atm.L ATM serine/threonine kinase L homeolog [Xenopus laevis (African clawed frog)] - Gene

Summary

Official Symbol: atm.L
Official Full Name: ATM serine/threonine kinase L homeolog
Primary source: Xenbase:XB-GENE-493814
Locus tag: XELAEV_18003301mg
See related: EnsemblRapid:ENSXLAG00005000677 AllianceGenome:Xenbase:XB-GENE-493814
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Xenopus laevis
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Amphibia; Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae; Xenopus; Xenopus
Also known as: at1; atm; Xatm; atdc; tel1; telo1
Summary: Predicted to enable 1-phosphatidylinositol-3-kinase activity and protein serine/threonine kinase activity. Predicted to act upstream of or within mitotic spindle assembly checkpoint signaling and response to ionizing radiation. Predicted to be located in nucleus. Human ortholog(s) of this gene implicated in several diseases, including breast cancer (multiple); endocrine gland cancer (multiple); lung carcinoma (multiple); neurodegenerative disease (multiple); and senile cataract. Orthologous to human ATM (ATM serine/threonine kinase). [provided by Alliance of Genome Resources, Jan 2025]
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Genomic context

Location:: chromosome: 2L

Exon count:: 64

Annotation release	Status	Assembly	Chr	Location
101	current	Xenopus_laevis_v10.1 (GCF_017654675.1)	2L	NC_054373.1 (170920375..171020957)
100	previous assembly	Xenopus_laevis_v2 (GCF_001663975.1)	Unplaced Scaffold	NW_016694836.1 (1332473..1435065)

Chromosome 2L - NC_054373.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Dna2 co-localizes in foci with RPA and is found in a complex with replication fork components And-1 and Mcm10. Dna2 interacts with the DSB repair and checkpoint proteins Nbs1 and ATM.
Title: Xenopus DNA2 is a helicase/nuclease that is found in complexes with replication proteins And-1/Ctf4 and Mcm10 and DSB response proteins Nbs1 and ATM.
ATM and ATR prevent accumulation of chromosomal abnormalities by promoting Mre11/Rad50/Nbs1 dependent recovery of collapsed replication forks.
Title: ATM and ATR promote Mre11 dependent restart of collapsed replication forks and prevent accumulation of DNA breaks.
The Fanconi anemia protein FANCM is controlled by FANCD2 and the ATR/ATM pathways.
Title: The Fanconi anemia protein FANCM is controlled by FANCD2 and the ATR/ATM pathways.
These findings suggest that the MRN complex is a crucial mediator in the process whereby ATM promotes the TopBP1-dependent activation of ATR-ATRIP in response to double-stranded DNA breaks.
Title: The Mre11-Rad50-Nbs1 complex mediates activation of TopBP1 by ATM.
ATM and ATR control mitotic events in vertebrate cells by targeting CEP63 and centrosome dependent spindle assembly.
Title: An ATM- and ATR-dependent checkpoint inactivates spindle assembly by targeting CEP63.
Data show that ATM (ataxia-telangiectasia mutated) regulates Xenopus TopBP1 by phosphorylating serine 1131 and thereby strongly enhancing association of TopBP1 with ATR(ATM and Rad3-related).
Title: Ataxia-telangiectasia mutated (ATM)-dependent activation of ATR occurs through phosphorylation of TopBP1 by ATM.
ATM and ATR phosphorylate the functionally critical replication protein Mcm2 during both DNA damage and replication checkpoint responses in Xenopus egg extracts
Title: Mcm2 is a direct substrate of ATM and ATR during DNA damage and DNA replication checkpoint responses.
PP2A counteracts ATM and ATR in a DNA damage checkpoint in Xenopus egg extracts
Title: Protein phosphatase 2A antagonizes ATM and ATR in a Cdk2- and Cdc7-independent DNA damage checkpoint.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by Xenbase

Function	Evidence Code	Pubs
enables 1-phosphatidylinositol-3-kinase activity	ISS Inferred from Sequence or Structural Similarity more info
enables 3-phosphoinositide-dependent protein kinase activity	IEA Inferred from Electronic Annotation more info
enables AMP-activated protein kinase activity	IEA Inferred from Electronic Annotation more info
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables DNA-dependent protein kinase activity	IEA Inferred from Electronic Annotation more info
enables Rho-dependent protein serine/threonine kinase activity	IEA Inferred from Electronic Annotation more info
enables eukaryotic translation initiation factor 2alpha kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H2AS1 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H2AS121 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H2AT120 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H2AXS139 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H2BS14 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H2BS36 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3S10 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3S28 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3S57 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3T11 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3T3 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3T45 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H3T6 kinase activity	IEA Inferred from Electronic Annotation more info
enables histone H4S1 kinase activity	IEA Inferred from Electronic Annotation more info
enables protein serine/threonine kinase activity	IEA Inferred from Electronic Annotation more info
enables protein serine/threonine kinase activity	ISS Inferred from Sequence or Structural Similarity more info
enables ribosomal protein S6 kinase activity	IEA Inferred from Electronic Annotation 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
acts_upstream_of_or_within mitotic spindle assembly checkpoint signaling	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within response to ionizing radiation	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: ATM serine/threonine kinase L homeolog

Names: ataxia telangiectasia mutated

NP_001081968.1

EC 2.7.11.1

XP_041436840.1

EC 2.7.11.1

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_001088499.1 → NP_001081968.1 ATM serine/threonine kinase L homeolog

See identical proteins and their annotated locations for NP_001081968.1

Status: PROVISIONAL

Source sequence(s)

AY668954

UniProtKB/TrEMBL

Q5MPF8

Related

ENSXLAP00005001970.1, ENSXLAT00005002016.1

Conserved Domains (4) summary

cd05171
Location:2692 → 2971

PIKKc_ATM; Catalytic domain of Ataxia Telangiectasia Mutated

pfam02259
Location:2104 → 2498

FAT; FAT domain

pfam02260
Location:3031 → 3060

FATC; FATC domain

pfam11640
Location:11 → 165

TAN; Telomere-length maintenance and DNA damage repair

RefSeqs of Annotated Genomes: Xenopus laevis Annotation Release 101 details...

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

Reference Xenopus_laevis_v10.1 Primary Assembly

Genomic

NC_054373.1 Reference Xenopus_laevis_v10.1 Primary Assembly

Range

170920375..171020957

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_041580906.1 → XP_041436840.1 ATM serine/threonine kinase L homeolog isoform X1

UniProtKB/TrEMBL

A0A8J1M717

Related

ENSXLAP00005001969.1, ENSXLAT00005002015.1

Conserved Domains (2) summary

COG5032
Location:2464 → 3060

TEL1; Phosphatidylinositol kinase or protein kinase, PI-3 family [Signal transduction mechanisms]

cd05171
Location:2692 → 2971

PIKKc_ATM; Catalytic domain of Ataxia Telangiectasia Mutated