› 2nx8

X-ray diffraction
2Å resolution

The crystal structure of the tRNA-specific adenosine deaminase from Streptococcus pyogenes

Released:
DOI: 10.2210/pdb2nx8/pdb
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Source organism: Streptococcus pyogenes serotype M6
Primary publication:
Crystal structure of the tRNA-specific adenosine deaminase from Streptococcus pyogenes.
Lee WH, Kim YK, Nam KH, Priyadarshi A, Lee EH, Kim EE, Jeon YH, Cheong C, Hwang KY
Proteins 68 1016-9 (2007)
PMID: 17554781

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:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-178499 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
tRNA-specific adenosine deaminase Chain: A
Molecule details ›
Chain: A
Length: 179 amino acids
Theoretical weight: 20.24 KDa
Source organism: Streptococcus pyogenes serotype M6
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q5XE14 (Residues: 1-171; Coverage: 100%)
Gene names: M6_Spy0214, tadA
Sequence domains: MafB19-like deaminase
Structure domains: Cytidine Deaminase, domain 2

Ligands and Environments

2 bound ligands:
Ligand ZN 1 x ZN
Ligand PO4 1 x PO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PAL/PLS BEAMLINE 4A
Spacegroup: P42212
Unit cell:
a: 80.091Å b: 80.091Å c: 81.104Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.214 0.214 0.242
Expression system: Escherichia coli BL21(DE3)

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Citations

2 review citations

A-to-I editing on tRNAs: biochemical, biological and evolutionary implications.
Torres et al. (2014)
1 more

1 mention without citation

Crystal structure of the yeast heterodimeric ADAT2/3 deaminase.
Liu et al. (2020)

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