BDP1 / YNL039W Overview
- Standard Name
- BDP1 1
- Systematic Name
- YNL039W
- SGD ID
- SGD:S000004984
- Aliases
- TFIIIB90 2 , TFC7 13 , B" 2 , TFC5 14
- Feature Type
- ORF , Verified
- Description
- Essential subunit of RNA polymerase III transcription factor (TFIIIB); TFIIIB is involved in transcription of genes encoding tRNAs, 5S rRNA, U6 snRNA, and other small RNAs 1
- Name Description
- B Double Prime 2
- 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.)
- 594
- Mol. Weight (Da)
- 67685.7
- Isoelectric Point
- 6.93
- Median Abundance (molecules/cell)
- 2215 +/- 472
- Half-life (hr)
- 4.7
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 BDP1 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 III recruiting transcription factor involved in preinitiation complex assembly, open complex formation, and activation of transposon integration; subunit of the TFIIIB transcription factor complex
View computational annotations
Molecular Function
- Manually Curated
Biological Process
- Manually Curated
- involved in DNA-templated transcription open complex formation (IMP)
- involved in RNA polymerase III preinitiation complex assembly (IDA, IMP)
Cellular Component
- Manually Curated
- part of transcription factor TFIIIB complex (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
- Essential gene; conditional alleles confer sensitivity to heat and cold; heterozygous diploid null is haploinsufficient and has decreased ethanol tolerance
Classical Genetics
- null
- reduction of function
- 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.
105 total interactions for 63 unique genes
Physical Interactions
- Affinity Capture-MS: 29
- Affinity Capture-RNA: 2
- Affinity Capture-Western: 14
- Biochemical Activity: 1
- Far Western: 1
- Proximity Label-MS: 1
- Reconstituted Complex: 8
- Two-hybrid: 2
Genetic Interactions
- Dosage Lethality: 3
- Dosage Rescue: 8
- Negative Genetic: 33
- Phenotypic Enhancement: 1
- Phenotypic Suppression: 1
- Synthetic Lethality: 1
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
- BDP1 encodes a subunit of the TFIIIB complex, which is an initiation factor for RNA polymerase III (Pol III). Pol III is responsible for high-level transcription of tRNAs, most small nuclear RNAs, and 5S rRNA. Two other subunits of TFIIIB are TATA-binding protein (TBD), encoded by SPT15, and Brf1p. The recruitment of TFIIIB to DNA upstream of the transcription initiation sites depends on another Pol III initiation factor, TFIIIC, which recognizes and binds intragenic Pol III promoters. The assembled TFIIIB-DNA complex distorts DNA over the start site and recruits Pol III, as a result facilitating transcription initiation as well as multiple rounds of re-initiation at the promoter. Transcription by Pol III is negatively regulated by Maf1p, which under growth-limiting conditions becomes dephosphorylated in the cytoplasm, translocates to the nucleus and binds to the TFIIIB complex, preventing Pol III transcription.
- Regulators
- 2
- Targets
- 0
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: 2010-02-26
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.