› 6zma

X-ray diffraction
2.15Å resolution

Structure of the tRNA-Monooxygenase enzyme MiaE frozen under 140 bar of krypton using the soak and freeze methodology

Released:
DOI: 10.2210/pdb6zma/pdb
PDB entry 6zma coloured by chain, front view.
PDB entry 6zma coloured by chain, side view.
PDB entry 6zma coloured by chain, top view.
Source organism: Pseudomonas putida
Primary publication:
Structural, biochemical and functional analyses of tRNA-monooxygenase enzyme MiaE from Pseudomonas putida provide insights into tRNA/MiaE interaction.
Carpentier P, Leprêtre C, Basset C, Douki T, Torelli S, Duarte V, Hamdane D, Fontecave M, Atta M
OpenAccess logo Nucleic Acids Res 48 9918-9930 (2020)
PMID: 32785618

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-103147 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
tRNA-(Ms[2]io[6]A)-hydroxylase Chains: B, C
Molecule details ›
Chains: B, C
Length: 205 amino acids
Theoretical weight: 23.12 KDa
Source organism: Pseudomonas putida
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A0A179QS89 (Residues: 1-205; Coverage: 100%)
Gene names: H0H12_08545, JEU22_25685
Sequence domains: tRNA-(MS[2]IO[6]A)-hydroxylase (MiaE)

Ligands and Environments

8 bound ligands:
Ligand FE 4 x FE
Ligand CL 1 x CL
Ligand CA 2 x CA
Ligand TRS 2 x TRS
Ligand PEG 7 x PEG
Ligand PG4 1 x PG4
Ligand KR 6 x KR
Ligand EDO 3 x EDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID30B
Spacegroup: C2
Unit cell:
a: 117.622Å b: 52.3Å c: 79.407Å
α: 90° β: 90.74° γ: 90°
R-values:
R R work R free
0.183 0.18 0.244
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

2 review citations

Biochemical and Structural Aspects of Cytokinin Biosynthesis and Degradation in Bacteria.
Frébortová et al. (2021)
1 more

1 mention without citation

Structural, biochemical and functional analyses of tRNA-monooxygenase enzyme MiaE from Pseudomonas putida provide insights into tRNA/MiaE interaction.
Carpentier et al. (2020)