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

Summary

Official Symbol: atr.L
Official Full Name: ATR serine/threonine kinase L homeolog
Primary source: Xenbase:XB-GENE-1012725
Locus tag: XELAEV_18027725mg
See related: EnsemblRapid:ENSXLAG00005017347
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: atr; XATR; frp1; mec1; sckl; sckl1
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Genomic context

Location:: chromosome: 5L

Exon count:: 48

Annotation release	Status	Assembly	Chr	Location
101	current	Xenopus_laevis_v10.1 (GCF_017654675.1)	5L	NC_054379.1 (127846725..127914177, complement)
100	previous assembly	Xenopus_laevis_v2 (GCF_001663975.1)	5L	NC_030732.1 (117102105..117169872, complement)

Chromosome 5L - NC_054379.1 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?

The authors show, in live cells, that Ddx19 transiently relocalizes from the nucleopore to the nucleus upon DNA damage, in an ATR/Chk1-dependent manner, and that Ddx19 nuclear relocalization is required to clear R-loops (DNA:RNA hybrids).
Title: An ATR-dependent function for the Ddx19 RNA helicase in nuclear R-loop metabolism.
ATR-Chk1 DDR pathway appears to be dispensable for the preferential association of REV1 to MMC-damaged chromatin.
Title: REV1 is important for the ATR-Chk1 DNA damage response pathway in Xenopus egg extracts.
APE2 associates with Chk1; a serine residue (S86) in the Chk1-binding motif of APE2 is essential for Chk1 phosphorylation, indicating a Claspin-like but distinct role for APE2 in ATR-Chk1 signaling.
Title: APE2 is required for ATR-Chk1 checkpoint activation in response to oxidative stress.
MRN (MRE11-RAD50-NBS1) complex has role in ATR activation via TOPBP1 recruitment.
Title: A role for the MRN complex in ATR activation via TOPBP1 recruitment.
ATM activity is required for an early step in resection, leading to ATR activation, CtIP-T818 phosphorylation, and accumulation of CtIP on chromatin.
Title: Activation of DSB processing requires phosphorylation of CtIP by ATR.
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.
Human CDC6 physically interacts with ATR, a crucial checkpoint kinase, in a manner that is stimulated by phosphorylation by Cdk and the CDC6-ATR interaction is conserved in Xenopus.
Title: CDC6 interaction with ATR regulates activation of a replication checkpoint in higher eukaryotic cells.
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.
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.
interaction of the 9-1-1 complex (Rad9-Hus1-Rad1) with the BRCT I-II region of TopBP1 is necessary for binding of ATR-ATRIP to the ATR-activating domain of TopBP1 and the ensuing activation of ATR
Title: The Rad9-Hus1-Rad1 checkpoint clamp regulates interaction of TopBP1 with ATR.

Submit: New GeneRIF Correction See all GeneRIFs (16)

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 ATP binding	IEA Inferred from Electronic Annotation more info
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables histone H2AXS139 kinase activity	ISS Inferred from Sequence or Structural Similarity more info
enables kinase activity	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein heterodimerization activity	IPI Inferred from Physical Interaction more info	PubMed
enables protein serine kinase activity	IEA Inferred from Electronic Annotation more info
enables protein serine/threonine kinase activity	IDA Inferred from Direct Assay more info	PubMed
enables protein serine/threonine kinase activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA damage checkpoint signaling	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within DNA damage checkpoint signaling	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within DNA repair	IEA Inferred from Electronic Annotation more info
acts_upstream_of nuclear membrane disassembly	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within peptidyl-serine phosphorylation	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within telomere maintenance	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in PML body	ISS Inferred from Sequence or Structural Similarity more info
located_in chromosome	IEA Inferred from Electronic Annotation more info
located_in nuclear envelope	IEA Inferred from Electronic Annotation more info
is_active_in nuclear envelope	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
is_active_in site of DNA damage	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: serine/threonine-protein kinase atr

Names: ataxia telangiectasia and Rad3 related; ataxia telangiectasia and Rad3-related protein; checkpoint kinase; protein kinase

NP_001082049.1

EC 2.7.11.1

XP_018117212.1

EC 2.7.11.1

XP_018117213.1

EC 2.7.11.1

XP_041418035.1

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_001088580.1 → NP_001082049.1 serine/threonine-protein kinase atr

See identical proteins and their annotated locations for NP_001082049.1

Status: PROVISIONAL

Source sequence(s)

AY882989

UniProtKB/Swiss-Prot

Q5EGL8, Q9DDK7, Q9DE14

UniProtKB/TrEMBL

A0A974HK81

Related

ENSXLAP00005051189.1, ENSXLAT00005052351.1

Conserved Domains (5) summary

COG5032
Location:2145 → 2655

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

cd00892
Location:2304 → 2578

PIKKc_ATR; Catalytic domain of Ataxia telangiectasia and Rad3-related proteins

pfam02259
Location:1786 → 2104

FAT; FAT domain

pfam02260
Location:2624 → 2655

FATC; FATC domain

pfam08064
Location:1136 → 1240

UME; UME (NUC010) domain

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_054379.1 Reference Xenopus_laevis_v10.1 Primary Assembly

Range

127846725..127914177 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_018261723.2 → XP_018117212.1 serine/threonine-protein kinase atr isoform X2

UniProtKB/Swiss-Prot

Q5EGL8, Q9DDK7, Q9DE14

UniProtKB/TrEMBL

A0A8J0V7Z5, A0A974HK81
XM_018261724.2 → XP_018117213.1 serine/threonine-protein kinase atr isoform X1

UniProtKB/Swiss-Prot

Q5EGL8, Q9DDK7, Q9DE14

UniProtKB/TrEMBL

A0A8J0V998, A0A974HK81
XM_041562101.1 → XP_041418035.1 serine/threonine-protein kinase atr isoform X3

UniProtKB/Swiss-Prot

Q5EGL8, Q9DDK7, Q9DE14

UniProtKB/TrEMBL

A0A8J1KL41, A0A974HK81

Conserved Domains (3) summary

smart00802
Location:1067 → 1172

UME; Domain in UVSB PI-3 kinase, MEI-41 and ESR-1

COG5032
Location:2077 → 2587

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

cd00892
Location:2236 → 2510

PIKKc_ATR; Catalytic domain of Ataxia telangiectasia and Rad3-related proteins