TDA4 / YJR116W Overview
- Standard Name
- TDA4 1
- Systematic Name
- YJR116W
- SGD ID
- SGD:S000003877
- Feature Type
- ORF , Uncharacterized
- Description
- Protein distantly similar to ceramide synthases, Lag1p and Lac1p; null mutant is sensitive to expression of the top1-T722A allele; mutation confers sensitivity to copper 1 2
- Name Description
- Topoisomerase I Damage Affected 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
- Tda4p is 279 amino acids long, low in abundance; N-glycosylated on Asn4; abundance decreases under nitrogen starvation
- Length (a.a.)
- 279
- Mol. Weight (Da)
- 32024.4
- Isoelectric Point
- 10.15
- Median Abundance (molecules/cell)
- 1840 +/- 49
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 TDA4 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
- Endoplasmic reticulum protein whose biological role is unknown
View computational annotations
Molecular Function
- Manually Curated
- enables molecular function unknown (ND)
Biological Process
- Manually Curated
- involved in biological process unknown (ND)
Cellular Component
- Manually Curated
- located in endoplasmic reticulum (HDA)
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; overexpression increases invasive growth, slows vegetative growth; null uses glucose slowly, has small nucleolus, is resistant to miconazole, shows defects in endocytosis, accumulates astaxanthin
Classical Genetics
- null
- 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
- Tda4p interacts physically with proteins involved in protein modification, mitotic cell cycle, and RNA catabolism; TDA4 interacts genetically with genes involved in mitotic cell cycle and mitochondrion organization
44 total interactions for 43 unique genes
Physical Interactions
- Affinity Capture-MS: 2
- Affinity Capture-RNA: 3
- Co-localization: 1
Genetic Interactions
- Dosage Lethality: 2
- Negative Genetic: 27
- Positive Genetic: 3
- Synthetic Growth Defect: 3
- Synthetic Rescue: 3
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.
- Regulators
- 5
- 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.
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.