SPT3 / YDR392W Overview


Standard Name
SPT3 1
Systematic Name
YDR392W
SGD ID
SGD:S000002800
Feature Type
ORF , Verified
Description
Subunit of the SAGA and SAGA-like transcriptional regulatory complexes; interacts with Spt15p to activate transcription of some RNA polymerase II-dependent genes, also functions to inhibit transcription at some promoters; role in preventing L-A mycovirus pathogenesis; relocalizes to the cytosol in response to hypoxia 2 3 4 5 6
Name Description
SuPpressor of Ty's 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.


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
Subunit of the SAGA and SAGA-like transcriptional regulatory complexes; relocalizes to the cytosol in response to hypoxia
Length (a.a.)
337
Mol. Weight (Da)
38801.6
Isoelectric Point
8.25
Median Abundance (molecules/cell)
1593 +/- 576
Half-life (hr)
8.4

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 SPT3 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
Transcription cofactor subunit of SAGA and SLIK histone acetyltransferase complexes; involved in chromatin modification and regulates transcription by RNA polymerase II related to invasive growth in response to glucose limitation

View computational annotations

Molecular Function

Manually Curated

Biological Process

Manually Curated

Cellular Component

Manually Curated

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 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; null mutants grow slowly, have abnormal vacuolar morphology, decreased ethanol tolerance, decreased transposition, small cell size, are sensitive to heat and dessication, and auxotrophic for myo-inositol; homozygous diploid nulls are defective in sporulation
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.


952 total interactions for 519 unique genes

Physical Interactions

  • Affinity Capture-MS: 115
  • Affinity Capture-RNA: 4
  • Affinity Capture-Western: 39
  • Co-fractionation: 6
  • Co-localization: 3
  • Co-purification: 30
  • PCA: 2
  • Reconstituted Complex: 8

Genetic Interactions

  • Dosage Lethality: 1
  • Dosage Rescue: 3
  • Negative Genetic: 481
  • Phenotypic Enhancement: 13
  • Phenotypic Suppression: 4
  • Positive Genetic: 91
  • Synthetic Growth Defect: 74
  • Synthetic Lethality: 58
  • Synthetic Rescue: 20
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
SPT3 encodes a subunit of SAGA, a multi-subunit complex that either activates or inhibits transcription of some RNA polymerase II-dependent genes. In its role as an activator, Spt3p interacts with the TATA-binding protein (TBP), encoded by SPT15, and has been shown to be required for recruitment of TBP to the SAGA-dependent promoters GAL1, VTC3, BDF2, PHO84, and ADH1. Studies of activation at the GAL1 promoter indicate that the activator protein Gal4p recruits SAGA to the upstream activation sequence (UAS), and that SAGA subsequently recruits TBP via Spt3p and Spt20p. During SAGA-mediated transcriptional inhibition, which has been demonstrated at the HIS3 and TRP3 promoters, Spt3p and Spt8p prevent TBP binding to the TATA box which presumably inhibits transcription.
Regulators
3
Targets
523
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.


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: 2003-04-04

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
103
Additional
122
Reviews
55

Resources