LOC1 / YFR001W Overview


Standard Name
LOC1 1
Systematic Name
YFR001W
SGD ID
SGD:S000001897
Feature Type
ORF , Verified
Description
RNA binding chaperone with ATP-independent RNA annealing activity; Nucleolar protein involved in asymmetric localization of ASH1 mRNA; binds cooperatively with She2p to the E3 zip-code element in the 3'-UTR; ribosomal 60S biogenesis factor required for Rpl43p loading; 66S pre-ribosomal particle component involved in pre-rRNA processing and 60S nuclear export; Ty1 host factor; has intrinsically disordered RNA binding (PUN) motifs; relocalizes to the cytoplasm upon DNA replication stress 1 2 3 4 5 6 7 8
Name Description
LOCalization of mRNA 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
Relocalizes from nucleus to cytoplasm upon DNA replication stress
Length (a.a.)
204
Mol. Weight (Da)
23622.0
Isoelectric Point
11.07
Median Abundance (molecules/cell)
3874 +/- 881
Half-life (hr)
9.4

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.


View all LOC1 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
Nucleolar RNA binding chaperone with ATP-independent RNA annealing activity; part of the large subunit precursor to the preribosome; involved in rRNA processing, biogenesis of the large subunit, and export of the LSU from the nucleus; binds mRNA and has roles in mRNA localization and regulation of translation as part of a chaperone complex

View computational annotations

Molecular Function

Manually Curated

Cellular Component

Manually Curated
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.


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.


338 total interactions for 189 unique genes

Physical Interactions

  • Affinity Capture-MS: 180
  • Affinity Capture-RNA: 15
  • Affinity Capture-Western: 43
  • Co-crystal Structure: 7
  • Co-localization: 3
  • Co-purification: 1
  • PCA: 8
  • Protein-RNA: 2
  • Proximity Label-MS: 1
  • Reconstituted Complex: 9
  • Two-hybrid: 33

Genetic Interactions

  • Dosage Rescue: 2
  • Negative Genetic: 21
  • Phenotypic Enhancement: 2
  • Phenotypic Suppression: 1
  • Positive Genetic: 1
  • Synthetic Growth Defect: 8
  • Synthetic Rescue: 1
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.


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
23
Additional
23
Reviews
12

Resources