› 2wb2

X-ray diffraction
2.95Å resolution

Drosophila Melanogaster (6-4) Photolyase Bound To double stranded Dna containing a T(6-4)C Photolesion

Released:
DOI: 10.2210/pdb2wb2/pdb
PDB entry 2wb2 coloured by chain, front view.
PDB entry 2wb2 coloured by chain, side view.
PDB entry 2wb2 coloured by chain, top view.
Source organisms:
Primary publication:
Crystal structure of the T(6-4)C lesion in complex with a (6-4) DNA photolyase and repair of UV-induced (6-4) and Dewar photolesions.
Glas AF, Schneider S, Maul MJ, Hennecke U, Carell T
Chemistry 15 10387-96 (2009)
PMID: 19722240

Function and Biology Details

Reaction catalysed: 
Cyclobutadipyrimidine (in DNA) = 2 pyrimidine residues (in DNA)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-115904 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Photolyase/cryptochrome alpha/beta domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 543 amino acids
Theoretical weight: 62.91 KDa
Source organism: Drosophila melanogaster
Expression system: Escherichia coli K-12
UniProt:
  • Canonical: Q8SXK5 (Residues: 1-520; Coverage: 96%)
Gene names: CG2488, phr6-4
Sequence domains:
Structure domains:
5'-D(*AP*CP*AP*GP*CP*GP*GP*64PP*ZP*GP*CP*AP *GP*GP*T)-3' Chain: C
Molecule details ›
Chain: C
Length: 15 nucleotides
Theoretical weight: 4.64 KDa
Source organism: synthetic construct
Expression system: Not provided
5'-D(*TP*AP*CP*CP*TP*GP*CP*GP*AP*CP*CP*GP*CP*TP*G)-3' Chain: D
Molecule details ›
Chain: D
Length: 15 nucleotides
Theoretical weight: 4.55 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments


Cofactor: Ligand FAD 1 x FAD
No bound ligands
1 modified residue:
Ligand Z 1 x Z

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06SA
Spacegroup: P212121
Unit cell:
a: 87.55Å b: 89Å c: 91.67Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.206 0.204 0.243
Expression systems:
  • Escherichia coli K-12
  • Not provided

Quick links

Citations

10 review citations

Electron transfer mechanisms of DNA repair by photolyase.
Zhong D. (2015)
9 more

2 mentions without citation

The three-dimensional structure of Drosophila melanogaster (6-4) photolyase at room temperature.
Cellini et al. (2021)
1 more