PGD1 / YGL025C Overview
- Standard Name
- PGD1 1
- Systematic Name
- YGL025C
- SGD ID
- SGD:S000002993
- Aliases
- HRS1 7 , MED3 2
- Feature Type
- ORF , Verified
- Description
- Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for basal and activated transcription; direct target of Cyc8p-Tup1p transcriptional corepressor 2 3 4 5 6
- Name Description
- PolyGlutamine Domain 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.
- Summary
- PGD1/YGL025C is located on the left arm of chromosome VII near the centromere between TRP5 tryptophan synthase and PIB2; coding sequence is 1194 nucleotides long with 15 SNPs and two variable repeat regions, one near the middle of the gene and the other near the end
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 | CGD Synteny Browser
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
- Pgd1p is 397 amino acids long, shorter-lived, low in abundance; contains 2 disordered regions; contains variable stretch of Gln/Ala near middle of protein, contains variable stretch of Gln near C-terminus
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 PGD1 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
- Subunit of core mediator complex which has a stimulatory effect on basal transcription; involved in RNA polymerase II preinitiation complex assembly
View computational annotations
Molecular Function
- Manually Curated
Biological Process
- Manually Curated
- involved in cellular response to heat (IDA)
- involved in negative regulation of transcription by RNA polymerase II (IMP)
- involved in positive regulation of transcription by RNA polymerase II (IMP)
- involved in RNA polymerase II preinitiation complex assembly (IMP)
Cellular Component
- Manually Curated
- part of core mediator 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
- PGD1/YGL025C is non-essential; null mutants are viable and exhibit decreased budding index, competitive fitness, desiccation resistance, innate thermotolerance, mitotic recombination, pheromone production, replicative lifespan, silencing, sporulation, starvation resistance, telomere length, toxin resistance, transposable element transposition, and vegetative growth rate. They also show abnormal chromosome/plasmid maintenance, increased heat sensitivity, decreased resistance to hyperosmotic, osmotic, and oxidative stress, and decreased utilization of carbon and sulfur sources. Overexpression of PGD1/YGL025C results in decreased metal and UV resistance.
Classical Genetics
- null
- budding index: decreased
- chemical compound accumulation: decreased
- chemical compound accumulation: increased
- chromosome/plasmid maintenance: abnormal
- growth in exponential phase: decreased rate
- hyperosmotic stress resistance: decreased
- metal resistance: decreased
- mitotic recombination: decreased
- osmotic stress resistance: decreased
- pheromone production: decreased
- protein/peptide distribution: abnormal
- resistance to chemicals: decreased
- resistance to chemicals: increased
- RNA accumulation: decreased
- RNA accumulation: increased
- silencing: decreased
- telomere length: decreased
- utilization of carbon source: decreased
- utilization of sulfur source: decreased
- viable
- null
- auxotrophy
- chemical compound accumulation: decreased
- chemical compound accumulation: increased
- chemical compound excretion: increased
- competitive fitness: decreased
- desiccation resistance: decreased
- haploinsufficient
- heat sensitivity: increased
- innate thermotolerance: decreased
- oxidative stress resistance: decreased
- protein/peptide distribution: abnormal
- replicative lifespan: decreased
- resistance to chemicals: decreased
- resistance to chemicals: increased
- resistance to enzymatic treatment: decreased
- respiratory growth: decreased rate
- respiratory growth: increased
- sporulation: decreased
- starvation resistance: decreased
- telomere length: decreased
- toxin resistance: decreased
- transposable element transposition: decreased
- utilization of carbon source: decreased
- vegetative growth: absent
- 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
- Pgd1p interacts physically with proteins involved in transcription; PGD1 interacts genetically with genes involved in transcription
323 total interactions for 200 unique genes
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
- PGD1 (also called MED3) encodes a component of the tail module of the Mediator transcriptional regulation complex. The Mediator complex is highly conserved from yeast to human, and is a central player in the transcriptional regulation of protein-coding genes, being required for nearly all transcription by RNA polymerase II (RNAPII). Mediator bridges activators and the general transcription machinery. The core Mediator complex contains three distinct head, middle, and tail modules. Pgd1p, Med2p, Nut1p, Gal11p, and Sin4p are part of the tail module, which has a gene-selective, as opposed to a general, role in transcription, and is largely dedicated to the activation of genes involved in cellular responses to environmental signals. Pgd1p, Med2p, and Gal11p interact with gene-specific transcriptional activators such as Gcn4p. By interacting with activators, Mediator tail module subunits signal through the head and middle modules, which interact with general transcription factors and RNAPII subunits, to the basal transcription machinery to regulate transcription initiation. The tail module preferentially targets stress-regulated, TATA-containing, SAGA- and Swi/Snf-dependent genes, and may function along with specific chromatin regulators to provide a platform for preinitiation complex (PIC) formation at these highly regulated loci. Subunits of the Mediator tail module are also required for the activation of metabolic genes.
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: 2025-01-21
All Curated Literature
All manually curated literature for the specified gene, shown as a count of references by year of publication followed by the most recent papers. Click "Literature Details" or "See all" to view all literature information for this locus, organized into topics according to their relevance to the gene (Primary Literature, Additional Literature, or Review).
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