computational annotations
Molecular Function
- Manually Curated
Biological Process
- Manually Curated
- involved in cellular response to heat (IMP)
- involved in G1/S transition of mitotic cell cycle (IMP)
- involved in positive regulation of transcription by RNA polymerase II (IMP)
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 has large cells, abnormal cell walls, and is sensitive to DNA damage, antifungals, alcohols, cold; homozygous diploid null shows a G2/M phase transition delay, and is impaired in sporulation; overexpression slows growth, interferes with silencing and budding
Classical Genetics
- overexpression
- null
- budding: decreased
- cell cycle progression through the G2/M phase transition: arrested
- cellular morphology: abnormal
- chemical compound accumulation: decreased
- chemical compound accumulation: increased
- cold sensitivity: increased
- heat sensitivity: increased
- hydrostatic pressure resistance: decreased
- inviable
- metal resistance: decreased
- protein/peptide accumulation: increased
- resistance to chemicals: decreased
- resistance to chemicals: increased
- RNA accumulation: decreased
- RNA accumulation: delayed
- vegetative growth: decreased rate
- unspecified
- null
- alkaline pH resistance: decreased
- cell cycle progression through the G2/M phase transition: delayed
- cell size: increased
- chemical compound accumulation: decreased
- chitin deposition: normal
- chronological lifespan: increased
- competitive fitness: decreased
- heat sensitivity: increased
- lipid particle morphology: abnormal
- metal resistance: decreased
- protein/peptide accumulation: decreased
- protein/peptide accumulation: increased
- replicative lifespan: decreased
- resistance to chemicals: decreased
- resistance to chemicals: increased
- sporulation efficiency: decreased
- stress resistance: decreased
- toxin resistance: decreased
- utilization of iron source: decreased
- utilization of nitrogen source: decreased rate
- UV resistance: decreased
- viable
- overexpression
- reduction of function
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.
1341 total interactions for 666 unique genes
Physical Interactions
- Affinity Capture-MS: 23
- Affinity Capture-RNA: 7
- Affinity Capture-Western: 32
- Biochemical Activity: 2
- Co-localization: 2
- Co-purification: 1
- PCA: 2
- Proximity Label-MS: 3
- Reconstituted Complex: 9
- Two-hybrid: 2
Genetic Interactions
- Dosage Lethality: 5
- Dosage Rescue: 34
- Negative Genetic: 878
- Phenotypic Enhancement: 29
- Phenotypic Suppression: 20
- Positive Genetic: 129
- Synthetic Growth Defect: 64
- Synthetic Lethality: 87
- 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.
- Summary
- SWI4 encodes a transcription factor of the Ig-fold superfamily, which contacts DNA using a series of flexible loops. As part of the SBF complex (Swi4p/Swi6p cell-cycle box (SCB) binding factor), Swi4p binds and activates G1/S genes with SCB-containing promoters, including G1 cyclins (CLN1, CLN2, PCL1, PCL2) and the HO endonuclease. Swi4p recognizes sequences of the form 5'-ACGCGAAA-3'. Swi4p binding DNA requires association with Swi6p, and is restricted to late M and G1, when Swi6p is located in the nucleus. Free Swi4p is subject to intramolecular interactions that physically prevent DNA binding. Association with Swi6p induces conformational changes in Swi4p which alleviate this inhibition, allowing Swi4p to bind DNA. SWI4 transcription is activated in late M/early G1 phase by an early cell cycle box (ECB), and the SWI4 promoter also contains binding sites for the SBF and MBF (Mbp1p/Swi6p cell-cycle box (MCB) binding factor) complexes, which confer late G1-specific transcription. This promoter structure ensures that Swi4p activity persists throughout G1, enabling sufficient quantities of its targets to be expressed to promote the transition to S phase.
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: 2024-11-12
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.