Tdp2 tyrosyl-DNA phosphodiesterase 2 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Tdp2provided by MGI
Official Full Name: tyrosyl-DNA phosphodiesterase 2provided by MGI
Primary source: MGI:MGI:1860486
See related: Ensembl:ENSMUSG00000035958 AllianceGenome:MGI:1860486
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Ttrap; D13Ertd656e
Summary: Predicted to enable several functions, including metal ion binding activity; phosphoric diester hydrolase activity; and single-stranded DNA binding activity. Predicted to be involved in double-strand break repair and neuron development. Predicted to act upstream of or within DNA repair. Predicted to be located in aggresome and nuclear body. Predicted to be active in PML body and cytoplasm. Is expressed in several structures, including alimentary system; limb; liver; spleen; and testis. 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, Apr 2022]
Expression: Ubiquitous expression in CNS E11.5 (RPKM 20.4), limb E14.5 (RPKM 14.2) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 13 A3.1; 13 10.7 cM

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	13	NC_000079.7 (25015642..25026136)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	13	NC_000079.6 (24831659..24842153)

Chromosome 13 - NC_000079.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

EMCV yields are significantly reduced during infection of mouse embryonic fibroblasts genetically ablated for TDP2.
Title: VPg unlinkase/TDP2 in cardiovirus infected cells: Re-localization and proteolytic cleavage.
The results collectively provide a structural mechanism for Tdp2 engagement of heterogeneous DNA damage that causes Top2 poisoning.
Title: Reversal of DNA damage induced Topoisomerase 2 DNA-protein crosslinks by Tdp2.
data show that TDP2 activity potentiates enterovirus infections and, in the case of coxsackievirus B3, is a required host function following virus infection of mouse cells
Title: Divergent Requirement for a DNA Repair Enzyme during Enterovirus Infections.
our data reveal TDP2-mediated error-free NHEJ as an efficient and accurate mechanism to repair TOP2-induced DSBs
Title: TDP2-dependent non-homologous end-joining protects against topoisomerase II-induced DNA breaks and genome instability in cells and in vivo.
Evidence implicates Tdp2 in the repair of Top1-mediated DNA damage in cultured cells and in vivo, in the absence of Tdp1.
Title: TDP2 promotes repair of topoisomerase I-mediated DNA damage in the absence of TDP1.
the protein associates with TGF-beta receptors and components of the TRAF6-TAK1 signaling module
Title: TTRAP is a novel component of the non-canonical TRAF6-TAK1 TGF-β signaling pathway.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Gene trapped (1)
Targeted (2) 1 citation
Endonuclease-mediated (2)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D13Ertd656e (e-PCR), detects polymorphism
- UniSTS:167120

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables 5'-tyrosyl-DNA phosphodiesterase activity	IBA Inferred from Biological aspect of Ancestor more info
enables 5'-tyrosyl-DNA phosphodiesterase activity	ISO Inferred from Sequence Orthology more info
enables catalytic activity	IEA Inferred from Electronic Annotation more info
enables endonuclease activity	ISA Inferred from Sequence Alignment more info	PubMed
enables hydrolase activity	IEA Inferred from Electronic Annotation more info
enables magnesium ion binding	ISO Inferred from Sequence Orthology more info
enables manganese ion binding	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables nuclease activity	IEA Inferred from Electronic Annotation more info
enables phosphoric diester hydrolase activity	ISA Inferred from Sequence Alignment more info	PubMed
enables single-stranded DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables single-stranded DNA binding	ISO Inferred from Sequence Orthology more info
enables tyrosyl-RNA phosphodiesterase activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA damage response	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within DNA repair	IEA Inferred from Electronic Annotation more info
involved_in double-strand break repair	IBA Inferred from Biological aspect of Ancestor more info
involved_in double-strand break repair	ISO Inferred from Sequence Orthology more info
involved_in neuron development	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in PML body	IBA Inferred from Biological aspect of Ancestor more info
located_in PML body	ISO Inferred from Sequence Orthology more info
located_in aggresome	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in nuclear body	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: tyrosyl-DNA phosphodiesterase 2

Names: 5'-Tyr-DNA phosphodiesterase; 5'-tyrosyl-DNA phosphodiesterase; TRAF and TNF receptor-associated protein; tyr-DNA phosphodiesterase 2

NP_062424.1

EC 3.1.4.-

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_019551.2 → NP_062424.1 tyrosyl-DNA phosphodiesterase 2

See identical proteins and their annotated locations for NP_062424.1

Status: VALIDATED

Source sequence(s)

AL589699, BC132511, BY719852

Consensus CDS

CCDS26381.1

UniProtKB/Swiss-Prot

A2RTH9, Q9JJX7

UniProtKB/TrEMBL

Q3TIU5

Related

ENSMUSP00000035660.3, ENSMUST00000038039.3

Conserved Domains (2) summary

cd09080
Location:124 → 366

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

cl21463
Location:38 → 74

UBA_like_SF; UBA domain-like superfamily