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Sep. 10, 2014:
A total of 174 experimentally verified S-nitrosylation sites on 94 S-nitrosylated proteins from individualized human colorectal cancer tissues using a label-free quantitation strategy.

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Protein Name: X-ray repair cross-complementing protein 5

UniprotKB/SwissProt ID: P13010 (P13010)

Gene Name: XRCC5

Organism: Homo sapiens (Human)

Function: Single-stranded DNA-dependent ATP-dependent helicase that plays a key role in DNA non-homologous end joining (NHEJ) by recruiting DNA-PK to DNA (PubMed:11493912, PubMed:12145306, PubMed:7957065, PubMed:8621488). Required for double-strand break repair and V(D)J recombination (PubMed:11493912, PubMed:12145306, PubMed:7957065, PubMed:8621488). Also has a role in chromosome translocation (PubMed:11493912, PubMed:12145306, PubMed:7957065, PubMed:8621488). The DNA helicase II complex binds preferentially to fork-like ends of double-stranded DNA in a cell cycle-dependent manner (PubMed:11493912, PubMed:12145306, PubMed:7957065, PubMed:8621488). It works in the 3'-5' direction (PubMed:11493912, PubMed:12145306, PubMed:7957065, PubMed:8621488). During NHEJ, the XRCC5-XRRC6 dimer performs the recognition step: it recognizes and binds to the broken ends of the DNA and protects them from further resection (PubMed:11493912, PubMed:12145306, PubMed:7957065, PubMed:8621488). Binding to DNA may be mediated by XRCC6 (PubMed:11493912, PubMed:12145306, PubMed:7957065, PubMed:8621488). The XRCC5-XRRC6 dimer acts as a 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 (PubMed:11493912, PubMed:12145306, PubMed:20383123, PubMed:7957065, PubMed:8621488). The XRCC5-XRRC6 dimer is probably involved in stabilizing broken DNA ends and bringing them together (PubMed:12145306, PubMed:20383123, PubMed:7957065, PubMed:8621488). The assembly of the DNA-PK complex to DNA ends is required for the NHEJ ligation step (PubMed:12145306, PubMed:20383123, PubMed:7957065, PubMed:8621488). The XRCC5-XRRC6 dimer 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 (PubMed:20383123). XRCC5 probably acts as the catalytic subunit of 5'-dRP activity, and 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 (PubMed:20383123). The XRCC5-XRRC6 dimer together with APEX1 acts as a negative regulator of transcription (PubMed:8621488). In association with NAA15, the XRCC5-XRRC6 dimer binds to the osteocalcin promoter and activates osteocalcin expression (PubMed:12145306). As part of the DNA-PK complex, involved in the early steps of ribosome assembly by promoting the processing of precursor rRNA into mature 18S rRNA in the small-subunit processome (PubMed:32103174). Binding to U3 small nucleolar RNA, recruits PRKDC and XRCC5/Ku86 to the small-subunit processome (PubMed:32103174). 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 (PubMed:28712728)

Other Modifications: View all modification sites in dbPTM

Protein Subcellular Localization: Nucleus. Nucleus, nucleolus. Chromosome

Graphical Visualization of S-nitrosylation Sites:
InterPro ID Domain Name
IPR006164 Ku70/Ku80_beta-barrel_dom
IPR024193 Ku80
IPR005160 Ku_C
IPR036494 Ku_C_sf
IPR005161 Ku_N
IPR014893 Ku_PK_bind
IPR016194 SPOC-like_C_dom_sf
IPR002035 VWF_A
IPR036465 vWFA_dom_sf

The S-nitrosylation sites of P13010

No. Position S-nitrosylated Peptide Secondary Structure of S-nitrosylated Peptide Solvent Accessibility of nitrosylated Site PubMed ID
1 157 LDIIIHSLKK C DISLQFFLPF  CCCCCCCEEE E EEEECCCCCC  5.55%
2 235 YSFSESLRKL C VFKKIERHSI  CCCCCCCEEE E EEEECCCCCC  3.66% 19483679
3 249 KIERHSIHWP C RLTIGSNLSI  CCCCCCCEEE E EEEECCCCCC  4.74% 22178444
20140087
4 296 KEDIQKETVY C LNDDDETEVL  CCCCCCCEEE E EEEECCCCCC  2.19% 19483679
5 339 EQMKYKSEGK C FSVLGFCKSS  CCCCCCCEEE E EEEECCCCCC  4.52% 19483679
6 346 EGKCFSVLGF C KSSQVQRRFF  CCCCCCCEEE E EEEECCCCCC  3.87% 19483679
7 418 AFPHIKHNYE C LVYVQLPFME  CCCCCCCEEE E EEEECCCCCC  1.89%
8 493 PNPRFQRLFQ C LLHRALHPRE  CCCCCCCEEE E EEEECCCCCC  3.23% 22178444
19483679
9 638 ETPYFMKSID C IRAFREEAIK  CCCCCCCEEE E EEEECCCCCC  1.85%