RFA1 / YAR007C Overview
- Standard Name
- RFA1 1
- Systematic Name
- YAR007C
- SGD ID
- SGD:S000000065
- Aliases
- BUF2 22 , FUN3 23 , RPA1 24 , RPA70 25
- Feature Type
- ORF , Verified
- Description
- Subunit of heterotrimeric Replication Protein A (RPA); RPA is a highly conserved ssDNA binding protein involved in DNA replication, repair, and recombination; RPA protects against inappropriate telomere recombination, and upon telomere uncapping, prevents cell proliferation by a checkpoint-independent pathway; promotes recruitment, helicase and nuclease activities of Dna2p; role in DNA catenation/decatenation pathway of chromosome disentangling; relocalizes to the cytosol in response to hypoxia 1 2 3 4 5 6 7
- Name Description
- Replication Factor A 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
- Rfa1p is 621 amino acids long and somewhat low in abundance, contains 4 nucleic acid-binding OB-folds, relocalizes to the cytosol in response to hypoxia
- Length (a.a.)
- 621
- Mol. Weight (Da)
- 70341.5
- Isoelectric Point
- 6.11
- Median Abundance (molecules/cell)
- 7948 +/- 2289
- Half-life (hr)
- 9.1
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 RFA1 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
- DNA-binding protein involved in DNA replication, DNA repair, recombination, and telomere maintenance; localizes to nuclear chromosomes and telomeres
View computational annotations
Molecular Function
- Manually Curated
- enables double-stranded DNA binding (IDA)
- enables mRNA binding (HDA)
- enables sequence-specific DNA binding (IDA)
- enables single-stranded DNA binding (IDA)
- enables zinc ion binding (RCA)
Biological Process
- Manually Curated
- involved in DNA repair (IMP)
- involved in DNA replication (IMP)
- involved in DNA topological change (IDA)
- involved in DNA unwinding involved in DNA replication (IDA)
- involved in double-strand break repair via homologous recombination (IGI)
- involved in establishment of protein localization (IPI)
- involved in heteroduplex formation (IDA)
- involved in mitotic recombination (IMP)
- involved in nucleotide-excision repair (IDA)
- acts upstream of, positive effect positive regulation of DNA helicase activity (IMP)
- acts upstream of, positive effect positive regulation of endodeoxyribonuclease activity (IDA, IMP)
- involved in protein ubiquitination (IMP, IPI)
- involved in reciprocal meiotic recombination (IMP)
- involved in telomere maintenance via recombination (IGI)
- involved in telomere maintenance via telomerase (IPI)
- involved in telomere maintenance via telomere lengthening (IMP)
Cellular Component
- Manually Curated
- located in chromosome, telomeric region (IMP)
- located in condensed nuclear chromosome (IDA)
- located in cytoplasm (IDA)
- located in cytosol (IDA)
- part of DNA replication factor A complex (IDA)
- located in nucleus (IDA)
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
- Essential gene; null mutant has decreased resistance to heat, UV, and DNA-damaging agents; abnormal spindle morphology/positioning, cell cycle progression, chromosome segregation and budding
Classical Genetics
- reduction of function
- conditional
- null
- overexpression
- null
- overexpression
- reduction of function
- conditional
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
- Rfa1p interacts physically with proteins involved in DNA repair and chromatin organization; RFA1 interacts genetically with genes involved in DNA repair
705 total interactions for 358 unique genes
Physical Interactions
- Affinity Capture-MS: 194
- Affinity Capture-RNA: 6
- Affinity Capture-Western: 78
- Biochemical Activity: 8
- Co-crystal Structure: 2
- Co-localization: 10
- Co-purification: 9
- Protein-peptide: 7
- Proximity Label-MS: 1
- Reconstituted Complex: 28
- Two-hybrid: 59
Genetic Interactions
- Dosage Growth Defect: 8
- Dosage Lethality: 2
- Dosage Rescue: 3
- Negative Genetic: 171
- Phenotypic Enhancement: 34
- Phenotypic Suppression: 21
- Positive Genetic: 24
- Synthetic Growth Defect: 13
- Synthetic Lethality: 14
- Synthetic Rescue: 13
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
- 10
- 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.
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: 2007-08-09
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.