RAD53 serine/threonine/tyrosine protein kinase RAD53 [Saccharomyces cerevisiae S288C] - Gene

Summary

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Official Symbol: RAD53
Official Full Name: serine/threonine/tyrosine protein kinase RAD53
Primary source: SGD:S000006074
Locus tag: YPL153C
See related: AllianceGenome:SGD:S000006074; FungiDB:YPL153C; VEuPathDB:YPL153C
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: LSD1; MEC2; SPK1
Summary: Enables DNA replication origin binding activity and protein serine/threonine/tyrosine kinase activity. Involved in several processes, including DNA damage checkpoint signaling; DNA metabolic process; and deoxyribonucleoside triphosphate biosynthetic process. Located in cytosol and nucleus. Used to study breast cancer. [provided by Alliance of Genome Resources, Jul 2025]
Orthologs: all
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Genomic context

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See RAD53 in Genome Data Viewer

Location:: chromosome: XVI

Exon count:: 1

Sequence:: Chromosome: XVI; NC_001148.4 (261727..264192, complement)

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?

Rad53 regulates the lifetime of Rdh54 at homologous recombination intermediates.
Title: Rad53 regulates the lifetime of Rdh54 at homologous recombination intermediates.
Rad51 filaments assembled in the absence of the complex formed by the Rad51 paralogs Rad55 and Rad57 are outcompeted by translesion DNA polymerases on UV-induced ssDNA gaps.
Title: Rad51 filaments assembled in the absence of the complex formed by the Rad51 paralogs Rad55 and Rad57 are outcompeted by translesion DNA polymerases on UV-induced ssDNA gaps.
Prevalent and dynamic binding of the cell cycle checkpoint kinase Rad53 to gene promoters.
Title: Prevalent and dynamic binding of the cell cycle checkpoint kinase Rad53 to gene promoters.
Rad53 arrests leading and lagging strand DNA synthesis via distinct mechanisms in response to DNA replication stress.
Title: Rad53 arrests leading and lagging strand DNA synthesis via distinct mechanisms in response to DNA replication stress.
Checkpoint inhibition of origin firing prevents inappropriate replication outside of S-phase.
Title: Checkpoint inhibition of origin firing prevents inappropriate replication outside of S-phase.
A mechanism for Rad53 to couple leading- and lagging-strand DNA synthesis under replication stress in budding yeast.
Title: A mechanism for Rad53 to couple leading- and lagging-strand DNA synthesis under replication stress in budding yeast.
Histones on fire: the effect of Dun1 and Mrc1 on origin firing and replication of hyper-acetylated genomes.
Title: Histones on fire: the effect of Dun1 and Mrc1 on origin firing and replication of hyper-acetylated genomes.
Antagonistic control of DDK binding to licensed replication origins by Mcm2 and Rad53.
Title: Antagonistic control of DDK binding to licensed replication origins by Mcm2 and Rad53.
The Rad53(CHK1/CHK2)-Spt21(NPAT) and Tel1(ATM) axes couple glucose tolerance to histone dosage and subtelomeric silencing.
Title: The Rad53(CHK1/CHK2)-Spt21(NPAT) and Tel1(ATM) axes couple glucose tolerance to histone dosage and subtelomeric silencing.
We show here that Exo1 phosphorylation is Dun1-independent and Rad53-dependent in response to DNA damage or dNTP depletion, and in both situations Exo1 is similarly phosphorylated at multiple sites.
Title: Exo1 phosphorylation inhibits exonuclease activity and prevents fork collapse in rad53 mutants independently of the 14-3-3 proteins.

Submit: New GeneRIF Correction See all GeneRIFs (67)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

NCBI Orthologs

Orthologs from OrthoDB

Gene Ontology Provided by SGD

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables DNA replication origin binding	IDA Inferred from Direct Assay more info	PubMed
enables DNA replication origin binding	IEA Inferred from Electronic Annotation more info
enables kinase activity	IEA Inferred from Electronic Annotation more info
enables nucleotide binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein kinase activity	HDA more info	PubMed
enables protein kinase activity	IEA Inferred from Electronic Annotation more info
enables protein serine kinase activity	IEA Inferred from Electronic Annotation more info
enables protein serine/threonine kinase activity	IBA Inferred from Biological aspect of Ancestor more info
enables protein serine/threonine kinase activity	IEA Inferred from Electronic Annotation more info
enables protein serine/threonine/tyrosine kinase activity	IDA Inferred from Direct Assay more info	PubMed
enables protein serine/threonine/tyrosine kinase activity	IEA Inferred from Electronic Annotation more info
enables protein tyrosine kinase activity	IEA Inferred from Electronic Annotation more info
enables transferase activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in DNA damage checkpoint signaling	IEA Inferred from Electronic Annotation more info
involved_in DNA damage checkpoint signaling	IGI Inferred from Genetic Interaction more info	PubMed
involved_in DNA damage response	IEA Inferred from Electronic Annotation more info
involved_in DNA repair	IEA Inferred from Electronic Annotation more info
involved_in DNA repair	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in DNA replication initiation	IEA Inferred from Electronic Annotation more info
involved_in DNA replication initiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in deoxyribonucleoside triphosphate biosynthetic process	IEA Inferred from Electronic Annotation more info
involved_in deoxyribonucleoside triphosphate biosynthetic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in intracellular protein localization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mitotic DNA damage checkpoint signaling	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of DNA damage checkpoint	NAS Non-traceable Author Statement more info	PubMed
involved_in negative regulation of phosphorylation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of DNA repair	NAS Non-traceable Author Statement more info	PubMed
involved_in telomere maintenance in response to DNA damage	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	IDA Inferred from Direct Assay more info	PubMed
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
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: serine/threonine/tyrosine protein kinase RAD53

NP_015172.1

EC 2.7.12.1

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

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

261727..264192 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001183967.1 → NP_015172.1 TPA: serine/threonine/tyrosine protein kinase RAD53

See identical proteins and their annotated locations for NP_015172.1

Status: REVIEWED

UniProtKB/Swiss-Prot

D6W3L5, P22216, Q6B1S1

UniProtKB/TrEMBL

B3LKS4, C7GJA5, N1NVU5

Conserved Domains (2) summary

cd00060
Location:63 → 134

FHA; Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins ...

cd14098
Location:196 → 465

STKc_Rad53_Cds1; Catalytic domain of the yeast Serine/Threonine Kinases, Rad53 and Cds1