› 4xqj

X-ray diffraction
1.9Å resolution

Crystal structure of AgrA LytTR domain in complex with promoters

Released:
DOI: 10.2210/pdb4xqj/pdb
PDB entry 4xqj coloured by chain, front view.
PDB entry 4xqj coloured by chain, side view.
PDB entry 4xqj coloured by chain, top view.
Source organisms:
Primary publication:
Conformational features of the Staphylococcus aureus AgrA-promoter interactions rationalize quorum-sensing triggered gene expression.
Rajasree K, Fasim A, Gopal B
OpenAccess logo Biochem Biophys Rep 6 124-134 (2016)
PMID: 28955870

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-118276 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Accessory gene regulator A Chains: A, D
Molecule details ›
Chains: A, D
Length: 99 amino acids
Theoretical weight: 11.91 KDa
Source organism: Staphylococcus aureus subsp. aureus COL
Expression system: Escherichia coli
UniProt:
  • Canonical: Q5HEG2 (Residues: 140-238; Coverage: 42%)
Gene names: SACOL2026, agrA
Sequence domains: LytTr DNA-binding domain
Structure domains: LytTr DNA-binding domain
DNA (5'-D(P*AP*CP*AP*GP*TP*TP*AP*AP*GP*AP*AP*T)-3') Chains: B, E
Molecule details ›
Chains: B, E
Length: 12 nucleotides
Theoretical weight: 3.69 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA (5'-D(*AP*AP*TP*TP*CP*TP*TP*AP*AP*CP*TP*GP*T)-3') Chains: C, F
Molecule details ›
Chains: C, F
Length: 13 nucleotides
Theoretical weight: 3.94 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

3 bound ligands:
Ligand EOH 14 x EOH
Ligand EDO 9 x EDO
Ligand CA 2 x CA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE BM14
Spacegroup: C2
Unit cell:
a: 91.03Å b: 92.87Å c: 45.15Å
α: 90° β: 98.59° γ: 90°
R-values:
R R work R free
0.189 0.188 0.225
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

3 review citations

Staphylococcus aureus Biofilm: Morphology, Genetics, Pathogenesis and Treatment Strategies.
Idrees et al. (2021)
2 more

1 mention without citation

Conformational features of the Staphylococcus aureus AgrA-promoter interactions rationalize quorum-sensing triggered gene expression.
Rajasree et al. (2016)