PBP1 / YGR178C Overview
- Standard Name
- PBP1 1
- Systematic Name
- YGR178C
- SGD ID
- SGD:S000003410
- Aliases
- MRS16
- Feature Type
- ORF , Verified
- Description
- Component of glucose deprivation induced stress granules; involved in P-body-dependent granule assembly; regulates TORC1 signaling and autophagy; interacts with Pab1p to regulate mRNA polyadenylation; interacts with Mkt1p to regulate HO translation; regulates expression of genes involved in gluconeogenesis and mitochondrial function through multiple mechanisms 1 2 3 4 5 6 7 8
- Name Description
- Pab1p-Binding Protein 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
- Pbp1p is 722 amino acids long, short-lived, and lower in abundance; acetylated on 3 lysines, ubiquitinylated on 2 lysines, phosphorylated on 25 residues
- Length (a.a.)
- 722
- Mol. Weight (Da)
- 78776.4
- Isoelectric Point
- 6.9
- Median Abundance (molecules/cell)
- 6358 +/- 2578
- Half-life (hr)
- 3.9
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 PBP1 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
- mRNA binding protein; functions as a positive regulator of mRNA adenylation, and as a positive regulator of HO translation; involved in stress granule assembly and the maintenance of rDNA; localizes to the polysome, and the cytoplasmic stress granule
View computational annotations
Molecular Function
- Manually Curated
- enables mRNA binding (HDA)
- enables protein-containing complex binding (IDA)
Biological Process
- Manually Curated
- involved in cellular response to glucose starvation (IMP)
- involved in maintenance of rDNA (IMP)
- involved in negative regulation of TORC1 signaling (IMP)
- involved in positive regulation of translation (IPI, IMP)
- involved in regulation of mitophagy (IMP)
- involved in stress granule assembly (IMP)
Cellular Component
- Manually Curated
- located in cytoplasm (HDA)
- located in cytoplasmic stress granule (IDA, HDA)
- located in mitochondrion (HDA)
- located in nucleus (HDA)
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
- Non-essential gene; null grows slowly, has increased chronological lifespan, shows significant decrease in the expression of mitochondrial genes, increased resistance to bleomycin, cycloheximide, caffeine, hydroxyurea; homozygous null has decreased sporulation, is sensitive to many chemicals, is respiratory-deficient
Classical Genetics
- null
- chemical compound accumulation: abnormal
- chronological lifespan: decreased
- competitive fitness: decreased
- competitive fitness: increased
- haploinsufficient
- oxidative stress resistance: decreased
- resistance to chemicals: decreased
- resistance to chemicals: increased
- respiratory growth: decreased rate
- sporulation efficiency: decreased
- toxin resistance: increased
- transposable element transposition: decreased
- transposable element transposition: increased
- utilization of nitrogen source: decreased rate
- vegetative growth: decreased rate
- viable
- overexpression
- unspecified
Large-scale Survey
Disease
Disease Annotations consist of three mandatory components: a gene product, a term from the Disease Ontology (DO) controlled vocabulary and an evidence code. SGD provides manually curated DO Annotations derived from the literature. Click "Disease Details" to view all Disease information and evidence for this locus as well as diseases it shares with other genes.
- Summary
- Yeast PBP1 is homologous to human ATXN2 and has been used to study CAG repeat expansions found in patients with amyotrophic lateral sclerosis type 13
Manually Curated
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
- Pbp1p interacts physically with proteins involved in translation; PBP1 interacts genetically with genes involved in transcription
417 total interactions for 299 unique genes
Physical Interactions
- Affinity Capture-MS: 108
- Affinity Capture-RNA: 11
- Affinity Capture-Western: 13
- Co-purification: 1
- PCA: 4
- Proximity Label-MS: 6
- Two-hybrid: 22
Genetic Interactions
- Dosage Growth Defect: 1
- Dosage Lethality: 4
- Dosage Rescue: 9
- Negative Genetic: 163
- Phenotypic Enhancement: 5
- Phenotypic Suppression: 10
- Positive Genetic: 43
- Synthetic Growth Defect: 10
- Synthetic Rescue: 7
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.
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: 2024-06-14
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.