RAD27 / YKL113C Overview


Standard Name
RAD27 1
Systematic Name
YKL113C
SGD ID
SGD:S000001596
Aliases
ERC11 27 , RTH1 10 , FEN1 28
Feature Type
ORF , Verified
Description
5' to 3' exonuclease, 5' flap endonuclease; required for Okazaki fragment processing and maturation, for long-patch base-excision repair and large loop repair (LLR), ribonucleotide excision repair; cleaves off RNA flap in a RNA:DNA hybrid intermediate during processing of DNA lagging strand; relocalizes to the cytosol in response to hypoxia; member of the S. pombe RAD2/FEN1 family 2 3 4 5 6 7
Name Description
RADiation sensitive 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.


Summary
RAD27 is located on the left arm of chromosome XI between apurinic/apyrimidinic endonuclease APN1 and DNA binding protein ABF1; coding sequence is 1149 nucleotides long with 9 SNPs, 2 of which cause amino acid polymorphisms
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
Rad27p is 382 amino acids long, shorter-lived, low in abudance; contains 5 XPG/Rad2 endonuclease sites; ubiquitinylated on K81, acetylated on K246, phosphorylated on T193 and S302; relocalizes to the cytosol in response to hypoxia
Length (a.a.)
382
Mol. Weight (Da)
43289.8
Isoelectric Point
9.37
Median Abundance (molecules/cell)
3492 +/- 776
Half-life (hr)
8.8

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 RAD27 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
5-3 exonuclease and 5-flap endonuclease involved in base-free sugar phosphate removal as a part of base-excision repair, DNA repair synthesis during gene conversion at the mating-type locus, removal of RNA primers during DNA replication, maintenance of DNA trinucleotide repeats, and non-homologous end joining; also involved in replicative cell aging; localizes to the nucleus, mitochondrion, and cytosol

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.


Summary
Non-essential gene; null mutant displays sensitivity to agents affecting DNA metabolism such as 5-fluorouracil, MMS, and UV light; null mutant has elevated mutation frequency, decreased replicative lifespan, and abnormal nuclear morphology; in large-scale studies null mutant displays decreased competitive fitness, chronological lifespan, and filamentous growth, and is sensitive to heat, oxidative stress, metals, and various chemicals
Disease Details

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 RAD27 is homologous to human FEN1, and has been used to study cancer

Manually Curated

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.


Summary
Rad27p interacts physically with proteins involved in DNA repair; RAD27 interacts genetically with genes involved in DNA repair

1444 total interactions for 630 unique genes

Physical Interactions

  • Affinity Capture-MS: 12
  • Affinity Capture-RNA: 2
  • Affinity Capture-Western: 8
  • Reconstituted Complex: 10
  • Two-hybrid: 3

Genetic Interactions

  • Dosage Growth Defect: 4
  • Dosage Lethality: 4
  • Dosage Rescue: 12
  • Negative Genetic: 708
  • Phenotypic Enhancement: 57
  • Phenotypic Suppression: 13
  • Positive Genetic: 71
  • Synthetic Growth Defect: 244
  • Synthetic Lethality: 283
  • Synthetic Rescue: 13
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.


Summary
RAD27 promoter is bound by Tfc7p in response to heat; RAD27 transcription is upregulated by Zap1p in response to zinc ion starvation
Regulators
3
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.


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: 2007-10-05

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
176
Additional
134
Reviews
55

Resources