Mechanism of tRNA recognition by heterotetrameric glycyl-tRNA synthetase from lactic acid bacteria

Glycyl-tRNA synthetases (GlyRSs) have different oligomeric structures depending on the organisms. While a dimeric α(2) GlyRS species is present in archaea, eukaryotes and some eubacteria, a heterotetrameric α(2)β(2) GlyRS species is found in most eubacteria. Here, we present the crystal structure of heterotetrameric α(2)β(2) GlyRS, consisting of the full-length α and β subunits, from Lactobacillus plantarum (LpGlyRS), gram-positive lactic bacteria. The α(2)β(2)LpGlyRS adopts the same X-shaped structure as the recently reported Escherichia coli α(2)β(2) GlyRS. A tRNA docking model onto LpGlyRS suggests that the α and β subunits of LpGlyRS together recognize the L-shaped tRNA structure. The α and β subunits of LpGlyRS together interact with the 3′-end and the acceptor region of tRNA(Gly), and the C-terminal domain of the β subunit interacts with the anticodon region of tRNA(Gly). The biochemical analysis using tRNA variants showed that in addition to the previously defined determinants G1C72 and C2G71 base pairs, C35, C36 and U73 in eubacterial tRNA(Gly), the identification of bases at positions 4 and 69 in tRNA(Gly) is required for efficient glycylation by LpGlyRS. In this case, the combination of a purine base at Position 4 and a pyrimidine base at Position 69 in tRNA(Gly) is preferred.