RAD53 / YPL153C Overview
- Standard Name
- RAD53 1
- Systematic Name
- YPL153C
- SGD ID
- SGD:S000006074
- Aliases
- LSD1 , MEC2 11 , SPK1 32
- Feature Type
- ORF , Verified
- Description
- DNA damage response kinase; signal transduction pathway component required for DNA damage and replication checkpoints, promoting cell cycle arrest and DNA repair; role in initiation of DNA replication; inhibits gene gating through NPC protein phosphorylation, to promote fork stability; activates downstream kinase Dun1p; senses mtDNA depletion and mitochondrial ROS; relocalizes to cytosol under hypoxia; contains two FHA domains; human homolog CHEK2 implicated in breast cancer complements the null 2 3 4 5 6 7 8 9 10
- 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.)
- 821
- Mol. Weight (Da)
- 91965.5
- Isoelectric Point
- 7.94
- Median Abundance (molecules/cell)
- 1533 +/- 520
- Half-life (hr)
- 7.8
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 RAD53 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
- Protein serine/threonine/tyrosine kinase that binds DNA replication origins; involved in the DNA damage checkpoint, DNA replication initiation, and the biosynthesis of deoxyribonucleoside triphosphates; localizes to the nucleus and the cytosol
View computational annotations
Molecular Function
- Manually Curated
- enables DNA replication origin binding (IDA)
- enables protein kinase activity (HDA)
- enables protein serine/threonine/tyrosine kinase activity (IDA)
Biological Process
- Manually Curated
- involved in deoxyribonucleoside triphosphate biosynthetic process (IMP)
- involved in DNA damage checkpoint signaling (IGI)
- involved in DNA repair (IMP)
- involved in DNA replication initiation (IMP)
- involved in negative regulation of phosphorylation (IMP)
- involved in protein localization (IMP)
- involved in telomere maintenance in response to DNA damage (IMP)
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
- Gene variously classified as essential and as non-essential; null and point mutants display sensitivity to DNA-damaging agents, including MMS, HU, UV light, and X-rays, and an abnormal mitotic cell cycle; apoptotic DNA degradation is more rapid in rad53-21 mutant than in wild type; in large-scale studies, replicative lifespan of the null mutant is shortened, while overexpression impedes growth
Classical Genetics
- null
- reduction of function
- apoptosis: increased
- budding index: increased
- cell cycle progression in G1 phase: increased
- cell cycle progression in S phase: increased duration
- chronological lifespan: decreased
- mitochondrial genome maintenance: abnormal
- protein/peptide modification: increased
- resistance to chemicals: absent
- resistance to chemicals: decreased
- spore germination: decreased
- UV resistance: decreased
- X ray resistance: decreased
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 RAD53 is homologous to human CHEK2, and has been used to study breast cancer
Manually Curated
- breast cancer (ISS, IGI, IMP)
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.
1361 total interactions for 780 unique genes
Physical Interactions
- Affinity Capture-MS: 82
- Affinity Capture-RNA: 5
- Affinity Capture-Western: 71
- Biochemical Activity: 101
- Co-crystal Structure: 3
- Co-localization: 2
- Co-purification: 1
- PCA: 1
- Protein-peptide: 10
- Proximity Label-MS: 206
- Reconstituted Complex: 15
- Two-hybrid: 33
Genetic Interactions
- Dosage Growth Defect: 17
- Dosage Lethality: 5
- Dosage Rescue: 35
- Negative Genetic: 280
- Phenotypic Enhancement: 38
- Phenotypic Suppression: 77
- Positive Genetic: 35
- Synthetic Growth Defect: 143
- Synthetic Lethality: 71
- Synthetic Rescue: 130
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.
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: 2006-03-24
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.