› 3bs1

X-ray diffraction
1.6Å resolution

Structure of the Staphylococcus aureus AgrA LytTR Domain Bound to DNA Reveals a Beta Fold with a Novel Mode of Binding

Released:
DOI: 10.2210/pdb3bs1/pdb
PDB entry 3bs1 coloured by chain, front view.
PDB entry 3bs1 coloured by chain, side view.
PDB entry 3bs1 coloured by chain, top view.
Source organism: Staphylococcus aureus
Primary publication:
Structure of the Staphylococcus aureus AgrA LytTR domain bound to DNA reveals a beta fold with an unusual mode of binding.
Sidote DJ, Barbieri CM, Wu T, Stock AM
Structure 16 727-35 (2008)
PMID: 18462677

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-116105 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Accessory gene regulator protein A Chain: A
Molecule details ›
Chain: A
Length: 103 amino acids
Theoretical weight: 12.36 KDa
Source organism: Staphylococcus aureus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P0A0I7 (Residues: 137-238; Coverage: 43%)
Gene names: agr, agrA
Sequence domains: LytTr DNA-binding domain
Structure domains: LytTr DNA-binding domain
DNA (5'-D(*DTP*DTP*DTP*DAP*DAP*DCP*DAP*DGP*DTP*DTP*DAP*DAP*DGP*(BRU)P*DAP*DT)-3') Chain: B
Molecule details ›
Chain: B
Length: 16 nucleotides
Theoretical weight: 4.98 KDa
Source organism: Staphylococcus aureus
Expression system: Not provided
DNA (5'-D(*DAP*DAP*(BRU)P*DAP*DCP*DTP*DTP*DAP*DAP*DCP*DTP*DGP*DTP*DTP*DAP*DA)-3') Chain: C
Molecule details ›
Chain: C
Length: 16 nucleotides
Theoretical weight: 4.95 KDa
Source organism: Staphylococcus aureus
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand MG 2 x MG
1 modified residue:
Ligand BRU 2 x BRU

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X4A
Spacegroup: P41
Unit cell:
a: 47.938Å b: 47.938Å c: 100.112Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.196 0.195 0.221
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

21 review citations

Quorum sensing in staphylococci.
Novick et al. (2008)
20 more

28 mentions without citation

Diversity of structure and function of response regulator output domains.
Galperin MY. (2010)
27 more