› 2yvh

X-ray diffraction
2.5Å resolution

Crystal structure of the operator-binding form of the multi-drug binding transcriptional repressor CgmR

Released:
DOI: 10.2210/pdb2yvh/pdb
PDB entry 2yvh coloured by chain, front view.
PDB entry 2yvh coloured by chain, side view.
PDB entry 2yvh coloured by chain, top view.
Source organism: Corynebacterium glutamicum ATCC 13032
Primary publication:
Crystal structures of the multidrug binding repressor Corynebacteriumglutamicum CgmR in complex with inducers and with an operator.
Itou H, Watanabe N, Yao M, Shirakihara Y, Tanaka I
J Mol Biol 403 174-84 (2010)
PMID: 20691702

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero octamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-115955 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
HTH tetR-type domain-containing protein Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 177 amino acids
Theoretical weight: 20.47 KDa
Source organism: Corynebacterium glutamicum ATCC 13032
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q8NMG3 (Residues: 1-177; Coverage: 100%)
Gene name: Cgl2612
Sequence domains:
Structure domains: Tetracycline Repressor, domain 2
5'-D(*DTP*DAP*DAP*DCP*DTP*DGP*DTP*DAP*DCP*DCP*DGP*DAP*DCP*DC)-3' Chains: E, G
Molecule details ›
Chains: E, G
Length: 14 nucleotides
Theoretical weight: 4.22 KDa
Source organism: Corynebacterium glutamicum ATCC 13032
Expression system: Not provided
5'-D(*DGP*DGP*DTP*DCP*DGP*DGP*DTP*DAP*DCP*DAP*DGP*DTP*DTP*DA)-3' Chains: F, H
Molecule details ›
Chains: F, H
Length: 14 nucleotides
Theoretical weight: 4.34 KDa
Source organism: Corynebacterium glutamicum ATCC 13032
Expression system: Not provided

Ligands and Environments

No bound ligands
1 modified residue:
Ligand MSE 16 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE AR-NW12A
Spacegroup: P1
Unit cell:
a: 39.011Å b: 80.095Å c: 87.056Å
α: 108.98° β: 102.25° γ: 96.14°
R-values:
R R work R free
0.222 0.22 0.259
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

5 review citations

Relaxosome function and conjugation regulation in F-like plasmids - a structural biology perspective.
Wong et al. (2012)
4 more

9 mentions without citation

The TetR family of regulators.
Cuthbertson et al. (2013)
8 more