XRCC5

X-ray repair cross complementing 5 | KARP-1, KU80, KUB2, Ku86

The protein encoded by this gene is the 80-kilodalton subunit of the Ku heterodimer protein which is also known as ATP-dependant DNA helicase II or DNA repair protein XRCC5. Ku is the DNA-binding component of the DNA-dependent protein kinase, and it functions together with the DNA ligase IV-XRCC4 complex in the repair of DNA double-strand break by non-homologous end joining and the completion of V(D)J recombination events. This gene functionally complements Chinese hamster xrs-6, a mutant defective in DNA double-strand break repair and in ability to undergo V(D)J recombination. A rare microsatellite polymorphism in this gene is associated with cancer in patients of varying radiosensitivity. [provided by RefSeq, Jul 2008]

Member of: DE-11 DE-11.2 Developmental clusters: GC5

Biological processes 79 terms

3'-5' DNA helicase activity (GO:0043138)5'-deoxyribose-5-phosphate lyase activity (GO:0051575)ATP hydrolysis activity (GO:0016887)ATP hydrolysis activity (GO:0016887)ATP-dependent activity, acting on DNA (GO:0008094)DNA binding (GO:0003677)DNA binding (GO:0003677)DNA damage response (GO:0006974)DNA end binding (GO:0045027)DNA end binding (GO:0045027)DNA helicase activity (GO:0003678)DNA helicase activity (GO:0003678)DNA recombination (GO:0006310)DNA recombination (GO:0006310)DNA-dependent protein kinase-DNA ligase 4 complex (GO:0005958)Ku70:Ku80 complex (GO:0043564)Ku70:Ku80 complex (GO:0043564)Ku70:Ku80 complex (GO:0043564)Ku70:Ku80 complex (GO:0043564)RNA binding (GO:0003723)RNA binding (GO:0003723)U3 snoRNA binding (GO:0034511)activation of innate immune response (GO:0002218)cellular response to gamma radiation (GO:0071480)chromosome (GO:0005694)chromosome, telomeric region (GO:0000781)chromosome, telomeric region (GO:0000781)class I DNA-(apurinic or apyrimidinic site) endonuclease activity (GO:0140078)cytoplasm (GO:0005737)cytosol (GO:0005829)damaged DNA binding (GO:0003684)double-strand break repair (GO:0006302)double-strand break repair (GO:0006302)double-strand break repair (GO:0006302)double-strand break repair via nonhomologous end joining (GO:0006303)double-strand break repair via nonhomologous end joining (GO:0006303)double-strand break repair via nonhomologous end joining (GO:0006303)double-strand break repair via nonhomologous end joining (GO:0006303)double-strand break repair via nonhomologous end joining (GO:0006303)double-strand break repair via nonhomologous end joining (GO:0006303)double-stranded DNA binding (GO:0003690)double-stranded DNA binding (GO:0003690)double-stranded telomeric DNA binding (GO:0003691)enzyme activator activity (GO:0008047)extracellular region (GO:0005576)membrane (GO:0016020)negative regulation of DNA-templated transcription (GO:0045892)negative regulation of t-circle formation (GO:1904430)nonhomologous end joining complex (GO:0070419)nuclear telomere cap complex (GO:0000783)nucleolus (GO:0005730)nucleolus (GO:0005730)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)protein binding (GO:0005515)protein localization to chromosome, telomeric region (GO:0070198)protein-DNA complex (GO:0032993)protein-containing complex (GO:0032991)protein-containing complex binding (GO:0044877)recombinational repair (GO:0000725)regulation of smooth muscle cell proliferation (GO:0048660)regulation of telomere maintenance (GO:0032204)ribonucleoprotein complex (GO:1990904)secretory granule lumen (GO:0034774)site of DNA damage (GO:0090734)small-subunit processome (GO:0032040)small-subunit processome assembly (GO:0034462)telomere maintenance (GO:0000723)telomere maintenance (GO:0000723)telomere maintenance via telomerase (GO:0007004)telomeric repeat DNA binding (GO:0042162)telomeric repeat DNA binding (GO:0042162)telomeric repeat DNA binding (GO:0042162)telomeric repeat DNA binding (GO:0042162)transcription cis-regulatory region binding (GO:0000976)ubiquitin protein ligase binding (GO:0031625)

Expression (TPM)

TFs regulating XRCC5 0 TFs

Transcription factors with Perturb-seq knockdown data for XRCC5. The Binding column indicates whether any binding evidence exists for this TF–gene pair (ChIP-seq or motif footprint peaks). The Mean coef is the average Perturb-seq regression coefficient across active gRNAs (positive = XRCC5 upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.

TF	Mean coef	Binding	Outlier	TF→Gene link

Rows:

Elements linked to XRCC5

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of XRCC5, linked by TSS proximity or chromatin conformation (Multiome / HiCAR). Each element overlaps at least one TF ChIP-seq binding site — the TFs column shows how many distinct TFs bind that element.

Element	Dist. to TSS	Link type	TFs
chr2:215,905,935–215,906,837	202.9 kb	Distal (>10kb) Multiome	76
chr2:216,012,871–216,013,914	95.8 kb	Distal (>10kb) Multiome	664
chr2:216,081,343–216,082,368	27.5 kb	Distal (>10kb) Multiome	872
chr2:216,107,611–216,108,771	558 bp	At TSS	288
chr2:216,109,035–216,110,011	27 bp	At TSS Multiome	866
chr2:216,114,288–216,115,514	5.6 kb	Proximal (<10kb) Multiome	671
chr2:216,275,236–216,275,858	166.2 kb	Distal (>10kb) Multiome	120
chr2:216,283,571–216,284,041	174.4 kb	Distal (>10kb) Multiome	206
chr2:216,292,640–216,293,553	183.8 kb	Distal (>10kb) Multiome	205
chr2:216,317,598–216,318,777	208.6 kb	Distal (>10kb) Multiome	193
chr2:216,339,679–216,340,452	230.8 kb	Distal (>10kb) Multiome	192
chr2:216,345,559–216,346,320	236.6 kb	Distal (>10kb) Multiome	100
chr2:216,370,964–216,372,465	263.0 kb	Distal (>10kb) Multiome	850

Genome Browser

Genomic view of the XRCC5 locus showing ATAC-seq accessibility and RNA-seq expression across the ESC → DE time course, together with TF binding peaks and element-to-TSS loop connections.