› 1ssp

X-ray diffraction
1.9Å resolution

WILD-TYPE URACIL-DNA GLYCOSYLASE BOUND TO URACIL-CONTAINING DNA

Released:
DOI: 10.2210/pdb1ssp/pdb
PDB entry 1ssp coloured by chain, front view.
PDB entry 1ssp coloured by chain, side view.
PDB entry 1ssp coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Base excision repair initiation revealed by crystal structures and binding kinetics of human uracil-DNA glycosylase with DNA.
Parikh SS, Mol CD, Slupphaug G, Bharati S, Krokan HE, Tainer JA
EMBO J 17 5214-26 (1998)
PMID: 9724657

Function and Biology Details

Reaction catalysed: 
Hydrolyzes single-stranded DNA or mismatched double-stranded DNA and polynucleotides, releasing free uracil
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-114613 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Uracil-DNA glycosylase Chain: E
Molecule details ›
Chain: E
Length: 223 amino acids
Theoretical weight: 25.54 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P13051 (Residues: 94-313; Coverage: 70%)
Gene names: DGU, UNG, UNG1, UNG15
Sequence domains: Uracil DNA glycosylase superfamily
Structure domains: Uracil-DNA glycosylase-like domain
5'-D(*CP*TP*GP*TP*(D1P)P*AP*TP*CP*TP*T)-3' Chain: A
Molecule details ›
Chain: A
Length: 10 nucleotides
Theoretical weight: 2.89 KDa
Source organism: Homo sapiens
Expression system: Not provided
5'-D(*AP*AP*AP*GP*AP*TP*AP*AP*CP*AP*G)-3' Chain: B
Molecule details ›
Chain: B
Length: 11 nucleotides
Theoretical weight: 3.4 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand URA 1 x URA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL7-1
Spacegroup: P21212
Unit cell:
a: 121.7Å b: 48.5Å c: 65Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.198 0.198 0.245
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

51 review citations

Uracil in DNA--occurrence, consequences and repair.
Krokan et al. (2002)
50 more

36 mentions without citation

Recent advances in the structural mechanisms of DNA glycosylases.
Brooks et al. (2013)
35 more