5cdn

X-ray diffraction
2.79Å resolution

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero octamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-118473 (preferred)
Entry contents:
2 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (4 distinct):
DNA gyrase subunit A Chains: A, C, R, T
Molecule details ›
Chains: A, C, R, T
Length: 481 amino acids
Theoretical weight: 54.66 KDa
Source organism: Staphylococcus aureus
Expression system: Escherichia coli
UniProt:
  • Canonical: Q99XG5 (Residues: 10-490; Coverage: 54%)
Gene names: SA0006, gyrA
Sequence domains: DNA gyrase/topoisomerase IV, subunit A
DNA gyrase subunit B Chains: B, D, S, U
Molecule details ›
Chains: B, D, S, U
Length: 189 amino acids
Theoretical weight: 21.27 KDa
Source organism: Staphylococcus aureus subsp. aureus N315
Expression system: Escherichia coli
UniProt:
  • Canonical: P66937 (Residues: 417-543, 580-639; Coverage: 29%)
Gene names: SA0005, gyrB
Sequence domains:
DNA (5'-D(P*GP*AP*GP*CP*GP*TP*AP**GP*GP*CP*CP*GP*TP*AP*CP*GP*CP*TP*C)-3') Chains: E, F, V, W
Molecule details ›
Chains: E, F, V, W
Length: 8 nucleotides
Theoretical weight: 2.45 KDa
DNA (5'-D(P*GP*AP*GP*CP*GP*TP*AP*C*GP*GP*CP*CP*GP*TP*AP*CP*GP*CP*TP*C)-3') Chains: G, N, O, P
Molecule details ›
Chains: G, N, O, P
Length: 12 nucleotides
Theoretical weight: 3.64 KDa

Ligands and Environments

1 modified residue:

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I03
Spacegroup: P21
Unit cell:
a: 89.782Å b: 170.081Å c: 124.54Å
α: 90° β: 102.27° γ: 90°
R-values:
R R work R free
0.214 0.213 0.242
Expression system: Escherichia coli