› 7bca

X-ray diffraction
2.8Å resolution

Crystal structure of the HTH DNA binding protein ArdK from R388 plasmid bound to a direct-repeat DNA element

Released:
DOI: 10.2210/pdb7bca/pdb
PDB entry 7bca coloured by chain, front view.
PDB entry 7bca coloured by chain, side view.
PDB entry 7bca coloured by chain, top view.
Source organism: Escherichia coli K-12
Primary publication:
Structural basis of direct and inverted DNA sequence repeat recognition by helix-turn-helix transcription factors.
Fernandez-Lopez R, Ruiz R, Del Campo I, Gonzalez-Montes L, Boer DR, de la Cruz F, Moncalian G
Nucleic Acids Res (2022)
PMID: 36370103

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-121108 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
TrfB transcriptional repressor protein domain-containing protein Chains: A, B
Molecule details ›
Chains: A, B
Length: 98 amino acids
Theoretical weight: 11.21 KDa
Source organism: Escherichia coli K-12
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q6I6B7 (Residues: 11-107; Coverage: 91%)
Sequence domains: TrfB plasmid transcriptional repressor
DNA (5'-D(*TP*GP*TP*CP*AP*AP*TP*AP*GP*GP*TP*GP*TP*CP*AP*AP*TP*AP*C)-3') Chain: C
Molecule details ›
Chain: C
Length: 19 nucleotides
Theoretical weight: 5.84 KDa
Source organism: Escherichia coli K-12
Expression system: Not provided
DNA (5'-D(*GP*TP*AP*TP*TP*GP*AP*CP*AP*CP*CP*TP*AP*TP*TP*GP*AP*CP*A)-3') Chain: D
Molecule details ›
Chain: D
Length: 19 nucleotides
Theoretical weight: 5.8 KDa
Source organism: Escherichia coli K-12
Expression system: Not provided

Ligands and Environments

No bound ligands
1 modified residue:
Ligand MSE 4 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: SOLEIL BEAMLINE PROXIMA 1
Spacegroup: C2
Unit cell:
a: 88.12Å b: 39.06Å c: 120.04Å
α: 90° β: 101.65° γ: 90°
R-values:
R R work R free
0.234 0.232 0.293
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

2 mentions without citation

The PTS transporters of Lactobacillus gasseri ATCC 33323.
Francl et al. (2010)
1 more