RPS3 / YNL178W Overview


Standard Name
RPS3
Systematic Name
YNL178W
SGD ID
SGD:S000005122
Aliases
S3 2 5 , YS3 2 , rp13 2 , uS3 18 , SUF14
Feature Type
ORF , Verified
Description
Protein component of the small (40S) ribosomal subunit; has apurinic/apyrimidinic (AP) endonuclease activity; essential for viability; nascent Rps3p is bound by specific chaperone Yar1p during translation; homologous to mammalian ribosomal protein S3 and bacterial S3 1 2 3 4 5 6
Name Description
Ribosomal Protein of the Small subunit
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
RPS3 is located on the left arm of chromosome XIV between dubious ORF YNL179C and MRPL22 mitochondrial ribosomal large subunit protein; coding sequence is 723 nucleotides long with 3 synonymous SNPs
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
Rps3p is 240 amino acids long, of average half-life, very high in abundance; methylated on R146, sumoylated on K78 and K212, succinylated on 5 lysines, acetylated on 7 lysines, ubiquitinylated on 11 lysines, phosphorylated on 15 residues
Length (a.a.)
240
Mol. Weight (Da)
26510.1
Isoelectric Point
9.94
Median Abundance (molecules/cell)
77234 +/- 53426
Half-life (hr)
10.1

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


View all RPS3 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
AP lyase subunit of the cytosolic small ribosomal subunit; involved in nuclear export of rRNA and the small ribosomal subunit, and translation

View computational annotations

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
Essential gene; heterozygous diploid null is sensitive to isoniazide, to daunorubicin , and to heat; heterozygous diploid null shows decreased competitive fitness
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
Rps3p interacts physically with proteins involved in rRNA processing; RPS3 interacts genetically with genes involved in mitotic cell cycle

1291 total interactions for 969 unique genes

Physical Interactions

  • Affinity Capture-MS: 933
  • Affinity Capture-RNA: 7
  • Affinity Capture-Western: 46
  • Biochemical Activity: 5
  • Co-crystal Structure: 4
  • Co-fractionation: 13
  • Co-localization: 1
  • Co-purification: 6
  • PCA: 1
  • Protein-RNA: 3
  • Proximity Label-MS: 56
  • Reconstituted Complex: 14
  • Two-hybrid: 5

Genetic Interactions

  • Dosage Rescue: 1
  • Negative Genetic: 140
  • Phenotypic Enhancement: 2
  • Phenotypic Suppression: 5
  • Positive Genetic: 41
  • Synthetic Growth Defect: 5
  • Synthetic Lethality: 1
  • Synthetic Rescue: 2
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
RPS3 promoter is bound by Cin5p, Rgr1p, Tfc7p, and Ume6p in response to heat; RPS3 transcription is regulated by Sfp1p; Rps3p stability is downregulated by Mag2p and Fap1p during detection of stalled ribosomes
Regulators
18
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.


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: 2007-02-14

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
53
Additional
93
Reviews
23

Resources