tdpt-1 5'-tyrosyl-DNA phosphodiesterase [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: tdpt-1
Official Full Name: 5'-tyrosyl-DNA phosphodiesterase
Primary source: WormBase:WBGene00013405
Locus tag: CELE_Y63D3A.4
See related: AllianceGenome:WB:WBGene00013405
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Caenorhabditis elegans (strain: Bristol N2)
Lineage: Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
Summary: Enables identical protein binding activity. Predicted to be involved in double-strand break repair. Predicted to be located in nucleus. Predicted to be active in PML body and cytoplasm. Is expressed in embryonic cell; germ line; somatic cell; and spermatheca. Human ortholog(s) of this gene implicated in autosomal recessive spinocerebellar ataxia 23. Orthologous to human TDP2 (tyrosyl-DNA phosphodiesterase 2). [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

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See tdpt-1 in Genome Data Viewer

Location:: chromosome: I

Exon count:: 7

Sequence:: Chromosome: I; NC_003279.8 (14097492..14101090, complement)

Chromosome I - NC_003279.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003279.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

TDPT-1 induces SUMOylation of ETS-4, which inhibits ETS-4 transcriptional activity, and MXL-1 counteracts this effect.
Title: TDP2 negatively regulates axon regeneration by inducing SUMOylation of an Ets transcription factor.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Y63D3A.4 (e-PCR)
- UniSTS:320418

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

Function	Evidence Code	Pubs
enables 5'-tyrosyl-DNA phosphodiesterase activity	IBA Inferred from Biological aspect of Ancestor more info
enables catalytic activity	IEA Inferred from Electronic Annotation more info
enables identical protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables nuclease 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	IEA Inferred from Electronic Annotation more info
involved_in double-strand break repair	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in PML body	IBA Inferred from Biological aspect of Ancestor more info
located_in PML body	IEA Inferred from Electronic Annotation more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: 5'-tyrosyl-DNA phosphodiesterase

NP_493461.1

Confirmed by transcript evidence

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_003279.8 Reference assembly

Range

14097492..14101090 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_061060.4 → NP_493461.1 5'-tyrosyl-DNA phosphodiesterase [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_493461.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q9XWG3

Conserved Domains (2) summary

cd09080
Location:121 → 360

TDP2; Phosphodiesterase domain of human TDP2, a 5'-tyrosyl DNA phosphodiesterase, and related domains

cd14672
Location:47 → 83

UBA_ceTYDP2_like; UBA-like domain found in Caenorhabditis elegans tyrosyl-DNA phosphodiesterase 2 (TDP2) and similar proteins