PDBe 4a09

X-ray diffraction
3.1Å resolution

Structure of hsDDB1-drDDB2 bound to a 15 bp CPD-duplex (purine at D-1 position) at 3.1 A resolution (CPD 2)

Released:

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Entry contents:
2 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (4 distinct):
DNA damage-binding protein 1 Chain: A
Molecule details ›
Chain: A
Length: 1159 amino acids
Theoretical weight: 129.34 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q16531 (Residues: 1-1140; Coverage: 100%)
Gene names: DDB1, XAP1
Sequence domains:
DNA damage-binding protein 2 Chain: B
Molecule details ›
Chain: B
Length: 382 amino acids
Theoretical weight: 43.42 KDa
Source organism: Danio rerio
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q2YDS1 (Residues: 60-423; Coverage: 73%)
Gene names: ddb2, si:dkey-45f10.3
Sequence domains: WD domain, G-beta repeat
Structure domains: YVTN repeat-like/Quinoprotein amine dehydrogenase
5'-D(*GP*GP*TP*GP*AP*AP*AP*(TTD)P*AP*GP*CP*AP*GP*GP)-3' Chain: G
Molecule details ›
Chain: G
Length: 14 nucleotides
Theoretical weight: 4.7 KDa
5'-D(*CP*CP*TP*GP*CP*TP*CP*CP*TP*TP*TP*CP*AP*CP*CP*C)-3' Chain: H
Molecule details ›
Chain: H
Length: 16 nucleotides
Theoretical weight: 4.72 KDa

Ligands and Environments

1 bound ligand:

1 modified residue:

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X10SA
Spacegroup: P212121
Unit cell:
a: 111.65Å b: 122.94Å c: 154.2Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.248 0.245 0.308
Expression system: Trichoplusia ni