The Role of L1 Stalk-tRNA Interaction in the Ribosome Elongation Cycle

JOURNAL OF MOLECULAR BIOLOGY

卷:402

Article

Trabuco, Leonardo G.^1,2  Schreiner, Eduard¹  Eargle, John²  Cornish, Peter³  Ha, Taekjip³  Luthey-Schulten, Zaida⁴  Schulten, Klaus^1,3 

[1] Univ Illinois, Beckman Inst Adv Sci & Technol, Urbana, IL 61801 USA

[2] Univ Illinois, Ctr Biophys & Computat Biol, Urbana, IL 61801 USA

[3] Univ Illinois, Dept Phys, Urbana, IL 61801 USA

[4] Univ Illinois, Dept Chem, Urbana, IL 61801 USA

关键词: translocation;    modified ribonucleosides;    flexible fitting;    MDFF;    FRET;   

DOI  :  10.1016/j.jmb.2010.07.056

来源: Elsevier

【 摘 要 】

The ribosomal L1 stalk is a mobile structure implicated in directing tRNA movement during translocation through the ribosome. This article investigates three aspects of L1 stalk tRNA interaction. First, by combining data from cryo electron microscopy, X-ray crystallography, and molecular dynamics simulations through the molecular dynamics flexible fitting method, we obtained atomic models of different tRNAs occupying the hybrid P/E state interacting with the L1 stalk. These models confirm the assignment of fluorescence resonance energy transfer states from previous single-molecule investigations of L1 stalk dynamics. Second, the models reconcile how initiator tRNA(fmet) interacts less strongly with the L1 stalk compared to elongator tRNA(Phe), as seen in previous single-molecule experiments. Third, results from a simulation of the entire ribosome in which the L1 stalk is moved from a half-closed conformation to its open conformation are found to support the hypothesis that L1 stalk opening is involved in tRNA release from the ribosome. (C) 2010 Elsevier Ltd. All rights reserved.

【 授权许可】

Free