6lwp

X-ray diffraction
2.64Å resolution

Crystal structure of human NEIL1(R242, Y244R) bound to duplex DNA containing 2'-fluoro-2'-deoxy-5,6-dihydrouridine

Released:

Function and Biology Details

Reaction catalysed:
The C-O-P bond 3' to the apurinic or apyrimidinic site in DNA is broken by a beta-elimination reaction, leaving a 3'-terminal unsaturated sugar and a product with a terminal 5'-phosphate
Biochemical function:
Biological process:
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-120246 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Endonuclease 8-like 1 Chains: A, D, G
Molecule details ›
Chains: A, D, G
Length: 295 amino acids
Theoretical weight: 33.32 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q96FI4 (Residues: 1-295; Coverage: 76%)
Gene name: NEIL1
Sequence domains:
DNA (5'-D(*CP*GP*TP*CP*CP*AP*(FDU)P*GP*TP*CP*TP*AP*C)-3') Chains: B, E, H
Molecule details ›
Chains: B, E, H
Length: 13 nucleotides
Theoretical weight: 3.91 KDa
Source organism: Escherichia coli
Expression system: Not provided
DNA (5'-D(*TP*AP*GP*AP*CP*CP*TP*GP*GP*AP*CP*GP*G)-3') Chains: C, F, I
Molecule details ›
Chains: C, F, I
Length: 13 nucleotides
Theoretical weight: 4.02 KDa
Source organism: Escherichia coli
Expression system: Not provided

Ligands and Environments

1 bound ligand:
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U1
Spacegroup: P212121
Unit cell:
a: 73.938Å b: 109.635Å c: 171.944Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.205 0.203 0.232
Expression systems:
  • Escherichia coli
  • Not provided