› 4xyq

X-ray diffraction
2.4Å resolution

Structure of AgrA LytTR domain in complex with promoters

Released:
DOI: 10.2210/pdb4xyq/pdb
PDB entry 4xyq coloured by chain, front view.
PDB entry 4xyq coloured by chain, side view.
PDB entry 4xyq 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
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-118296 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Accessory gene regulator A Chain: A
Molecule details ›
Chain: A
Length: 103 amino acids
Theoretical weight: 12.36 KDa
Source organism: Staphylococcus aureus subsp. aureus COL
Expression system: Escherichia coli
UniProt:
  • Canonical: Q5HEG2 (Residues: 137-238; Coverage: 43%)
Gene names: SACOL2026, agrA
Sequence domains: LytTr DNA-binding domain
Structure domains: LytTr DNA-binding domain
DNA (5'-D(*TP*TP*TP*AP*AP*CP*AP*GP*TP*TP*AP*AP*GP*TP*AP*T)-3') Chain: B
Molecule details ›
Chain: B
Length: 16 nucleotides
Theoretical weight: 4.91 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA (5'-D(*AP*AP*TP*AP*CP*TP*TP*AP*AP*CP*TP*GP*TP*TP*AP*A)-3') Chain: C
Molecule details ›
Chain: C
Length: 16 nucleotides
Theoretical weight: 4.88 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand EDO 1 x EDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU MICROMAX-002
Spacegroup: P41
Unit cell:
a: 47.77Å b: 47.77Å c: 100.25Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.203 0.201 0.238
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)