XRCC6 [The Human Chemical-Genetic Interaction Map Project]

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======= XRCC6 =======


== Gene Information ==
  * **<color #00a2e8>Official Symbol</color>**: XRCC6
  * **<color #00a2e8>Official Name</color>**: X-ray repair cross complementing 6
  * **<color #00a2e8>Aliases and Previous Symbols</color>**: N/A
  * **<color #00a2e8>Entrez ID</color>**: [[https://www.ncbi.nlm.nih.gov/gene/?term=2547|2547]]
  * **<color #00a2e8>UniProt</color>**: [[https://www.uniprot.org/uniprot/P12956|P12956]]
  * **<color #00a2e8>Interactions</color>**: [[https://thebiogrid.org/search.php?search=XRCC6&organism=9606|BioGRID]]
  * **<color #00a2e8>PubMed articles</color>**: [[https://www.ncbi.nlm.nih.gov/pubmed/?term=gene%20XRCC6|Open PubMed]]
  * **<color #00a2e8>OMIM</color>**: [[https://omim.org/entry/152690|Open OMIM]]

== Function Summary ==
  * **<color #00a2e8>Entrez Summary</color>**: N/A
  * **<color #00a2e8>UniProt Summary</color>**:  Single-stranded DNA-dependent ATP-dependent helicase. Has a role in chromosome translocation. The DNA helicase II complex binds preferentially to fork-like ends of double-stranded DNA in a cell cycle-dependent manner. It works in the 3'-5' direction. Binding to DNA may be mediated by XRCC6. Involved in DNA non-homologous end joining (NHEJ) required for double-strand break repair and V(D)J recombination. The XRCC5/6 dimer acts as regulatory subunit of the DNA-dependent protein kinase complex DNA-PK by increasing the affinity of the catalytic subunit PRKDC to DNA by 100-fold. The XRCC5/6 dimer is probably involved in stabilizing broken DNA ends and bringing them together. The assembly of the DNA-PK complex to DNA ends is required for the NHEJ ligation step. Required for osteocalcin gene expression. Probably also acts as a 5'-deoxyribose-5-phosphate lyase (5'-dRP lyase), by catalyzing the beta-elimination of the 5' deoxyribose- 5-phosphate at an abasic site near double-strand breaks. 5'-dRP lyase activity allows to 'clean' the termini of abasic sites, a class of nucleotide damage commonly associated with strand breaks, before such broken ends can be joined. The XRCC5/6 dimer together with APEX1 acts as a negative regulator of transcription. Plays a role in the regulation of DNA virus-mediated innate immune response by assembling into the HDP-RNP complex, a complex that serves as a platform for IRF3 phosphorylation and subsequent innate immune response activation through the cGAS-STING pathway. {ECO:0000269|PubMed:12145306, ECO:0000269|PubMed:20383123, ECO:0000269|PubMed:20493174, ECO:0000269|PubMed:2466842, ECO:0000269|PubMed:28712728, ECO:0000269|PubMed:7957065, ECO:0000269|PubMed:8621488, ECO:0000269|PubMed:9742108}.

<button type='primary' size='sm' modal='Pfam_Domains'>Pfam Domains</button>
<button type='primary' size='sm' modal='GO_terms'>GO Terms</button>


<modal id='Pfam_Domains' size='lg' title='Pfam Domains'>
|SAP|
|Ku|
|Ku N|
|Ku C|
</modal>

<modal id='GO_terms' size='lg' title='GO Terms'>
|Ku70:Ku80 complex|
|cellular hyperosmotic salinity response|
|double-strand break repair via classical nonhomologous end joining|
|5-deoxyribose-5-phosphate lyase activity|
|establishment of integrated proviral latency|
|cellular response to salt stress|
|nonhomologous end joining complex|
|establishment of viral latency|
|double-stranded telomeric DNA binding|
|hyperosmotic salinity response|
|nuclear telomere cap complex|
|cellular response to X-ray|
|cellular hyperosmotic response|
|viral latency|
|DNA ligation|
|response to salt stress|
|hyperosmotic response|
|telomeric DNA binding|
|response to X-ray|
|cellular response to gamma radiation|
|cyclin binding|
|protein heterotetramerization|
|cellular response to osmotic stress|
|protein-DNA complex|
|damaged DNA binding|
|response to gamma radiation|
|double-strand break repair via nonhomologous end joining|
|DNA helicase activity|
|non-recombinational repair|
|cellular response to ionizing radiation|
|response to osmotic stress|
|positive regulation of type I interferon production|
|telomere maintenance|
|telomere organization|
|double-stranded DNA binding|
|protein heterooligomerization|
|nuclear chromosome, telomeric region|
|DNA duplex unwinding|
|secretory granule lumen|
|DNA geometric change|
|ficolin-1-rich granule lumen|
|regulation of type I interferon production|
|regulation of smooth muscle cell proliferation|
|response to ionizing radiation|
|protein tetramerization|
|cellular response to radiation|
|double-strand break repair|
|protein C-terminus binding|
|transcription factor complex|
|transcription regulatory region DNA binding|
|DNA recombination|
|activation of innate immune response|
|protein-containing complex binding|
|DNA conformation change|
|cellular response to abiotic stimulus|
|cellular response to environmental stimulus|
|positive regulation of innate immune response|
|anatomical structure homeostasis|
|positive regulation of response to biotic stimulus|
|response to radiation|
|positive regulation of cytokine production|
|regulation of innate immune response|
|positive regulation of defense response|
|neutrophil degranulation|
|neutrophil activation involved in immune response|
|neutrophil mediated immunity|
|neutrophil activation|
|granulocyte activation|
|positive regulation of multi-organism process|
|DNA repair|
|leukocyte degranulation|
|myeloid leukocyte mediated immunity|
|protein complex oligomerization|
|regulation of response to biotic stimulus|
|myeloid cell activation involved in immune response|
|positive regulation of protein kinase activity|
|positive regulation of kinase activity|
|myeloid leukocyte activation|
|protein-containing complex|
|positive regulation of response to external stimulus|
|leukocyte activation involved in immune response|
|cell activation involved in immune response|
|activation of immune response|
|positive regulation of transferase activity|
|regulation of cytokine production|
|viral process|
|regulated exocytosis|
|brain development|
|DNA metabolic process|
|regulation of defense response|
|leukocyte mediated immunity|
|innate immune response|
|regulation of multi-organism process|
|cellular response to DNA damage stimulus|
|head development|
|symbiotic process|
|exocytosis|
|regulation of protein kinase activity|
|interspecies interaction between organisms|
|nucleolus|
|positive regulation of immune response|
|regulation of kinase activity|
|leukocyte activation|
|defense response to other organism|
|regulation of transferase activity|
|central nervous system development|
|secretion by cell|
|positive regulation of protein phosphorylation|
|export from cell|
|positive regulation of phosphorylation|
|chromosome organization|
|cell activation|
|immune effector process|
|regulation of response to external stimulus|
|secretion|
|positive regulation of phosphorus metabolic process|
|positive regulation of phosphate metabolic process|
|positive regulation of immune system process|
|regulation of immune response|
|response to abiotic stimulus|
|negative regulation of transcription, DNA-templated|
|positive regulation of transcription by RNA polymerase II|
|positive regulation of protein modification process|
|negative regulation of nucleic acid-templated transcription|
|negative regulation of RNA biosynthetic process|
|response to other organism|
|response to external biotic stimulus|
|response to biotic stimulus|
|negative regulation of RNA metabolic process|
|defense response|
|negative regulation of cellular macromolecule biosynthetic process|
|RNA binding|
|positive regulation of catalytic activity|
|negative regulation of nucleobase-containing compound metabolic process|
|regulation of protein phosphorylation|
|DNA binding|
|negative regulation of macromolecule biosynthetic process|
|regulation of response to stress|
|ATP binding|
|negative regulation of cellular biosynthetic process|
|positive regulation of transcription, DNA-templated|
|negative regulation of biosynthetic process|
|protein-containing complex assembly|
|regulation of phosphorylation|
|positive regulation of cellular protein metabolic process|
|regulation of cell population proliferation|
|positive regulation of nucleic acid-templated transcription|
|positive regulation of RNA biosynthetic process|
|homeostatic process|
|regulation of immune system process|
|cellular response to stress|
|positive regulation of protein metabolic process|
|negative regulation of gene expression|
|positive regulation of RNA metabolic process|
|positive regulation of multicellular organismal process|
|positive regulation of molecular function|
|regulation of phosphate metabolic process|
|regulation of phosphorus metabolic process|
|regulation of protein modification process|
|protein-containing complex subunit organization|
|immune response|
|positive regulation of nucleobase-containing compound metabolic process|
|positive regulation of macromolecule biosynthetic process|
|extracellular region|
|vesicle-mediated transport|
|positive regulation of cellular biosynthetic process|
|positive regulation of gene expression|
|membrane|
|positive regulation of biosynthetic process|
</modal>
\\

 === CRISPR Data ===
<button type='primary' size='small' modal='Compound_Hit'>Compound Hit</button>
<button type='primary' size='small' modal='Most_Correlated_Genes'>Most Correlated Genes in Chemogenomics</button>
<button type='primary' size='small' modal='Essential_Avana'>Tissues where Essential in the Avana Dataset (DepMap 20Q1)</button>

<modal id='Compound_Hit' size='lg' title='Compound Hit'>
^Screen^Score^
|[[:results:exp472|CI-1040 9.5μM R08 exp472]]|-2.08|
|[[:results:exp96|BI-2536 0.02μM R03 exp96]]|-1.82|
|[[:results:exp19|Etoposide 1μM R00 exp19]]|-1.75|
|[[:results:exp519|RS-1 10μM R08 exp519]]|1.76|
|[[:results:exp189|Temozolomide 200μM R04 exp189]]|1.85|
|[[:results:exp417|Tubastatin-A 2.5μM R07 exp417]]|2.02|
</modal>

<modal id='Most_Correlated_Genes' size='lg' title='Most Correlated Genes in Chemogenomics'>
^Gene^Correlation^
|[[:human genes:r:rrm1|RRM1]]|0.534|
|[[:human genes:c:chd4|CHD4]]|0.426|
|[[:human genes:t:tbc1d3g|TBC1D3G]]|0.417|
|[[:human genes:p:psmc1|PSMC1]]|0.407|
|[[:human genes:r:rbm8a|RBM8A]]|0.405|
</modal>

<modal id='Essential_Avana' size='lg' title='Tissues where Essential in the Avana Dataset (DepMap 20Q1)'>
Global Fraction of Cell Lines Where Essential: 734/739
^Tissue^Fraction Of Cell Lines Where Essential^
|1290807.0|1/1|
|909776.0|1/1|
|bile duct|28/28|
|blood|28/28|
|bone|26/26|
|breast|32/33|
|central nervous system|56/56|
|cervix|4/4|
|colorectal|17/17|
|esophagus|13/13|
|fibroblast|1/1|
|gastric|16/16|
|kidney|21/21|
|liver|19/20|
|lung|75/75|
|lymphocyte|16/16|
|ovary|26/26|
|pancreas|24/24|
|peripheral nervous system|16/16|
|plasma cell|15/15|
|prostate|1/1|
|skin|24/24|
|soft tissue|9/9|
|thyroid|2/2|
|upper aerodigestive|21/22|
|urinary tract|29/29|
|uterus|5/5|
</modal>

== Essentiality in NALM6  ==
    * **<color #00a2e8>Essentiality Rank</color>**: 596
    * **<color #00a2e8>Expression level (log2 read counts)</color>**: 9.04 
<button type='primary' size='small' modal='Dist_expr'>Expression Distribution</button>
<modal id='Dist_expr' size='lg' title='XRCC6 Expression in NALM6 Cells: 9.04'>
{{:chemogenomics:nalm6 dist.png?nolink |}}
</modal>