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Xrcc5 X-ray repair complementing defective repair in Chinese hamster cells 5 [ Mus musculus (house mouse) ]

Gene ID: 22596, updated on 5-Jan-2023

Summary

Official Symbol
Xrcc5provided by MGI
Official Full Name
X-ray repair complementing defective repair in Chinese hamster cells 5provided by MGI
Primary source
MGI:MGI:104517
See related
Ensembl:ENSMUSG00000026187 AllianceGenome:MGI:104517
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
Ku80; Ku86; CTC85; CTCBF
Summary
Predicted to enable several functions, including nucleic acid binding activity; protein C-terminus binding activity; and ubiquitin protein ligase binding activity. Predicted to contribute to 5'-deoxyribose-5-phosphate lyase activity and double-stranded telomeric DNA binding activity. Acts upstream of or within several processes, including cellular response to leukemia inhibitory factor; hematopoietic stem cell differentiation; and positive regulation of neurogenesis. Located in cytoplasm and nucleus. Is expressed in thymus primordium. Human ortholog(s) of this gene implicated in chronic obstructive pulmonary disease and multiple myeloma. Orthologous to human XRCC5 (X-ray repair cross complementing 5). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in CNS E11.5 (RPKM 10.7), placenta adult (RPKM 9.8) and 24 other tissues See more
Orthologs
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Genomic context

See Xrcc5 in Genome Data Viewer
Location:
1 C3; 1 36.5 cM
Exon count:
22
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (72346576..72434112)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (72307417..72394953)

Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA D230017M19 gene Neighboring gene peroxisomal trans-2-enoyl-CoA reductase Neighboring gene transmembrane protein 169 Neighboring gene predicted gene, 51631 Neighboring gene predicted gene, 39661 Neighboring gene membrane associated ring-CH-type finger 4 Neighboring gene ribosomal protein L17 pseudogene

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (2)  1 citation
  • Chemically induced (ENU) (1) 
  • Endonuclease-mediated (2) 

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
contributes_to 5'-deoxyribose-5-phosphate lyase activity ISO
Inferred from Sequence Orthology
more info
 
enables ATP binding IEA
Inferred from Electronic Annotation
more info
 
enables ATP hydrolysis activity ISO
Inferred from Sequence Orthology
more info
 
enables ATP-dependent activity, acting on DNA ISO
Inferred from Sequence Orthology
more info
 
enables DNA binding IEA
Inferred from Electronic Annotation
more info
 
contributes_to DNA end binding ISO
Inferred from Sequence Orthology
more info
 
enables DNA end binding ISO
Inferred from Sequence Orthology
more info
 
enables DNA helicase activity IEA
Inferred from Electronic Annotation
more info
 
enables RNA binding ISO
Inferred from Sequence Orthology
more info
 
enables U3 snoRNA binding ISO
Inferred from Sequence Orthology
more info
 
enables damaged DNA binding IEA
Inferred from Electronic Annotation
more info
 
contributes_to double-stranded DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
contributes_to double-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
 
contributes_to double-stranded telomeric DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables helicase activity IEA
Inferred from Electronic Annotation
more info
 
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
 
enables nucleotide binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein-containing complex binding ISO
Inferred from Sequence Orthology
more info
 
enables telomeric DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables telomeric DNA binding ISO
Inferred from Sequence Orthology
more info
 
enables transcription cis-regulatory region binding ISO
Inferred from Sequence Orthology
more info
 
enables ubiquitin protein ligase binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
acts_upstream_of_or_within DNA recombination IEA
Inferred from Electronic Annotation
more info
 
involved_in DNA recombination IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within DNA repair IEA
Inferred from Electronic Annotation
more info
 
involved_in activation of innate immune response ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular hyperosmotic salinity response ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular response to DNA damage stimulus ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular response to X-ray IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in cellular response to X-ray ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular response to gamma radiation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in cellular response to gamma radiation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within cellular response to leukemia inhibitory factor IEP
Inferred from Expression Pattern
more info
PubMed 
acts_upstream_of_or_within double-strand break repair IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within double-strand break repair IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in double-strand break repair ISO
Inferred from Sequence Orthology
more info
 
involved_in double-strand break repair via nonhomologous end joining IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in double-strand break repair via nonhomologous end joining ISO
Inferred from Sequence Orthology
more info
 
involved_in double-strand break repair via nonhomologous end joining NAS
Non-traceable Author Statement
more info
PubMed 
acts_upstream_of_or_within hematopoietic stem cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within hematopoietic stem cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within immune system process IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within innate immune response IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within leptotene IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of DNA-templated transcription ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of t-circle formation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of neurogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within positive regulation of neurogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of protein kinase activity ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of telomere maintenance via telomerase ISO
Inferred from Sequence Orthology
more info
 
involved_in recombinational repair NAS
Non-traceable Author Statement
more info
PubMed 
involved_in regulation of smooth muscle cell proliferation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within ribosome biogenesis IEA
Inferred from Electronic Annotation
more info
 
involved_in small-subunit processome assembly ISO
Inferred from Sequence Orthology
more info
 
involved_in telomere maintenance IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
part_of DNA-dependent protein kinase complex ISO
Inferred from Sequence Orthology
more info
 
part_of Ku70:Ku80 complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of Ku70:Ku80 complex ISO
Inferred from Sequence Orthology
more info
 
located_in chromosome IEA
Inferred from Electronic Annotation
more info
 
located_in chromosome, telomeric region ISO
Inferred from Sequence Orthology
more info
 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
 
part_of nonhomologous end joining complex ISO
Inferred from Sequence Orthology
more info
 
located_in nucleolus ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
 
part_of protein-DNA complex ISO
Inferred from Sequence Orthology
more info
 
part_of protein-containing complex ISO
Inferred from Sequence Orthology
more info
 
part_of ribonucleoprotein complex ISO
Inferred from Sequence Orthology
more info
 
located_in site of DNA damage ISO
Inferred from Sequence Orthology
more info
 
part_of small-subunit processome ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
X-ray repair cross-complementing protein 5
Names
ATP-dependent DNA helicase 2 subunit 2
ATP-dependent DNA helicase II 80 kDa subunit
CTC box-binding factor 85 kDa subunit
DNA repair protein XRCC5
Ku p80
ku autoantigen protein p86 homolog
nuclear factor IV
NP_001344448.1
NP_001344449.1
NP_033559.2
XP_006495955.1
XP_006495956.1

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)

  1. NM_001357519.1NP_001344448.1  X-ray repair cross-complementing protein 5 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC114629, AC114905
    Conserved Domains (3) summary
    cd00873
    Location:225523
    KU80; Ku-core domain, Ku80 subfamily; Ku80 is a subunit of the Ku protein, which plays a key role in multiple nuclear processes such as DNA repair, chromosome maintenance, transcription regulation, and V(D)J recombination. The mechanism underlying the ...
    pfam03731
    Location:1225
    Ku_N; Ku70/Ku80 N-terminal alpha/beta domain
    pfam08785
    Location:575687
    Ku_PK_bind; Ku C terminal domain like
  2. NM_001357520.1NP_001344449.1  X-ray repair cross-complementing protein 5 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AC114629, AC114905
    Conserved Domains (3) summary
    cd00873
    Location:225523
    KU80; Ku-core domain, Ku80 subfamily; Ku80 is a subunit of the Ku protein, which plays a key role in multiple nuclear processes such as DNA repair, chromosome maintenance, transcription regulation, and V(D)J recombination. The mechanism underlying the ...
    pfam03731
    Location:1225
    Ku_N; Ku70/Ku80 N-terminal alpha/beta domain
    pfam08785
    Location:575687
    Ku_PK_bind; Ku C terminal domain like
  3. NM_009533.2NP_033559.2  X-ray repair cross-complementing protein 5 isoform 1

    See identical proteins and their annotated locations for NP_033559.2

    Status: VALIDATED

    Source sequence(s)
    AK081633, AK165470, CJ220465
    Consensus CDS
    CCDS35608.1
    UniProtKB/Swiss-Prot
    P27641, Q9R169
    Related
    ENSMUSP00000027379.9, ENSMUST00000027379.10
    Conserved Domains (4) summary
    cd00873
    Location:244542
    KU80; Ku-core domain, Ku80 subfamily; Ku80 is a subunit of the Ku protein, which plays a key role in multiple nuclear processes such as DNA repair, chromosome maintenance, transcription regulation, and V(D)J recombination. The mechanism underlying the ...
    TIGR00578
    Location:9577
    ku70; ATP-dependent DNA helicase II, 70 kDa subunit (ku70)
    pfam03731
    Location:9244
    Ku_N; Ku70/Ku80 N-terminal alpha/beta domain
    pfam08785
    Location:594706
    Ku_PK_bind; Ku C terminal domain like

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000067.7 Reference GRCm39 C57BL/6J

    Range
    72346576..72434112
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006495892.2XP_006495955.1  X-ray repair cross-complementing protein 5 isoform X1

    Conserved Domains (3) summary
    cd00873
    Location:244542
    KU80; Ku-core domain, Ku80 subfamily; Ku80 is a subunit of the Ku protein, which plays a key role in multiple nuclear processes such as DNA repair, chromosome maintenance, transcription regulation, and V(D)J recombination. The mechanism underlying the ...
    pfam03731
    Location:9244
    Ku_N; Ku70/Ku80 N-terminal alpha/beta domain
    pfam08785
    Location:594722
    Ku_PK_bind; Ku C terminal domain like
  2. XM_006495893.4XP_006495956.1  X-ray repair cross-complementing protein 5 isoform X2

    Conserved Domains (3) summary
    cd00873
    Location:225523
    KU80; Ku-core domain, Ku80 subfamily; Ku80 is a subunit of the Ku protein, which plays a key role in multiple nuclear processes such as DNA repair, chromosome maintenance, transcription regulation, and V(D)J recombination. The mechanism underlying the ...
    pfam03731
    Location:1225
    Ku_N; Ku70/Ku80 N-terminal alpha/beta domain
    pfam08785
    Location:575703
    Ku_PK_bind; Ku C terminal domain like