› 7oyk

X-ray diffraction
2.1Å resolution

DNA-binding domain of CggR in complex with the DNA operator

Released:
DOI: 10.2210/pdb7oyk/pdb
PDB entry 7oyk coloured by chain, front view.
PDB entry 7oyk coloured by chain, side view.
PDB entry 7oyk coloured by chain, top view.
Source organism: Bacillus subtilis subsp. subtilis str. 168
Primary publication:
Structural insight into DNA recognition by bacterial transcriptional regulators of the SorC/DeoR family.
Šoltysová M, Sieglová I, Fábry M, Brynda J, Škerlová J, Řezáčová P
Acta Crystallogr D Struct Biol 77 1411-1424 (2021)
PMID: 34726169

Function and Biology Details

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

Structure analysis Details

Assemblies composition:
hetero tetramer
hetero hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-121764 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Central glycolytic genes regulator Chains: AAA, BBB, CCC, DDD
Molecule details ›
Chains: AAA, BBB, CCC, DDD
Length: 96 amino acids
Theoretical weight: 11.12 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O32253 (Residues: 1-91; Coverage: 27%)
Gene names: BSU33950, cggR, yvbQ
Sequence domains: CggR N-terminal DNA binding domain
DNA operator - strand 1 Chains: EEE, GGG, LLL
Molecule details ›
Chains: EEE, GGG, LLL
Length: 16 nucleotides
Theoretical weight: 4.89 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
Expression system: Not provided
DNA operator - strand 2 Chains: FFF, HHH, KKK
Molecule details ›
Chains: FFF, HHH, KKK
Length: 16 nucleotides
Theoretical weight: 4.91 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
Expression system: Not provided

Ligands and Environments

3 bound ligands:
Ligand CA 2 x CA
Ligand EDO 1 x EDO
Ligand PO4 2 x PO4
1 modified residue:
Ligand MSE 16 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: BESSY BEAMLINE 14.2
Spacegroup: P21
Unit cell:
a: 57.972Å b: 103.141Å c: 51.111Å
α: 90° β: 90.537° γ: 90°
R-values:
R R work R free
0.21 0.208 0.253
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

2 citation in other articles

Accurate prediction of protein-nucleic acid complexes using RoseTTAFoldNA.
Baek et al. (2023)
1 more