› 4egy

X-ray diffraction
2.3Å resolution

Crystal Structure of AraR(DBD) in complex with operator ORA1

Released:
DOI: 10.2210/pdb4egy/pdb
PDB entry 4egy coloured by chain, front view.
PDB entry 4egy coloured by chain, side view.
PDB entry 4egy coloured by chain, top view.
Source organism: Bacillus subtilis
Primary publication:
Spacing between core recognition motifs determines relative orientation of AraR monomers on bipartite operators.
Jain D, Nair DT
Nucleic Acids Res 41 639-47 (2013)
PMID: 23109551

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-117419 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Arabinose metabolism transcriptional repressor Chains: A, B
Molecule details ›
Chains: A, B
Length: 88 amino acids
Theoretical weight: 9.93 KDa
Source organism: Bacillus subtilis
Expression system: Escherichia coli
UniProt:
  • Canonical: P96711 (Residues: 1-68; Coverage: 19%)
Gene names: BSU33970, araC, araR, yvbS
Sequence domains: Bacterial regulatory proteins, gntR family
Structure domains: Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain
5'-D(*TP*AP*AP*TP*AP*TP*TP*TP*GP*TP*AP*CP*GP*AP*AP*CP*AP*AP*TP*TP*T)-3' Chain: T
Molecule details ›
Chain: T
Length: 21 nucleotides
Theoretical weight: 6.44 KDa
Source organism: Bacillus subtilis
Expression system: Not provided
5'-D(*AP*AP*AP*AP*TP*TP*GP*TP*TP*CP*GP*TP*AP*CP*AP*AP*AP*TP*AP*TP*T)-3' Chain: U
Molecule details ›
Chain: U
Length: 21 nucleotides
Theoretical weight: 6.44 KDa
Source organism: Bacillus subtilis
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand ACT 3 x ACT
Ligand CA 1 x CA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE BM14
Spacegroup: C2
Unit cell:
a: 139.73Å b: 42.52Å c: 67.58Å
α: 90° β: 114.43° γ: 90°
R-values:
R R work R free
0.225 0.222 0.262
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

2 review citations

Allosteric control of transcription in GntR family of transcription regulators: A structural overview.
Jain D. (2015)
1 more

6 mentions without citation

GntR Family of Bacterial Transcription Factors and Their DNA Binding Motifs: Structure, Positioning and Co-Evolution.
Suvorova et al. (2015)
5 more