› 6lae

X-ray diffraction
2.81Å resolution

Crystal structure of the DNA-binding domain of human XPA in complex with DNA

Released:
DOI: 10.2210/pdb6lae/pdb
PDB entry 6lae coloured by chain, front view.
PDB entry 6lae coloured by chain, side view.
PDB entry 6lae coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
New structural insights into the recognition of undamaged splayed-arm DNA with a single pair of non-complementary nucleotides by human nucleotide excision repair protein XPA.
Lian FM, Yang X, Jiang YL, Yang F, Li C, Yang W, Qian C
Int J Biol Macromol 148 466-474 (2020)
PMID: 31962067

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-120205 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
DNA repair protein complementing XP-A cells Chains: A, B
Molecule details ›
Chains: A, B
Length: 145 amino acids
Theoretical weight: 17.47 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P23025 (Residues: 98-239; Coverage: 52%)
Gene names: XPA, XPAC
Sequence domains:
DNA (5'-D(P*GP*CP*AP*TP*CP*TP*CP*GP*CP*CP*T)-3') Chain: C
Molecule details ›
Chain: C
Length: 11 nucleotides
Theoretical weight: 3.29 KDa
Source organism: Homo sapiens
Expression system: Not provided
DNA (5'-D(P*TP*GP*GP*CP*GP*AP*GP*AP*TP*GP*C)-3') Chain: D
Molecule details ›
Chain: D
Length: 11 nucleotides
Theoretical weight: 3.41 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand ZN 2 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL19U1
Spacegroup: P31
Unit cell:
a: 69.112Å b: 69.112Å c: 63.938Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.22 0.218 0.237
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

2 citation in other articles

Tethering-facilitated DNA 'opening' and complementary roles of β-hairpin motifs in the Rad4/XPC DNA damage sensor protein.
Paul et al. (2020)
1 more

1 mention without citation

The XPA Protein-Life under Precise Control.
Krasikova et al. (2022)