› 4tma

X-ray diffraction
3.3Å resolution

Crystal structure of gyrase bound to its inhibitor YacG

Released:
DOI: 10.2210/pdb4tma/pdb
PDB entry 4tma coloured by chain, front view.
PDB entry 4tma coloured by chain, side view.
PDB entry 4tma coloured by chain, top view.
Source organisms:
Primary publication:
Direct control of type IIA topoisomerase activity by a chromosomally encoded regulatory protein.
Vos SM, Lyubimov AY, Hershey DM, Schoeffler AJ, Sengupta S, Nagaraja V, Berger JM
Genes Dev 28 1485-97 (2014)
PMID: 24990966

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-141700 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
DNA gyrase subunit A Chains: A, C, E, G
Molecule details ›
Chains: A, C, E, G
Length: 525 amino acids
Theoretical weight: 58.96 KDa
Source organism: Escherichia coli str. K-12 substr. MC4100
Expression system: Escherichia coli
Structure domains:
DNA gyrase subunit B Chains: B, D, F, H
Molecule details ›
Chains: B, D, F, H
Length: 417 amino acids
Theoretical weight: 47.34 KDa
Source organism: Escherichia coli str. K-12 substr. MC4100
Expression system: Escherichia coli BL21(DE3)
Structure domains:
DNA gyrase inhibitor YacG Chains: I, J, K, L
Molecule details ›
Chains: I, J, K, L
Length: 65 amino acids
Theoretical weight: 7.31 KDa
Source organism: Escherichia coli K-12
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P0A8H8 (Residues: 1-65; Coverage: 100%)
Gene names: JW5008, b0101, yacG
Sequence domains: DNA gyrase inhibitor YacG
Structure domains: Erythroid Transcription Factor GATA-1, subunit A

Ligands and Environments

1 bound ligand:
Ligand ZN 6 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 8.3.1
Spacegroup: P212121
Unit cell:
a: 107.21Å b: 114.46Å c: 462.12Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.245 0.243 0.283
Expression systems:
  • Escherichia coli
  • Escherichia coli BL21(DE3)

Quick links

Citations

1 review citation

Biological Diversity and Molecular Plasticity of FIC Domain Proteins.
Harms et al. (2016)
6 other articles

6 mentions without citation

Topoisomerases as anticancer targets.
Delgado et al. (2018)
5 more