› 3qe9

X-ray diffraction
2.51Å resolution

Crystal structure of human exonuclease 1 Exo1 (D173A) in complex with DNA (complex I)

Released:
DOI: 10.2210/pdb3qe9/pdb
PDB entry 3qe9 coloured by chain, front view.
PDB entry 3qe9 coloured by chain, side view.
PDB entry 3qe9 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structures of human exonuclease 1 DNA complexes suggest a unified mechanism for nuclease family.
Orans J, McSweeney EA, Iyer RR, Hast MA, Hellinga HW, Modrich P, Beese LS
Cell 145 212-23 (2011)
PMID: 21496642

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-116755 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Exonuclease 1 Chains: Y, Z
Molecule details ›
Chains: Y, Z
Length: 352 amino acids
Theoretical weight: 39.52 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9UQ84 (Residues: 1-352; Coverage: 42%)
Gene names: EXO1, EXOI, HEX1
Sequence domains:
Structure domains:
DNA (5'-D(*CP*GP*CP*TP*AP*GP*TP*CP*GP*AP*CP*AP*T)-3') Chains: A, C
Molecule details ›
Chains: A, C
Length: 13 nucleotides
Theoretical weight: 3.95 KDa
Source organism: Homo sapiens
Expression system: Not provided
DNA (5'-D(P*TP*CP*GP*AP*CP*TP*AP*GP*CP*G)-3') Chains: B, D
Molecule details ›
Chains: B, D
Length: 10 nucleotides
Theoretical weight: 3.05 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand K 2 x K
Ligand CA 2 x CA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-ID
Spacegroup: P21212
Unit cell:
a: 92.504Å b: 95.467Å c: 99.777Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.215 0.215 0.238
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

17 review citations

Nucleotide excision repair in eukaryotes.
Schärer OD. (2013)
16 more

7 mentions without citation

Unpairing and gating: sequence-independent substrate recognition by FEN superfamily nucleases.
Grasby et al. (2012)
6 more