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Protein

X-ray repair cross-complementing protein 6

Gene

Xrcc6

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

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.1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei29Schiff-base intermediate with DNA; for 5'-deoxyribose-5-phosphate lyase activityBy similarity1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Activator, Helicase, Hydrolase, Lyase

Keywords - Biological processi

DNA damage, DNA recombination, DNA repair, Transcription, Transcription regulation

Keywords - Ligandi

ATP-binding, DNA-binding, Nucleotide-binding

Names & Taxonomyi

Protein namesi
Recommended name:
X-ray repair cross-complementing protein 6 (EC:3.6.4.-, EC:4.2.99.-)
Alternative name(s):
5'-deoxyribose-5-phosphate lyase Ku70
Short name:
5'-dRP/AP lyase Ku70
ATP-dependent DNA helicase 2 subunit 1
ATP-dependent DNA helicase II 70 kDa subunit
CTC box-binding factor 75 kDa subunit
Short name:
CTC75
Short name:
CTCBF
DNA repair protein XRCC6
Ku autoantigen protein p70 homolog
Short name:
Ku70
Gene namesi
Name:Xrcc6
Synonyms:G22p1, Ku70
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Unplaced

Organism-specific databases

MGIiMGI:95606. Xrcc6.

Subcellular locationi

GO - Cellular componenti

  • cytoplasm Source: MGI
  • Ku70:Ku80 complex Source: UniProtKB
  • membrane Source: MGI
  • nonhomologous end joining complex Source: UniProtKB
  • nuclear chromosome, telomeric region Source: MGI
  • nucleoplasm Source: MGI
  • nucleus Source: MGI
  • transcription factor complex Source: MGI
Complete GO annotation...

Keywords - Cellular componenti

Chromosome, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedBy similarity
ChainiPRO_00002101802 – 608X-ray repair cross-complementing protein 6Add BLAST607

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylserineBy similarity1
Modified residuei2PhosphoserineBy similarity1
Modified residuei6Phosphoserine; by PRKDCBy similarity1
Modified residuei29N6-acetyllysineBy similarity1
Modified residuei49Phosphoserine; by PRKDCBy similarity1
Modified residuei329N6-acetyllysineBy similarity1
Modified residuei336N6-acetyllysineBy similarity1
Modified residuei459N6-acetyllysineBy similarity1
Modified residuei475PhosphoserineBy similarity1
Modified residuei518PhosphoserineBy similarity1
Modified residuei548PhosphoserineBy similarity1
Cross-linki554Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Modified residuei558PhosphoserineBy similarity1

Post-translational modificationi

Phosphorylation by PRKDC may enhance helicase activity. Phosphorylation of Ser-49 does not affect DNA repair (By similarity).By similarity

Keywords - PTMi

Acetylation, Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiP23475.
MaxQBiP23475.
PaxDbiP23475.
PeptideAtlasiP23475.
PRIDEiP23475.

PTM databases

iPTMnetiP23475.
PhosphoSitePlusiP23475.

Expressioni

Developmental stagei

Expression increases during promyelocyte differentiation.1 Publication

Gene expression databases

BgeeiENSMUSG00000022471.

Interactioni

Subunit structurei

Heterodimer composed of XRCC5/Ku80 and XRCC6/Ku70. The dimer associates in a DNA-dependent manner with PRKDC to form the DNA-dependent protein kinase complex DNA-PK, and with the LIG4-XRCC4 complex to form the core of the non-homologous end joining (NHEJ) complex. Additional components of the NHEJ complex include NHEJ1/XLF and PAXX. The dimer also associates with NAA15, and this complex binds to the osteocalcin promoter and activates osteocalcin expression. In addition, XRCC6 interacts with the osteoblast-specific transcription factors MSX2, RUNX2 and DLX5. Interacts with ELF3. Interacts with ATP23. The XRCC5/6 dimer associates in a DNA-dependent manner with APEX1. Binds to CDK9 (By similarity). Identified in a complex with DEAF1 and XRCC5. Interacts with DEAF1 (via the SAND domain); the interaction is direct and may be inhibited by DNA-binding (By similarity). Interacts with CLU (PubMed:12551933). Interacts with NR4A3; the DNA-dependent protein kinase complex DNA-PK phosphorylates and activates NR4A3 and prevents NR4A3 ubiquitinylation and degradation (By similarity). Interacts with MRI isoform 1 (MRI-1) and isoform 4 (MRI-2) (By similarity).By similarity1 Publication

GO - Molecular functioni

Protein-protein interaction databases

BioGridi199785. 5 interactors.
IntActiP23475. 4 interactors.
MINTiMINT-2568472.
STRINGi10090.ENSMUSP00000068559.

Structurei

3D structure databases

ProteinModelPortaliP23475.
SMRiP23475.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini259 – 466KuAdd BLAST208
Domaini571 – 605SAPPROSITE-ProRule annotationAdd BLAST35

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni548 – 607Interaction with DEAF1By similarityAdd BLAST60

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi11 – 27Asp/Glu-rich (acidic)Add BLAST17
Compositional biasi328 – 340Asp/Glu-rich (acidic)Add BLAST13

Sequence similaritiesi

Belongs to the ku70 family.Curated
Contains 1 Ku domain.Curated
Contains 1 SAP domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG2327. Eukaryota.
ENOG410XNXU. LUCA.
HOVERGENiHBG006236.
InParanoidiP23475.
KOiK10884.
TreeFamiTF315101.

Family and domain databases

Gene3Di1.10.1600.10. 1 hit.
1.10.720.30. 1 hit.
2.40.290.10. 1 hit.
3.40.50.410. 1 hit.
4.10.970.10. 1 hit.
InterProiIPR006165. Ku70.
IPR006164. Ku70/Ku80_beta-barrel_dom.
IPR027388. Ku70_bridge/pillars_dom.
IPR005160. Ku_C.
IPR005161. Ku_N.
IPR003034. SAP_dom.
IPR016194. SPOC-like_C_dom.
IPR002035. VWF_A.
[Graphical view]
PfamiPF02735. Ku. 1 hit.
PF03730. Ku_C. 1 hit.
PF03731. Ku_N. 1 hit.
PF02037. SAP. 1 hit.
[Graphical view]
PIRSFiPIRSF003033. Ku70. 1 hit.
SMARTiSM00559. Ku78. 1 hit.
SM00513. SAP. 1 hit.
[Graphical view]
SUPFAMiSSF100939. SSF100939. 1 hit.
SSF53300. SSF53300. 1 hit.
TIGRFAMsiTIGR00578. ku70. 1 hit.
PROSITEiPS50800. SAP. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P23475-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSEWESYYKT EGEEEEEEEE SPDTGGEYKY SGRDSLIFLV DASRAMFESQ
60 70 80 90 100
GEDELTPFDM SIQCIQSVYT SKIISSDRDL LAVVFYGTEK DKNSVNFKNI
110 120 130 140 150
YVLQDLDNPG AKRVLELDQF KGQQGKKHFR DTVGHGSDYS LSEVLWVCAN
160 170 180 190 200
LFSDVQLKMS HKRIMLFTNE DDPHGRDSAK ASRARTKASD LRDTGIFLDL
210 220 230 240 250
MHLKKPGGFD VSVFYRDIIT TAEDEDLGVH FEESSKLEDL LRKVRAKETK
260 270 280 290 300
KRVLSRLKFK LGEDVVLMVG IYNLVQKANK PFPVRLYRET NEPVKTKTRT
310 320 330 340 350
FNVNTGSLLL PSDTKRSLTY GTRQIVLEKE ETEELKRFDE PGLILMGFKP
360 370 380 390 400
TVMLKKQHYL RPSLFVYPEE SLVSGSSTLF SALLTKCVEK KVIAVCRYTP
410 420 430 440 450
RKNVSPYFVA LVPQEEELDD QNIQVTPGGF QLVFLPYADD KRKVPFTEKV
460 470 480 490 500
TANQEQIDKM KAIVQKLRFT YRSDSFENPV LQQHFRNLEA LALDMMESEQ
510 520 530 540 550
VVDLTLPKVE AIKKRLGSLA DEFKELVYPP GYNPEGKVAK RKQDDEGSTS
560 570 580 590 600
KKPKVELSEE ELKAHFRKGT LGKLTVPTLK DICKAHGLKS GPKKQELLDA

LIRHLEKN
Length:608
Mass (Da):69,484
Last modified:February 5, 2008 - v5
Checksum:i1C27DBF1DB7A1154
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti225E → G in BAE27139 (PubMed:16141072).Curated1
Sequence conflicti225E → G in BAE27137 (PubMed:16141072).Curated1
Sequence conflicti225E → G in BAE27135 (PubMed:16141072).Curated1
Sequence conflicti391K → E in BAE25441 (PubMed:11471062).Curated1
Sequence conflicti391K → E in AAL90775 (PubMed:11471062).Curated1
Sequence conflicti391K → E in AAL90774 (PubMed:11471062).Curated1
Sequence conflicti400P → H in AAA39396 (PubMed:1701785).Curated1
Sequence conflicti466 – 467KL → NV in AAC52675 (PubMed:8661113).Curated2
Sequence conflicti466 – 467KL → NV in AAA39396 (PubMed:1701785).Curated2

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U50378
, U50367, U50368, U50369, U50370, U50371, U50372, U50373, U50374, U50375, U50376, U50377 Genomic DNA. Translation: AAC52675.1.
U34878 Genomic DNA. Translation: AAC53575.1.
AB010282 mRNA. Translation: BAA28874.1.
AF483500 mRNA. Translation: AAL90774.1.
AF483501 mRNA. Translation: AAL90775.1.
AK143570 mRNA. Translation: BAE25441.1.
AK146392 mRNA. Translation: BAE27135.1.
AK146394 mRNA. Translation: BAE27137.1.
AK146396 mRNA. Translation: BAE27139.1.
BC031422 mRNA. Translation: AAH31422.1.
Z14157 mRNA. Translation: CAA78526.1.
M38700 mRNA. Translation: AAA39396.1.
CCDSiCCDS37153.1.
PIRiA43534.
S25149.
RefSeqiNP_034377.2. NM_010247.2.
XP_006520505.1. XM_006520442.3.
XP_006520506.1. XM_006520443.3.
XP_011243758.1. XM_011245456.2.
UniGeneiMm.288809.

Genome annotation databases

GeneIDi14375.
KEGGimmu:14375.
UCSCiuc007wxy.1. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U50378
, U50367, U50368, U50369, U50370, U50371, U50372, U50373, U50374, U50375, U50376, U50377 Genomic DNA. Translation: AAC52675.1.
U34878 Genomic DNA. Translation: AAC53575.1.
AB010282 mRNA. Translation: BAA28874.1.
AF483500 mRNA. Translation: AAL90774.1.
AF483501 mRNA. Translation: AAL90775.1.
AK143570 mRNA. Translation: BAE25441.1.
AK146392 mRNA. Translation: BAE27135.1.
AK146394 mRNA. Translation: BAE27137.1.
AK146396 mRNA. Translation: BAE27139.1.
BC031422 mRNA. Translation: AAH31422.1.
Z14157 mRNA. Translation: CAA78526.1.
M38700 mRNA. Translation: AAA39396.1.
CCDSiCCDS37153.1.
PIRiA43534.
S25149.
RefSeqiNP_034377.2. NM_010247.2.
XP_006520505.1. XM_006520442.3.
XP_006520506.1. XM_006520443.3.
XP_011243758.1. XM_011245456.2.
UniGeneiMm.288809.

3D structure databases

ProteinModelPortaliP23475.
SMRiP23475.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi199785. 5 interactors.
IntActiP23475. 4 interactors.
MINTiMINT-2568472.
STRINGi10090.ENSMUSP00000068559.

PTM databases

iPTMnetiP23475.
PhosphoSitePlusiP23475.

Proteomic databases

EPDiP23475.
MaxQBiP23475.
PaxDbiP23475.
PeptideAtlasiP23475.
PRIDEiP23475.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi14375.
KEGGimmu:14375.
UCSCiuc007wxy.1. mouse.

Organism-specific databases

CTDi2547.
MGIiMGI:95606. Xrcc6.

Phylogenomic databases

eggNOGiKOG2327. Eukaryota.
ENOG410XNXU. LUCA.
HOVERGENiHBG006236.
InParanoidiP23475.
KOiK10884.
TreeFamiTF315101.

Miscellaneous databases

PROiP23475.
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000022471.

Family and domain databases

Gene3Di1.10.1600.10. 1 hit.
1.10.720.30. 1 hit.
2.40.290.10. 1 hit.
3.40.50.410. 1 hit.
4.10.970.10. 1 hit.
InterProiIPR006165. Ku70.
IPR006164. Ku70/Ku80_beta-barrel_dom.
IPR027388. Ku70_bridge/pillars_dom.
IPR005160. Ku_C.
IPR005161. Ku_N.
IPR003034. SAP_dom.
IPR016194. SPOC-like_C_dom.
IPR002035. VWF_A.
[Graphical view]
PfamiPF02735. Ku. 1 hit.
PF03730. Ku_C. 1 hit.
PF03731. Ku_N. 1 hit.
PF02037. SAP. 1 hit.
[Graphical view]
PIRSFiPIRSF003033. Ku70. 1 hit.
SMARTiSM00559. Ku78. 1 hit.
SM00513. SAP. 1 hit.
[Graphical view]
SUPFAMiSSF100939. SSF100939. 1 hit.
SSF53300. SSF53300. 1 hit.
TIGRFAMsiTIGR00578. ku70. 1 hit.
PROSITEiPS50800. SAP. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiXRCC6_MOUSE
AccessioniPrimary (citable) accession number: P23475
Secondary accession number(s): O88212
, Q3UJL8, Q62027, Q62382, Q62453, Q6GTV8, Q8QZX7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1991
Last sequence update: February 5, 2008
Last modified: November 2, 2016
This is version 160 of the entry and version 5 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Miscellaneous

In osteoblasts from XRCC6 knockout mice, osteocalcin gene expression is nearly abolished.

Keywords - Technical termi

Complete proteome, Multifunctional enzyme, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.