› 7nz7

X-ray diffraction
2.96Å resolution

Crystal structure of mouse ADAT2/ADAT3 tRNA deamination complex 1

Released:
DOI: 10.2210/pdb7nz7/pdb
PDB entry 7nz7 coloured by chain, front view.
PDB entry 7nz7 coloured by chain, side view.
PDB entry 7nz7 coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
The structure of the mouse ADAT2/ADAT3 complex reveals the molecular basis for mammalian tRNA wobble adenosine-to-inosine deamination.
Ramos-Morales E, Bayam E, Del-Pozo-Rodríguez J, Salinas-Giegé T, Marek M, Tilly P, Wolff P, Troesch E, Ennifar E, Drouard L, Godin JD, Romier C
Nucleic Acids Res 49 6529-6548 (2021)
PMID: 34057470

Function and Biology Details

Reaction catalysed: 
Adenine(34) in tRNA + H(2)O = hypoxanthine(34) in tRNA + NH(3)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-180131 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
tRNA-specific adenosine deaminase 2 Chain: A
Molecule details ›
Chain: A
Length: 191 amino acids
Theoretical weight: 21.33 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
UniProt:
  • Canonical: Q6P6J0 (Residues: 1-191; Coverage: 100%)
Gene names: Adat2, Deadc1
Sequence domains: MafB19-like deaminase
Probable inactive tRNA-specific adenosine deaminase-like protein 3 Chain: B
Molecule details ›
Chain: B
Length: 317 amino acids
Theoretical weight: 34.22 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
UniProt:
  • Canonical: Q6PAT0 (Residues: 1-349; Coverage: 91%)
Gene name: Adat3
Sequence domains: Cytidine and deoxycytidylate deaminase zinc-binding region

Ligands and Environments

1 bound ligand:
Ligand ZN 2 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06DA
Spacegroup: P3221
Unit cell:
a: 105.471Å b: 105.471Å c: 187.076Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.197 0.195 0.233
Expression system: Escherichia coli

Quick links

Citations

3 review citations

The life and times of a tRNA.
Phizicky et al. (2023)
2 more

2 mentions without citation

The structure of the mouse ADAT2/ADAT3 complex reveals the molecular basis for mammalian tRNA wobble adenosine-to-inosine deamination.
Ramos-Morales et al. (2021)
1 more