PDBe 5kn8

X-ray diffraction
1.81Å resolution

MutY N-terminal domain in complex with undamaged DNA

Released:

Function and Biology Details

Reaction catalysed:
Hydrolyzes free adenine bases from 7,8-dihydro-8-oxoguanine:adenine mismatched double-stranded DNA, leaving an apurinic site.
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Adenine DNA glycosylase Chain: A
Molecule details ›
Chain: A
Length: 232 amino acids
Theoretical weight: 26.63 KDa
Source organism: Geobacillus stearothermophilus
Expression system: Escherichia coli
UniProt:
  • Canonical: P83847 (Residues: 1-229; Coverage: 63%)
Gene name: mutY
Sequence domains:
Structure domains:
DNA (5'-D(*AP*TP*CP*CP*TP*GP*TP*GP*CP*T)-3') Chain: C
Molecule details ›
Chain: C
Length: 10 nucleotides
Theoretical weight: 3.01 KDa
Source organism: Geobacillus stearothermophilus
Expression system: Not provided
DNA (5'-D(*AP*GP*CP*AP*CP*AP*GP*GP*AP*T)-3') Chain: D
Molecule details ›
Chain: D
Length: 10 nucleotides
Theoretical weight: 3.08 KDa
Source organism: Geobacillus stearothermophilus
Expression system: Not provided

Ligands and Environments

2 bound ligands:

No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-E
Spacegroup: P21
Unit cell:
a: 49.2Å b: 38.618Å c: 83.796Å
α: 90° β: 104° γ: 90°
R-values:
R R work R free
0.169 0.166 0.22
Expression systems:
  • Escherichia coli
  • Not provided