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POP2 / YNR052C Overview

Standard Name
POP2 1
Systematic Name
YNR052C
SGD ID
SGD:S000005335
Aliases
CAF1 6
Feature Type
ORF , Verified
Description
Subunit of Ccr4-Not complex that mediates 3' to 5' mRNA deadenylation; exonuclease of the DEDD superfamily 2 3 4 5
Name Description
PGK promoter directed OverProduction 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.

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

Strain Alignment | Variant Viewer

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.

Length (a.a.)
433
Mol. Weight (Da)
49676.6
Isoelectric Point
6.1
Median Abundance (molecules/cell)
3067 +/- 1517
Half-life (hr)
8.1

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 POP2 alleles in SGD search

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
Subunit of the CCR4-NOT complex; involved in nuclear-transcribed mRNA poly(A) tail shortening, as well as transcription elongation and transcription regulation from RNA polymerase II promoters; localizes to the cytoplasm and cytoplasmic mRNA processing body

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
POP2/YNL052C is a non-essential gene; null mutants are viable but exhibit a range of phenotypic changes including increased chemical compound accumulation, abnormal chromosome and plasmid maintenance, increased cold sensitivity, decreased filamentous growth, decreased metal resistance, altered RNA accumulation, decreased toxin resistance, decreased vegetative growth, decreased acid pH resistance, decreased anaerobic growth, abnormal budding pattern, abnormal cell shape, increased cell size, decreased chronological lifespan, abnormal colony appearance, decreased competitive fitness, decreased endocytosis, decreased fermentative growth rate, increased heat sensitivity, decreased hydrostatic pressure resistance, increased killer toxin resistance, decreased mitotic recombination, decreased oxidative stress resistance, absent respiratory growth, decreased sporulation efficiency, decreased stress resistance, decreased transposable element transposition, decreased utilization rates of carbon and nitrogen sources, decreased UV resistance, and abnormal vacuolar morphology. Overexpression of POP2 results in increased invasive growth.

Classical Genetics

null

Large-scale Survey

null
overexpression
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.

506 total interactions for 278 unique genes

Physical Interactions

  • Affinity Capture-MS: 68
  • Affinity Capture-RNA: 11
  • Affinity Capture-Western: 45
  • Biochemical Activity: 2
  • Co-crystal Structure: 1
  • Co-fractionation: 1
  • Co-purification: 7
  • PCA: 11
  • Proximity Label-MS: 2
  • Reconstituted Complex: 9
  • Two-hybrid: 26

Genetic Interactions

  • Dosage Lethality: 6
  • Dosage Rescue: 11
  • Negative Genetic: 20
  • Phenotypic Enhancement: 4
  • Phenotypic Suppression: 4
  • Positive Genetic: 1
  • Synthetic Growth Defect: 168
  • Synthetic Haploinsufficiency: 1
  • Synthetic Lethality: 95
  • Synthetic Rescue: 13
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
POP2 promoter is bound by Reb1p and Yap6p in response to heat; POP2 transcription is downregulated by Ixr1p in response to hypoxia
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
92
Additional
79
Reviews
55

Resources

AlphaFold Protein Structure | E.C.3.1.13.4 | Entrez Gene | Entrez RefSeq Protein | FungiDB | Search all NCBI | UniParc | UniProtKB