Structure of PDB 6erf Chain D Binding Site BS03

Receptor Information

>6erf Chain D (length=520) Species: 9606 (Homo sapiens)

NKAAVVLCMDVGFTMSNSIPGIESPFEQAKKVITMFVQRQVFAENKDEIA
LVLFGTDGTDNPLSGGDQYQNITVHRHLMLPDFDLLEDIESKIQPGSQQA
DFLDALIVSMDVIQHETIGKKFEKRHIEIFTDLSSRFSKSQLDIIIHSLK
KCDISLQFFLPFSLPFRLGGHGKGITEQQKEGLEIVKMVMISLEGEDGLD
EIYSFSESLRKLCVFKKIERHSIHWPCRLTIGSNLSIRIAAYKSILQERV
KKTWTVVDAKTLKKEDIQKETVYCLNDDDETEVLKEDIIQGFRYGSDIVP
FSKVDEEQMKYKSEGKCFSVLGFCKSSQVQRRFFMGNQVLKVFAARDDEA
AAVALSSLIHALDDLDMVAIVRYAYDKRANPQVGVAFPHIKHNYECLVYV
QLPFMEDLRQYMFSSLKNSKKYAPTEAQLNAVDALIDSMSLAKKDEKTDT
LEDLFPTTKIPNPRFQRLFQCLLHRALHPREPLPPIQQHIWNMLNPPAEV
TTKSQIPLSKIKTLFPLIEA

Ligand information

>6erf Chain R (length=13) Species: 9606 (Homo sapiens)

LAERKRILPTWML

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6erf XLF and APLF bind Ku80 at two remote sites to ensure DNA repair by non-homologous end joining.
• Resolution: 3.01 Å
• Binding residue (original residue number in PDB): L68 Q73 Y74 D106 D109 I112 M115 Q119 S143 K144 S145 Q146 I149
• Binding residue (residue number reindexed from 1): L63 Q68 Y69 D101 D104 I107 M110 Q114 S138 K139 S140 Q141 I144

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