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› 6eza

X-ray diffraction
2Å resolution

Crystal Structure of human tRNA-dihydrouridine(20) synthase catalytic domain E294K mutant

Released:
DOI: 10.2210/pdb6eza/pdb
Model geometry
Fit model/data
PDB entry 6eza coloured by chain, front view.
PDB entry 6eza coloured by chain, side view.
PDB entry 6eza coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Electrostatic Potential in the tRNA Binding Evolution of Dihydrouridine Synthases.
Bou-Nader C, Brégeon D, Pecqueur L, Fontecave M, Hamdane D
Biochemistry 57 5407-5414 (2018)
PMID: 30149704

Function and Biology Details

Reaction catalysed: 
(1) 5,6-dihydrouridine(20) in tRNA + NADP(+) = uridine(20) in tRNA +NADPH + H(+).
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-192677 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
tRNA-dihydrouridine(20) synthase [NAD(P)+]-like Chains: A, B
Molecule details ›
Chains: A, B
Length: 327 amino acids
Theoretical weight: 36.81 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9NX74 (Residues: 14-333; Coverage: 65%)
Gene names: DUS2, DUS2L
Sequence domains: Dihydrouridine synthase (Dus)

Ligands and Environments

4 bound ligands:
Ligand FMN 2 x FMN
Ligand SO4 8 x SO4
Ligand CL 2 x CL
Ligand GOL 2 x GOL
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: SOLEIL BEAMLINE PROXIMA 2
Spacegroup: P21
Unit cell:
a: 55.47Å b: 77.11Å c: 84.48Å
α: 90° β: 91.99° γ: 90°
R-values:
R R work R free
0.193 0.191 0.227
Expression system: Escherichia coli

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Citations

1 review citation

The Dihydrouridine landscape from tRNA to mRNA: a perspective on synthesis, structural impact and function.
Finet et al. (2022)
3 other articles