Structure of PDB 6erh Chain D

Receptor sequence

>6erhD (length=535) Species: 9606 (Homo sapiens)

MHHHHHHHHHHENLYFQGVRSGNKAAVVLCMDVGFTMSNSIPGIESPFEQ
AKKVITMFVQRQVFAENKDEIALVLFGTDGTDNPLSGGDQYQNITVHRHL
MLPDFDLLEDIESKIQPGSQQADFLDALIVSMDVIQHETIGKKFEKRHIE
IFTDLSSRFSKSQLDIIIHSLKKCDISLQFFLPFSLGGITEQQKEGLEIV
KMVMISLEGEDGLDEIYSFSESLRKLCVFKKIERHSIHWPCRLTIGSNLS
IRIAAYKSILQERVKKTWTVVDAKTLKKEDIQKETVYCLNDDDETEVLKE
DIIQGFRYGSDIVPFSKVDEEQMKYKSEGKCFSVLGFCKSSQVQRRFFMG
NQVLKVFAARDDEAAAVALSSLIHALDDLDMVAIVRYAYDKRANPQVGVA
FPHIKHNYECLVYVQLPFMEDLRQYMFSSLKNSKKYAPTEAQLNAVDALI
DSMSLAKKDEKTDTLEDLFPTTKIPNPRFQRLFQCLLHRALHPREPLPPI
QQHIWNMLNPPAEVTTKSQIPLSKIKTLFPLIEAK

3D structure

• PDB: 6erh XLF and APLF bind Ku80 at two remote sites to ensure DNA repair by non-homologous end joining.
• Chain: D
• Resolution: 2.8 Å

Enzymatic activity

• Enzyme Commision number: 3.6.4.-

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	dna	D	Y-2 F-1 Q0 V2 R3 K126 R242 H243 S244 I245 K265 K273 Y397 R400 A401 N402	Y15 F16 Q17 V19 R20 K143 R234 H235 S236 I237 K257 K265 Y389 R392 A393 N394
BS02	dna	D	N-4 R271 T275 R486	N13 R263 T267 R478
BS03	peptide	D	F41 H131 E133 S160 Q162 F164 E223 Y225 L234 K238	F58 H148 E150 S177 Q179 F181 E215 Y217 L226 K230

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