RAD1 ssDNA endodeoxyribonuclease RAD1 [Saccharomyces cerevisiae S288C] - Gene

Summary

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Official Symbol: RAD1
Official Full Name: ssDNA endodeoxyribonuclease RAD1
Primary source: SGD:S000005943
Locus tag: YPL022W
See related: AllianceGenome:SGD:S000005943; FungiDB:YPL022W; VEuPathDB:YPL022W
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Saccharomyces cerevisiae S288C (strain: S288C)
Lineage: Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
Also known as: LPB9; RAD12
Summary: Enables single-stranded DNA binding activity. Contributes to single-stranded DNA endodeoxyribonuclease activity. Involved in DNA metabolic process. Located in nucleus. Part of nucleotide-excision repair factor 1 complex. Used to study Fanconi anemia and cancer. Human ortholog(s) of this gene implicated in Fanconi anemia (multiple); XFE progeroid syndrome; pancreatic cancer; polyneuropathy due to drug; and xeroderma pigmentosum (multiple). Orthologous to human ERCC4 (ERCC excision repair 4, endonuclease catalytic subunit). [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

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See RAD1 in Genome Data Viewer

Location:: chromosome: XVI

Exon count:: 1

Sequence:: Chromosome: XVI; NC_001148.4 (506697..509999)

Chromosome XVI - NC_001148.4 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_001148.4

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

RAD1 interactions with RAD10, Msh2-Msh3 and RPA is necessary for 3' non-homologous tail removal.
Title: Coordination of Rad1-Rad10 interactions with Msh2-Msh3, Saw1 and RPA is essential for functional 3' non-homologous tail removal.
Rad1-Rad10 makes distinct contributions to inter-strand crosslink repair (ICLR) depending on cell cycle phase: in G1, Rad1-Rad10 removes ICL via non-nucleotide excision repair (NER), whereas in S/G2, Rad1-Rad10 facilitates NER-independent replication-coupled. Results suggest that NER function in ICLR is conserved from yeast to human and yeast will provide a tractable system to dissect this critical repair pathway.
Title: Distinct roles of XPF-ERCC1 and Rad1-Rad10-Saw1 in replication-coupled and uncoupled inter-strand crosslink repair.
One example occurred when yeast lacking RAD1 were exposed to cisplatin, and we characterized this interaction using whole-genome sequencing. Our sequencing results indicate mutagenesis by cisplatin in rad1Delta cells appeared to depend almost entirely on interstrand cross-links at GpCpN motifs.
Title: Hypermutation signature reveals a slippage and realignment model of translesion synthesis by Rev3 polymerase in cisplatin-treated yeast.
Presented is a model for the role of Rad1-Rad10 cleavage in formation of recombinants between dispersed repeats.
Title: The Rad1-Rad10 nuclease promotes chromosome translocations between dispersed repeats.
low frequency of translocations observed in rad1-null single mutants
Title: RAD59 and RAD1 cooperate in translocation formation by single-strand annealing in Saccharomyces cerevisiae.
Taken together, these results suggest that radiation-induced microhomology-mediated recombination is under the same genetic control as the single-strand annealing apparatus that requires the RAD52, RAD1 and RAD10 genes.
Title: Rad1, rad10 and rad52 mutations reduce the increase of microhomology length during radiation-induced microhomology-mediated illegitimate recombination in saccharomyces cerevisiae.
mating-type switching in Saccharomyces cerevisiae strains defective in the Rad1-Rad10-Slx4 complex
Title: Mutants defective in Rad1-Rad10-Slx4 exhibit a unique pattern of viability during mating-type switching in Saccharomyces cerevisiae.
Data suggest that Saw1 targets Rad1/Rad10 to Rad52-coated recombination intermediates.
Title: Microarray-based genetic screen defines SAW1, a gene required for Rad1/Rad10-dependent processing of recombination intermediates.
interchromosomal crossover recombination with short substrates is severely inhibited in the absence of RAD1 and is relatively insensitive to the presence of mismatches
Title: The effects of mismatch repair and RAD1 genes on interchromosomal crossover recombination in Saccharomyces cerevisiae.
Rad1-Rad10 functions at different stages of GCR formation and there is an alternative pathway for the GCR formation that is independent of Rad1-Rad10
Title: The Rad1-Rad10 complex promotes the production of gross chromosomal rearrangements from spontaneous DNA damage in Saccharomyces cerevisiae.

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Pathways from PubChem

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

Orthologs from OrthoDB

Gene Ontology Provided by SGD

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA endonuclease activity	IEA Inferred from Electronic Annotation more info
enables damaged DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables endonuclease activity	IEA Inferred from Electronic Annotation more info
enables single-stranded DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables single-stranded DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables single-stranded DNA binding	IEA Inferred from Electronic Annotation more info
contributes_to single-stranded DNA endodeoxyribonuclease activity	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
involved_in DNA amplification	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in DNA recombination	IEA Inferred from Electronic Annotation more info
involved_in DNA repair	IEA Inferred from Electronic Annotation more info
involved_in double-strand break repair	IEA Inferred from Electronic Annotation more info
involved_in double-strand break repair via homologous recombination	IBA Inferred from Biological aspect of Ancestor more info
involved_in double-strand break repair via single-strand annealing, removal of nonhomologous ends	IBA Inferred from Biological aspect of Ancestor more info
involved_in double-strand break repair via single-strand annealing, removal of nonhomologous ends	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in meiosis I cell cycle process	IEA Inferred from Electronic Annotation more info
involved_in meiotic mismatch repair	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mitotic recombination	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in nucleotide-excision repair	IDA Inferred from Direct Assay more info	PubMed
involved_in nucleotide-excision repair involved in interstrand cross-link repair	IBA Inferred from Biological aspect of Ancestor more info
involved_in removal of nonhomologous ends	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in resolution of meiotic recombination intermediates	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
part_of nucleotide-excision repair factor 1 complex	IBA Inferred from Biological aspect of Ancestor more info
part_of nucleotide-excision repair factor 1 complex	IPI Inferred from Physical Interaction more info	PubMed
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: ssDNA endodeoxyribonuclease RAD1

NP_015303.1

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

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_001148.4 Reference assembly

Range

506697..509999

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001183836.1 → NP_015303.1 TPA: ssDNA endodeoxyribonuclease RAD1 [Saccharomyces cerevisiae S288C]

See identical proteins and their annotated locations for NP_015303.1

Status: REVIEWED

UniProtKB/Swiss-Prot

D6W3Z0, P06777

UniProtKB/TrEMBL

G2WPF6, N1NW58

Conserved Domains (1) summary

TIGR00596
Location:203 → 1066

rad1; DNA repair protein (rad1)