› 5a3d

X-ray diffraction
1.8Å resolution

Structural insights into the recognition of cisplatin and AAF-dG lesions by Rad14 (XPA)

Released:
DOI: 10.2210/pdb5a3d/pdb
PDB entry 5a3d coloured by chain, front view.
PDB entry 5a3d coloured by chain, side view.
PDB entry 5a3d coloured by chain, top view.
Source organisms:
Primary publication:
Structural insights into the recognition of cisplatin and AAF-dG lesion by Rad14 (XPA).
Koch SC, Kuper J, Gasteiger KL, Simon N, Strasser R, Eisen D, Geiger S, Schneider S, Kisker C, Carell T
Proc Natl Acad Sci U S A 112 8272-7 (2015)
PMID: 26100901

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-118391 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
DNA repair protein RAD14 Chains: A, B
Molecule details ›
Chains: A, B
Length: 115 amino acids
Theoretical weight: 13.67 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli BL21
UniProt:
  • Canonical: P28519 (Residues: 188-302; Coverage: 31%)
Gene names: RAD14, YM8325.02C, YMR201C
Sequence domains: XPA protein C-terminus
5'-D(*DTP*CP*TP*CP*TP*AP*C 8FGP*TP*CP*AP*TP*CP*DAP*CP)-3' Chain: C
Molecule details ›
Chain: C
Length: 15 nucleotides
Theoretical weight: 4.7 KDa
Source organism: synthetic construct
Expression system: Not provided
5'-D(*DG 5IUP*GP*A 5IUP*GP*AP*CP*G 5IUP*AP*GP*AP*DGP*AP)-3' Chain: D
Molecule details ›
Chain: D
Length: 15 nucleotides
Theoretical weight: 5.03 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand ZN 2 x ZN
2 modified residues:
Ligand 8FG 1 x 8FG
Ligand 5IU 3 x 5IU

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID29
Spacegroup: P41
Unit cell:
a: 53.727Å b: 53.727Å c: 130.551Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.211 0.21 0.241
Expression systems:
  • Escherichia coli BL21
  • Not provided

Quick links

Citations

4 review citations

Envisioning how the prototypic molecular machine TFIIH functions in transcription initiation and DNA repair.
Tsutakawa et al. (2020)
3 more

4 mentions without citation

XPA: A key scaffold for human nucleotide excision repair.
Sugitani et al. (2016)
3 more