9J4O

Crystal structure of B. subtilis Leucine tRNA with UAA anticodon

Summary for 9J4O

• Entry DOI: 10.2210/pdb9j4o/pdb
• Descriptor: Leucine tRNA_UAA (89-MER), SPERMINE (2 entities in total)
• Functional Keywords: trna, rna
• Biological source: Bacillus subtilis subsp. subtilis str. 168
• Total number of polymer chains: 1
• Total formula weight: 28951.46

Authors

Kim, J.,Cho, G. (deposition date: 2024-08-09, release date: 2025-07-09, Last modification date: 2025-09-03)

Primary citation

Cho, G.,Yoo, J.,Shin, K.,Lee, J.,Lim, J.,Kim, J.
Crystal structures of free-state tRNA Leu reveal conformational flexibility of type-II tRNAs.
Rna, 31:1305-1319, 2025

PubMed Abstract: Transfer RNAs (tRNAs) are classified into type-I and type-II based on the length of their variable loops, with type-II characterized by an extended variable loop. While structures of type-I tRNAs have been well-documented, standalone structures of type-II tRNAs have not been reported. Here, we present the first crystal structures of two free-state type-II tRNAs, specifically tRNA from and Our structures reveal that the tRNA anticodon stem-loop (ASL) retains its canonical conformation. The variable loops in both structures are well-defined, displaying a distinctive tetranucleotide loop conformation. Comparisons with type-I tRNA and biomolecule-bound tRNAs highlight the flexibility of the ASL, variable loop, and terminal CCA residues in type-II tRNAs, suggesting that this structural plasticity is crucial for their biological interactions and function. These findings provide new insights into the structural dynamics and functional roles of type-II tRNAs.

PubMed: 40562537
DOI: 10.1261/rna.080596.125

Experimental method

X-RAY DIFFRACTION (2.5 Å)