Crystal structure of tRNA adenosine deaminase (TadA) from Aquifex aeolicus

Mitsuo Kuratani, Ryohei Ishii, Yoshitaka Bessho, Ryuya Fukunaga, Toru Sengoku, Mikako Shirouzu, Shun Ichi Sekine, Shigeyuki Yokoyama

Research output: Contribution to journalArticle

Abstract

The bacterial tRNA adenosine deaminase (TadA) generates inosine by deaminating the adenosine residue at the wobble position of tRNA Arg-2. This modification is essential for the decoding system. In this study, we determined the crystal structure of Aquifex aeolicus TadA at a 1.8-Å resolution. This is the first structure of a deaminase acting on tRNA. A. aeolicus TadA has an α/β/α three-layered fold and forms a homodimer. The A. aeolicus TadA dimeric structure is completely different from the tetrameric structure of yeast CDD1, which deaminates mRNA and cytidine, but is similar to the dimeric structure of yeast cytosine deaminase. However, in the A. aeolicus TadA structure, the shapes of the C-terminal helix and the regions between the β4 and β5 strands are quite distinct from those of yeast cytosine deaminase and a large cavity is produced. This cavity contains many conserved amino acid residues that are likely to be involved in either catalysis or tRNA binding. We made a docking model of TadA with the tRNA anticodon stem loop.

Original languageEnglish (US)
Pages (from-to)16002-16008
Number of pages7
JournalJournal of Biological Chemistry
Volume280
Issue number16
DOIs
StatePublished - Apr 22 2005
Externally publishedYes

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Adenosine Deaminase
Transfer RNA
Crystal structure
Cytosine Deaminase
Yeast
Yeasts
RNA, Transfer, Arg
Anticodon
Cytidine
Inosine
Catalysis
Adenosine
Decoding
Amino Acids
Messenger RNA

ASJC Scopus subject areas

  • Biochemistry

Cite this

Kuratani, M., Ishii, R., Bessho, Y., Fukunaga, R., Sengoku, T., Shirouzu, M., ... Yokoyama, S. (2005). Crystal structure of tRNA adenosine deaminase (TadA) from Aquifex aeolicus. Journal of Biological Chemistry, 280(16), 16002-16008. https://doi.org/10.1074/jbc.M414541200

Crystal structure of tRNA adenosine deaminase (TadA) from Aquifex aeolicus. / Kuratani, Mitsuo; Ishii, Ryohei; Bessho, Yoshitaka; Fukunaga, Ryuya; Sengoku, Toru; Shirouzu, Mikako; Sekine, Shun Ichi; Yokoyama, Shigeyuki.

In: Journal of Biological Chemistry, Vol. 280, No. 16, 22.04.2005, p. 16002-16008.

Research output: Contribution to journalArticle

Kuratani, M, Ishii, R, Bessho, Y, Fukunaga, R, Sengoku, T, Shirouzu, M, Sekine, SI & Yokoyama, S 2005, 'Crystal structure of tRNA adenosine deaminase (TadA) from Aquifex aeolicus', Journal of Biological Chemistry, vol. 280, no. 16, pp. 16002-16008. https://doi.org/10.1074/jbc.M414541200
Kuratani, Mitsuo ; Ishii, Ryohei ; Bessho, Yoshitaka ; Fukunaga, Ryuya ; Sengoku, Toru ; Shirouzu, Mikako ; Sekine, Shun Ichi ; Yokoyama, Shigeyuki. / Crystal structure of tRNA adenosine deaminase (TadA) from Aquifex aeolicus. In: Journal of Biological Chemistry. 2005 ; Vol. 280, No. 16. pp. 16002-16008.
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