PDBe 1wyw

X-ray diffraction
2.1Å resolution

Crystal Structure of SUMO1-conjugated thymine DNA glycosylase

Released:

Function and Biology Details

Reaction catalysed:
Hydrolyzes mismatched double-stranded DNA and polynucleotides, releasing free thymine
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
G/T mismatch-specific thymine DNA glycosylase Chain: A
Molecule details ›
Chain: A
Length: 230 amino acids
Theoretical weight: 26.18 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q13569 (Residues: 112-339; Coverage: 56%)
Gene name: TDG
Sequence domains: Uracil DNA glycosylase superfamily
Structure domains: Uracil-DNA glycosylase-like domain
Small ubiquitin-related modifier 1 Chain: B
Molecule details ›
Chain: B
Length: 97 amino acids
Theoretical weight: 11.15 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P63165 (Residues: 1-97; Coverage: 96%)
Gene names: OK/SW-cl.43, SMT3C, SMT3H3, SUMO1, UBL1
Sequence domains: Ubiquitin-2 like Rad60 SUMO-like
Structure domains: Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1

Ligands and Environments

3 bound ligands:

No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-6A
Spacegroup: P212121
Unit cell:
a: 42.212Å b: 70.42Å c: 106.434Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.205 0.205 0.245
Expression system: Escherichia coli BL21(DE3)