Structure of PDB 6erg Chain B Binding Site BS03

Receptor Information

>6erg Chain B (length=531) Species: 9606 (Homo sapiens)

MHHHHHHHHHHENLYFQGVRSGNKAAVVLCMDVGFTMSNSIPGIESPFEQ
AKKVITMFVQRQVFAENKDEIALVLFGTDGTDNPLSGGDQYQNITVHRHL
MLPDFDLLEDIESKIQPGSQQADFLDALIVSMDVIQHETIGKKFEKRHIE
IFTDLSSRFSKSQLDIIIHSLKKCDISLQFFLPFSLGKGITEQQKEGLEI
VKMVMISLEGEDGLDEIYSFSESLRKLCVFKKIERHSIHWPCRLTIGSNL
SIRIAAYKSILQERVKKTWTVVDAKTLKKEDIQKETVYCLETEVLKEDII
QGFRYGSDIVPFSKVDEEQMKYKSEGKCFSVLGFCKSSQVQRRFFMGNQV
LKVFAARDDEAAAVALSSLIHALDDLDMVAIVRYAYDKRANPQVGVAFPH
IKHNYECLVYVQLPFMEDLRQYMFSSLKNSKKYAPTEAQLNAVDALIDSM
SLAKKDEKTDTLEDLFPTTKIPNPRFQRLFQCLLHRALHPREPLPPIQQH
IWNMLNPPAEVTTKSQIPLSKIKTLFPLIEA

Ligand information

>6erg Chain R (length=31)

cgcgcccagctccagctaataaactaaaaac

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6erg XLF and APLF bind Ku80 at two remote sites to ensure DNA repair by non-homologous end joining.
• Resolution: 2.9 Å
• Binding residue (original residue number in PDB): Y-2 F-1 Q0 V2 R3 G5 K51 G124 R242 H243 S244 I245 K265 K273 K291 Y397 A401
• Binding residue (residue number reindexed from 1): Y15 F16 Q17 V19 R20 G22 K68 G141 R235 H236 S237 I238 K258 K266 K284 Y386 A390

Enzymatic activity

• Enzyme Commision number: 3.6.4.-

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0003678 DNA helicase activity
• GO:0003684 damaged DNA binding
• GO:0042162 telomeric DNA binding

Biological Process

• GO:0000723 telomere maintenance
• GO:0006303 double-strand break repair via nonhomologous end joining
• GO:0006310 DNA recombination

Cellular Component

• GO:0005634 nucleus
• GO:0043564 Ku70:Ku80 complex

External links

• PDB: RCSB:6erg, PDBe:6erg, PDBj:6erg
• PDBsum: 6erg
• PubMed: 30291363
• UniProt: P13010|XRCC5_HUMAN X-ray repair cross-complementing protein 5 (Gene Name=XRCC5)