7NU8

Crystal Structure of Neisseria gonorrhoeae LeuRS in Complex with the Reaction Intermediate Leu-AMP

Summary for 7NU8

• Entry DOI: 10.2210/pdb7nu8/pdb
• Related: 7NTY 7NU0 7NU2 7NU3 7NU4 7NU5 7NU6 7NU7
• Descriptor: Leucine--tRNA ligase, 1,2-ETHANEDIOL, [[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] (2~{S})-2-azanyl-4-methyl-pentanoate, ... (7 entities in total)
• Functional Keywords: protein-ligand complex, rossmann fold, trna synthetase, ligase
• Biological source: Neisseria gonorrhoeae
• Total number of polymer chains: 1
• Total formula weight: 99304.69

Authors

Pang, L.,Strelkov, S.V.,Weeks, S.D. (deposition date: 2021-03-11, release date: 2022-08-31, Last modification date: 2024-01-31)

Primary citation

Pang, L.,Zanki, V.,Strelkov, S.V.,Van Aerschot, A.,Gruic-Sovulj, I.,Weeks, S.D.
Partitioning of the initial catalytic steps of leucyl-tRNA synthetase is driven by an active site peptide-plane flip.
Commun Biol, 5:883-883, 2022

PubMed Abstract: To correctly aminoacylate tRNA, leucyl-tRNA synthetase (LeuRS) catalyzes three reactions: activation of leucine by ATP to form leucyl-adenylate (Leu-AMP), transfer of this amino acid to tRNA and post-transfer editing of any mischarged product. Although LeuRS has been well characterized biochemically, detailed structural information is currently only available for the latter two stages of catalysis. We have solved crystal structures for all enzymatic states of Neisseria gonorrhoeae LeuRS during Leu-AMP formation. These show a cycle of dramatic conformational changes, involving multiple domains, and correlate with an energetically unfavorable peptide-plane flip observed in the active site of the pre-transition state structure. Biochemical analyses, combined with mutant structural studies, reveal that this backbone distortion acts as a trigger, temporally compartmentalizing the first two catalytic steps. These results unveil the remarkable effect of this small structural alteration on the global dynamics and activity of the enzyme.

PubMed: 36038645
DOI: 10.1038/s42003-022-03825-8

Experimental method

X-RAY DIFFRACTION (2.11 Å)