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 Details

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.


Summary
TDA4 is located on the right arm of chromosome X between uncharacterized gene YJR115W and STE24 zinc metalloprotease; coding sequence is 840 nucleotides long with 8 SNPs, 2 of which lead to amino acid polymorphisms
Protein Details

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. Click "YeastMine" to view all alleles in YeastMine.


View all TDA4 alleles in SGD search | YeastMine

Gene Ontology Details

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

Biological Process

Manually Curated

Cellular Component

High-Throughput
Phenotype Details

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
Interaction Details

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 Details

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
TDA4 promoter is bound by Med2p and Paf1p in response to heat; TDA4 transcription is regulated by Sfp1p in response to stress, and downregulated by Nab3p
Regulators
5
Targets
0
Expression Details

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 Details

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.


Primary
4
Additional
3
Reviews
0

Resources