CBF1 / YJR060W Overview
- Standard Name
- CBF1 1
- Systematic Name
- YJR060W
- SGD ID
- SGD:S000003821
- Aliases
- CP1 11 12 13 , CEP1 14 , CPF1 15 , GFII 16
- Feature Type
- ORF , Verified
- Description
- Basic helix-loop-helix (bHLH) protein; forms homodimer to bind E-box consensus sequence CACGTG present at MET gene promoters and centromere DNA element I (CDEI); affects nucleosome positioning at this motif; associates with other transcription factors such as Met4p and Isw1p to mediate transcriptional activation or repression; associates with kinetochore proteins, required for chromosome segregation; protein abundance increases in response to DNA replication stress 1 2 3 4 6 7 8 9 10
- Name Description
- Centromere Binding Factor 1 5
- 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
- Cbf1p is 351 amino acids long, shorter-lived, low in abundance; contains basic helix-loop-helix (bHLH), predicted to be mostly disordered; acetylated on K280, ubiquitinylated on K271, sumoylated on 7 lysines, phosphorylated on 31 residues; forms homodimer to bind E-box consensus sequence CACGTG present at MET gene promoters and centromere DNA element I (CDEI); protein abundance increases in response to DNA replication stress
- Length (a.a.)
- 351
- Mol. Weight (Da)
- 39366.1
- Isoelectric Point
- 4.67
- Median Abundance (molecules/cell)
- 5757 +/- 2714
- 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 CBF1 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 RNA polymerase II transcription activator and repressor; subunit of the Cbf1-Met4-Met28 complex; activates transcription of genes involved in inositol biosynthetic process and sulfate assimilation and represses transcription of genes involved in ceramide biosynthetic process; localized to the mitochondrion in high-throughput studies
View computational annotations
Molecular Function
- Manually Curated
- enables centromeric DNA binding (IDA)
- enables DNA-binding transcription activator activity, RNA polymerase II-specific (IDA)
- enables DNA-binding transcription repressor activity, RNA polymerase II-specific (IDA)
- enables RNA polymerase II cis-regulatory region sequence-specific DNA binding (IDA)
- enables RNA polymerase II-specific DNA-binding transcription factor binding (IPI, IDA, IMP)
Biological Process
- Manually Curated
- involved in cellular response to methionine (IMP)
- involved in chromatin remodeling (IDA, IMP)
- involved in chromosome segregation (IGI, IMP)
- involved in negative regulation of ceramide biosynthetic process (IMP)
- involved in negative regulation of transcription by RNA polymerase II (IMP)
- involved in positive regulation of inositol biosynthetic process (IMP)
- involved in positive regulation of sulfate assimilation (IMP)
- involved in positive regulation of transcription by RNA polymerase II (IMP)
- involved in regulation of transcription by RNA polymerase II (IMP)
Cellular Component
- Manually Curated
- part of Cbf1-Met4-Met28 complex (IDA)
- located in chromosome, centromeric region (IDA)
- located in kinetochore (IPI)
- located in mitochondrion (HDA)
- located in nucleus (HDA)
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, has abnormal vacuolar morphology, impaired fitness, cannot utilize allantoin as a nitrogen source, shows decreased Ty1 mobility, is sensitive to various antibiotics, auxotrophic for methionine, heat-resistant, and accumulates glycogen; overexpression causes abnormal nuclear morphology, accumulation of cells with 2C DNA content, increased percentage of large-budded cells, and increases resistance to TOR inhibitor rapamycin
Classical Genetics
- null
- chemical compound accumulation: increased
- chronological lifespan: decreased
- competitive fitness: decreased
- haploproficient
- heat sensitivity: decreased
- innate thermotolerance: increased
- oxidative stress resistance: decreased
- oxidative stress resistance: increased
- resistance to chemicals: decreased
- resistance to chemicals: increased
- respiratory growth: absent
- toxin resistance: decreased
- transposable element transposition: decreased
- utilization of nitrogen source: absent
- vacuolar morphology: abnormal
- vegetative growth: decreased
- vegetative growth: decreased rate
- viable
- overexpression
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
- Cbf1p interacts physically with proteins involved in transcription; CBF1 interacts genetically with genes involved in transcription
753 total interactions for 562 unique genes
Physical Interactions
- Affinity Capture-MS: 11
- Affinity Capture-RNA: 6
- Affinity Capture-Western: 2
- Biochemical Activity: 2
- Co-localization: 3
- Co-purification: 3
- Cross-Linking-MS (XL-MS): 1
- FRET: 2
- PCA: 5
- Proximity Label-MS: 2
- Reconstituted Complex: 12
- Two-hybrid: 5
Genetic Interactions
- Dosage Growth Defect: 1
- Dosage Lethality: 2
- Dosage Rescue: 4
- Negative Genetic: 540
- Phenotypic Enhancement: 4
- Phenotypic Suppression: 1
- Positive Genetic: 93
- Synthetic Growth Defect: 23
- Synthetic Lethality: 21
- Synthetic Rescue: 10
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
- CBF1 encodes a basic helix-loop-helix (bHLH) transcription factor involved in the regulation of sulfur metabolism. To promote transcription, Cbf1p forms a regulatory complex with Met4p and Met28p, recruiting Met4p, which does not bind DNA and is the sole transcriptional activator of sulfur metabolism genes, to target promoters. A subset of the Met4 regulon is strictly dependent on Cbf1p and Met28p in low-sulfur conditions. Cbf1p binds as a homodimer to an E-box site with a consensus KCACRTGA core. Recruitment of Met4p also requires a Met4 recruitment motif (RYAAT) upstream and separated from the E-box sequence by a 2-bp spacer. Cbf1p binding is not affected by the presence of the recruitment motif, but selective binding to the composite DNA binding site occurs only with the full trimeric Met4p-Met28p-Cbf1p complex. The non-DNA-binding cofactors Met4p and Met28p synergistically direct their own recruitment to specific DNA sites, discriminating between Cbf1p bound at different sites. This is crucial because Cbf1p is also a constitutive centromere protein that binds the CDEI (8-11 bp consensus sequence Centromere DNA Element I) present in all S. cerevisiae centromeres. A certain level of active transcription regulated by Cbf1p and Ste12p makes a direct contribution to centromere function, and is required for the production of centromeric transcripts. Ste12p and Dig1p regulate Cbf1 activity, and loss of any of these three proteins results in chromosomal instability.
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: 2025-02-05
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.