› 4d2i

X-ray diffraction
2.84Å resolution

Crystal structure of the HerA hexameric DNA translocase from Sulfolobus solfataricus bound to AMP-PNP

Released:
DOI: 10.2210/pdb4d2i/pdb
Model geometry
Fit model/data
PDB entry 4d2i coloured by chain, front view.
PDB entry 4d2i coloured by chain, side view.
PDB entry 4d2i coloured by chain, top view.
Source organism: Saccharolobus solfataricus P2
Primary publication:
Structure of the hexameric HerA ATPase reveals a mechanism of translocation-coupled DNA-end processing in archaea.
Rzechorzek NJ, Blackwood JK, Bray SM, Maman JD, Pellegrini L, Robinson NP
OpenAccess logo Nat Commun 5 5506 (2014)
PMID: 25420454

Function and Biology Details

Reaction catalysed: 
ATP + H(2)O = ADP + phosphate
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-189013 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
DNA double-strand break repair helicase HerA Chains: A, B
Molecule details ›
Chains: A, B
Length: 500 amino acids
Theoretical weight: 55.9 KDa
Source organism: Saccharolobus solfataricus P2
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q97WG8 (Residues: 1-500; Coverage: 100%)
Gene names: SSO2251, herA
Sequence domains:
Structure domains: P-loop containing nucleotide triphosphate hydrolases

Ligands and Environments

2 bound ligands:
Ligand ANP 2 x ANP
Ligand MG 2 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I02
Spacegroup: R3
Unit cell:
a: 150.21Å b: 150.21Å c: 140.54Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.213 0.211 0.254
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

5 review citations

DNA repair in the archaea-an emerging picture.
White et al. (2018)
4 more

8 mentions without citation

HCIV-1 and Other Tailless Icosahedral Internal Membrane-Containing Viruses of the Family Sphaerolipoviridae.
Demina et al. (2017)
7 more

PDB-REDO

The sliders below show the change in model quality between original PDB entry and the PDB-REDO entry

Model Geometry
 
 
Data not available
DNA/RNA Geometry
 
 
Data not available
Fit model/data
 
 
Data not available
PDB-REDO