5cdr

X-ray diffraction
2.65Å resolution

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero heptamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-118477 (preferred)
Entry contents:
2 distinct polypeptide molecules
3 distinct DNA molecules
Macromolecules (5 distinct):
DNA gyrase subunit A Chains: A, C
Molecule details ›
Chains: A, C
Length: 483 amino acids
Theoretical weight: 54.74 KDa
Source organism: Staphylococcus aureus subsp. aureus N315
Expression system: Escherichia coli
UniProt:
  • Canonical: Q99XG5 (Residues: 9-491; Coverage: 54%)
Gene names: SA0006, gyrA
Sequence domains: DNA gyrase/topoisomerase IV, subunit A
DNA gyrase subunit B Chains: B, D
Molecule details ›
Chains: B, D
Length: 190 amino acids
Theoretical weight: 21.35 KDa
Source organism: Staphylococcus aureus subsp. aureus N315
Expression system: Escherichia coli
UniProt:
  • Canonical: P66937 (Residues: 417-543, 580-640; Coverage: 29%)
Gene names: SA0005, gyrB
Sequence domains:
DNA (5'-D(*AP*GP*CP*CP*GP*TP*AP*)-3') Chain: E
Molecule details ›
Chain: E
Length: 8 nucleotides
Theoretical weight: 2.45 KDa
DNA (5'-D(*GP*GP*TP*AP*CP*CP*TP*AP*CP*GP*GP*CP*T)-3') Chain: G
Molecule details ›
Chain: G
Length: 13 nucleotides
Theoretical weight: 3.97 KDa
DNA (5'-D(*AP*GP*CP*CP*GP*TP*AP*GP*GP*TP*AP*CP*CP*TP*AP*CP*GP*GP*CP*T)-3') Chain: F
Molecule details ›
Chain: F
Length: 20 nucleotides
Theoretical weight: 6.13 KDa

Ligands and Environments

2 bound ligands:
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I02
Spacegroup: P61
Unit cell:
a: 93.395Å b: 93.395Å c: 410.583Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.189 0.188 0.21
Expression system: Escherichia coli