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TDP1 tyrosyl-DNA phosphodiesterase 1 [ Saccharomyces cerevisiae S288C ]

Gene ID: 852525, updated on 2-Nov-2024

Summary

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Official Symbol
TDP1
Official Full Name
tyrosyl-DNA phosphodiesterase 1
Primary source
SGD:S000000427
Locus tag
YBR223C
See related
AllianceGenome:SGD:S000000427; FungiDB:YBR223C; VEuPathDB:YBR223C
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Saccharomyces cerevisiae S288C (strain: S288C)
Lineage
Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
Summary
Enables 3'-tyrosyl-DNA phosphodiesterase activity and 5'-tyrosyl-DNA phosphodiesterase activity. Involved in DNA repair. Located in mitochondrion and nucleus. Used to study spinocerebellar ataxia with axonal neuropathy 1. Human ortholog(s) of this gene implicated in spinocerebellar ataxia with axonal neuropathy 1. Orthologous to human TDP1 (tyrosyl-DNA phosphodiesterase 1). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See TDP1 in Genome Data Viewer
Location:
chromosome: II
Exon count:
1
Sequence:
Chromosome: II; NC_001134.8 (668663..670297, complement)

Chromosome II - NC_001134.8Genomic Context describing neighboring genes Neighboring gene uncharacterized protein Neighboring gene Pcs60p Neighboring gene uncharacterized protein Neighboring gene Mcx1p

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_001134.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. The role of TDP1 from budding yeast in the repair of DNA damage. Liu C, et al. DNA Repair (Amst), 2004 Jun 3. PMID 15135727
  2. Processing of nucleopeptides mimicking the topoisomerase I-DNA covalent complex by tyrosyl-DNA phosphodiesterase. Debéthune L, et al. Nucleic Acids Res, 2002 Mar 1. PMID 11861912, Free PMC Article
  3. Tyrosyl-DNA phosphodiesterase I catalytic mutants reveal an alternative nucleophile that can catalyze substrate cleavage. Comeaux EQ, et al. J Biol Chem, 2015 Mar 6. PMID 25609251, Free PMC Article
  4. Analysis of the active-site mechanism of tyrosyl-DNA phosphodiesterase I: a member of the phospholipase D superfamily. Gajewski S, et al. J Mol Biol, 2012 Jan 27. PMID 22155078, Free PMC Article
  5. N-terminal domain of tyrosyl-DNA phosphodiesterase I regulates topoisomerase I-induced toxicity in cells. Brettrager EJ, et al. Sci Rep, 2023 Jan 25. PMID 36697463, Free PMC Article

See all (70) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. MUS81 cleaves TOP1-derived lesions and other DNA-protein cross-links.
    Title: MUS81 cleaves TOP1-derived lesions and other DNA-protein cross-links.
  2. N-terminal domain of tyrosyl-DNA phosphodiesterase I regulates topoisomerase I-induced toxicity in cells.
    Title: N-terminal domain of tyrosyl-DNA phosphodiesterase I regulates topoisomerase I-induced toxicity in cells.
  3. We show that two genes, TDP1, a tyrosyl-DNA-phosphdiesterase, and TAF12, an RNA polymerase II TATA-box binding factor, cause CIN when overexpressed in human cells. Using SDL screens in yeast, we identified a set of genes that when deleted specifically kill cells with high levels of Tdp1
    Title: Overexpression screens identify conserved dosage chromosome instability genes in yeast and human cancer.
  4. Data show that mutation of a conserved active site residue converts tyrosyl-DNA phosphodiesterase I into a DNA topoisomerase I-dependent poison.
    Title: Mutation of a conserved active site residue converts tyrosyl-DNA phosphodiesterase I into a DNA topoisomerase I-dependent poison.
Submit: New GeneRIF Correction

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Gene Ontology Provided by SGD

Function Evidence Code Pubs
enables 3'-tyrosyl-DNA phosphodiesterase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables 3'-tyrosyl-DNA phosphodiesterase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables 5'-tyrosyl-DNA phosphodiesterase activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables double-stranded DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables exonuclease activity IEA
Inferred from Electronic Annotation
more info
  
enables phosphoric diester hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables single-stranded DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in DNA repair IBA
Inferred from Biological aspect of Ancestor
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 
Component Evidence Code Pubs
located_in mitochondrion 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
tyrosyl-DNA phosphodiesterase 1
NP_009782.3
  • Tyrosyl-DNA phosphodiesterase I; hydrolyzes 3' and 5'-phosphotyrosyl bonds; involved in the repair of DNA lesions created by topo I and topo II, including DNA-protein cross-links; mutations in the human homolog, TDP1, result in the neurodegenerative disease, spinocerebellar ataxia with axonal neuropathy (SCAN1); yeast cells and human rhabdomyosarcoma lines that overexpress TDP1 both exhibit elevated dosage chromosomal instability (dCIN)

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

  1. NC_001134.8 Reference assembly

    Range
    668663..670297 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001178571.3 → NP_009782.3  TPA: tyrosyl-DNA phosphodiesterase 1 [Saccharomyces cerevisiae S288C]

    See identical proteins and their annotated locations for NP_009782.3

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    D6VQM0, P38319
    UniProtKB/TrEMBL
    G2W9M7
    Conserved Domains (1) summary
    pfam06087
    Location:83 → 525
    Tyr-DNA_phospho; Tyrosyl-DNA phosphodiesterase
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P38319.1

Gene LinkOut

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