› 4pu9

X-ray diffraction
2.4Å resolution

E. coli GyrB 43-kDa N-terminal fragment in complex with ADP-BeF3

Released:
DOI: 10.2210/pdb4pu9/pdb
PDB entry 4pu9 coloured by chain, front view.
PDB entry 4pu9 coloured by chain, side view.
PDB entry 4pu9 coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Structure of the N-terminal Gyrase B fragment in complex with ADP⋅Pi reveals rigid-body motion induced by ATP hydrolysis.
Stanger FV, Dehio C, Schirmer T
OpenAccess logo PLoS One 9 e107289 (2014)
PMID: 25202966

Function and Biology Details

Reaction catalysed: 
ATP-dependent breakage, passage and rejoining of double-stranded DNA
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-533010 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
DNA gyrase subunit B Chain: A
Molecule details ›
Chain: A
Length: 398 amino acids
Theoretical weight: 44.12 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0AES6 (Residues: 2-392; Coverage: 49%)
Gene names: JW5625, acrB, b3699, cou, gyrB, himB, hisU, nalC, parA, pcbA
Sequence domains:
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand ADP 1 x ADP
Ligand BEF 1 x BEF
Ligand MG 1 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06DA
Spacegroup: C2221
Unit cell:
a: 88.083Å b: 143.245Å c: 79.895Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.222 0.219 0.273
Expression system: Escherichia coli

Quick links

Citations

3 review citations

The role of ATP-dependent machines in regulating genome topology.
Hauk et al. (2016)
2 more

3 mentions without citation

Structure of the N-terminal Gyrase B fragment in complex with ADP⋅Pi reveals rigid-body motion induced by ATP hydrolysis.
Stanger et al. (2014)
2 more