RAD1 / YPL022W Overview
- Standard Name
- RAD1 1
- Systematic Name
- YPL022W
- SGD ID
- SGD:S000005943
- Aliases
- LPB9 , RAD12 1
- Feature Type
- ORF , Verified
- Description
- Single-stranded DNA endonuclease (with Rad10p); cleaves single-stranded DNA during nucleotide excision repair and double-strand break repair; subunit of Nucleotide Excision Repair Factor 1 (NEF1); homolog of human XPF protein 2 3 4
- Name Description
- RADiation sensitive 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.
- Length (a.a.)
- 1100
- Mol. Weight (Da)
- 126335.2
- Isoelectric Point
- 5.12
- Median Abundance (molecules/cell)
- 753 +/- 164
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 RAD1 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
- Subunit of the nucleotide-excision repair factor 1 complex that has single-stranded DNA endodeoxyribonuclease activity; involved in nucleotide-excision repair, removal of nonhomologous ends, double-strand break repair via single-strand annealing, meiotic mismatch repair, and mitotic recombination
View computational annotations
Molecular Function
- Manually Curated
- enables single-stranded DNA binding (IDA)
- contributes to single-stranded DNA endodeoxyribonuclease activity (IDA)
Biological Process
- Manually Curated
- involved in DNA amplification (IMP)
- involved in double-strand break repair via single-strand annealing, removal of nonhomologous ends (IMP)
- involved in meiotic mismatch repair (IMP)
- involved in mitotic recombination (IMP)
- involved in nucleotide-excision repair (IDA)
- involved in removal of nonhomologous ends (IMP)
Cellular Component
- Manually Curated
- part of nucleotide-excision repair factor 1 complex (IPI)
- 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
- Non-essential gene; null mutant is sensitive to a variety of DNA damaging agents and synthesis inhibitors; null mutant is sensitive to X-rays and UV radiation; null displays elevated chromosome loss and instability, decreased recombination and elevated mutation frequency; null mutant has a decreased duration of G1 phase, a decreased rate of glutamine utilization; null mutant has decreased resistance to zinc deficiency, oxidative stress and desiccation; overexpression enhances invasive growth
Classical Genetics
- null
- apoptosis: decreased
- cell cycle progression in G1 phase: decreased duration
- chromosome/plasmid maintenance: abnormal
- chromosome/plasmid maintenance: decreased
- chromosome/plasmid maintenance: decreased rate
- chronological lifespan: increased
- desiccation resistance: decreased
- metal resistance: decreased
- metal resistance: normal
- mitotic recombination: decreased
- mitotic recombination: increased rate
- mutation frequency: decreased
- oxidative stress resistance: decreased
- resistance to chemicals: decreased
- sporulation: normal
- UV resistance: decreased
- viable
- X ray resistance: decreased
- reduction of function
- unspecified
- conditional
- null
- chemical compound accumulation: abnormal
- competitive fitness: decreased
- haploproficient
- mutation frequency: increased
- oxidative stress resistance: decreased
- resistance to chemicals: decreased
- resistance to chemicals: increased
- resistance to enzymatic treatment: increased
- sporulation: abnormal
- stress resistance: decreased
- toxin resistance: decreased
- utilization of nitrogen source: decreased rate
- UV resistance: decreased
- viable
- X ray resistance: decreased
- overexpression
Large-scale Survey
Disease
Disease Annotations consist of three mandatory components: a gene product, a term from the Disease Ontology (DO) controlled vocabulary and an evidence code. SGD provides manually curated DO Annotations derived from the literature. Click "Disease Details" to view all Disease information and evidence for this locus as well as diseases it shares with other genes.
- Summary
- Yeast RAD1 is homologous to human ERCC4, and has been used to study Fanconi anemia and cancer
Manually Curated
- cancer (ISS, IMP)
- Fanconi anemia (ISS)
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.
718 total interactions for 498 unique genes
Physical Interactions
- Affinity Capture-MS: 43
- Affinity Capture-RNA: 5
- Affinity Capture-Western: 29
- Biochemical Activity: 2
- Co-fractionation: 4
- Co-localization: 2
- Co-purification: 3
- Far Western: 3
- Reconstituted Complex: 12
- Two-hybrid: 11
Genetic Interactions
- Dosage Lethality: 2
- Dosage Rescue: 3
- Negative Genetic: 322
- Phenotypic Enhancement: 86
- Phenotypic Suppression: 26
- Positive Genetic: 75
- Synthetic Growth Defect: 51
- Synthetic Lethality: 20
- Synthetic Rescue: 19
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.
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: 2006-03-14
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.