SLF1 / YDR515W Overview
- Standard Name
- SLF1 1
- Systematic Name
- YDR515W
- SGD ID
- SGD:S000002923
- Aliases
- SRO99
- Feature Type
- ORF , Verified
- Description
- RNA binding protein that associates with polysomes; may be involved in regulating mRNA translation; involved in the copper-dependent mineralization of copper sulfide complexes on cell surface in cells cultured in copper salts; role in preventing L-A mycovirus pathogenesis; SLF1 has a paralog, SRO9, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress 1 2 3 4 5
- Name Description
- SuLFide production 1
- Paralog
- SRO9 3
- 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
- SLF1 is located on the right arm of chromosome IV near the telomere and between uncharacterized gene YDR514C and EMI2 hexokinase; coding sequence is 1344 nucleotides long with 27 SNPs, 8 of which cause amino acid polymorphisms; SLF1 has a paralog, SRO9, that arose from the whole genome duplication
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
- Slf1p is 447 amino acids long, of average half-life, low in abundance; phosphorylated on 7 residues; protein abundance increases in response to DNA replication stress
- Length (a.a.)
- 447
- Mol. Weight (Da)
- 50954.8
- Isoelectric Point
- 9.74
- Median Abundance (molecules/cell)
- 2997 +/- 676
- Half-life (hr)
- 10.5
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 SLF1 alleles in SGD search | YeastMine
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
- RNA-binding protein of the polysome; involved in regulation of translation and copper ion homeostasis; localizes to cytoplasmic stress granules during response to glucose starvation
View computational annotations
Molecular Function
- Manually Curated
- enables mRNA binding (HDA)
- enables RNA binding (IDA)
Biological Process
- Manually Curated
- involved in intracellular copper ion homeostasis (IMP)
- involved in regulation of translation (IMP)
Cellular Component
- Manually Curated
- located in cytoplasm (HDA)
- located in cytoplasmic stress granule (HDA, IDA)
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 has decreased oxidative stress resistance, decreased competitive fitness, nucleolar enlargement, nuclear envelope abnormalities including decreased circularity and increased surface area
Classical Genetics
- overexpression
- null
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
- Slf1p interacts physically with proteins involved in translation; SLF1 interacts genetically with genes involved in transcription; the slf1 null mutant is viable; the null mutant of paralog sro9 is viable; the slf1 sro9 double mutant has not been annotated for phenotype.
620 total interactions for 584 unique genes
Physical Interactions
- Affinity Capture-MS: 38
- Affinity Capture-RNA: 522
- Affinity Capture-Western: 6
- Co-fractionation: 2
- PCA: 2
- Proximity Label-MS: 3
- Two-hybrid: 1
Genetic Interactions
- Dosage Rescue: 5
- Negative Genetic: 24
- Positive Genetic: 8
- Synthetic Growth Defect: 5
- Synthetic Haploinsufficiency: 2
- Synthetic Lethality: 1
- Synthetic Rescue: 1
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
- 2
- Targets
- 0
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
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.