Rodnina M.V., Wintermeyer W., Green R. (Eds.) Ribosomes: Structure, Function, and Dynamics

Springer-Verlag, 2011. - 452 p. - The ribosome is a macromolecular machine that synthesizes proteins with a high degree of speed and accuracy. Our present understanding of its structure, function and dynamics is the result of six decades of research. This book collects over 40 articles based on the talks presented at the 2010 Ribosome Meeting, held in Orvieto, Italy, covering all facets of the structure and function of the ribosome. New high-resolution crystal structures of functional ribosome complexes and cryo-EM structures of translating ribosomes are presented, while partial reactions of translation are examined in structural and mechanistic detail, featuring translocation as a most dynamic process. Mechanisms of initiation, both in bacterial and eukaryotic systems, translation termination, and novel details of the functions of the respective factors are described. Structure and interactions of the nascent peptide within, and emerging from, the ribosomal peptide exit tunnel are addressed in several articles. Structural and single-molecule studies reveal a picture of the ribosome exhibiting the energy landscape of a processive Brownian machine. The collection provides up-to-date reviews which will serve as a source of essential information for years to come.Contents
Ribosome structure
Ribosome crystallography: From early evolution to contemporary medical insights
Structural studies on decoding, termination and translocation in the bacterial ribosome
Structural studies of complexes of the 70S ribosome
Interaction of bacterial ribosomes with mRNA and tRNA as studied by X-ray crystallographic analysis
Genetic and crystallographic approaches to investigating ribosome structure and function
The packing of ribosomes in crystals and polysomes
Crystal structure of the eukaryotic 80S ribosome
Structure and function of organellar ribosomes
Modifications of ribosomal RNA: From enzymes to function
Recruiting the ribosome for translation
Insights into translation initiation and termination complexes and into the polysome architecture
Initiation of bacterial protein synthesis with wild type and novel mutants of initiation factor 2
Translation initiation at the root of the cold-shock translational bias
Recruiting knotty partners: The roles of translation initiation factors in mRNA recruitment to the eukaryotic ribosome
The mechanism of ribosomal recycling in eukaryotes
Decoding, fidelity, and peptidyl transfer
The specific interaction between aminoacyl-tRNAs and elongation factor Tu
Mechanisms of Decoding and Peptide Bond Formation
Sense and nonsense recognition by the ribosome
Rate and accuracy of ribosomal peptidyl transfer
Mutations in 16S rRNA that decrease the fidelity of translation
Decoding and deafness: Two sides of a coin
Ribosomal protein S5, ribosomal biogenesis and translational fidelity
Elongation and ribosome dynamics
Exploring the structural dynamics of the translational machinery using single-molecule fluorescence resonance energy transfer
Real-time monitoring of single molecule translation
Dynamic views of ribosome function: Energy landscapes and ensembles
Ribosome dynamics: Progress in the characterization of mRNA-tRNA translocation by cryo-electron microscopy
Elongation factor G in translocation and ribosome recycling
Mechanism and dynamics of the elongation cycle
Studies on the Mechanisms of Translocation and Termination
The mechanism by which tmRNA rescues stalled ribosomes
Nascent peptide and tunnel interactions
Nascent peptide-mediated ribosome stalling promoted by antibiotics
Nascent polypeptide chains within the ribosomal tunnel analyzed by cryo-EM
Mechanistic insight into co-translational protein processing, folding, targeting, and membrane insertion
Evolution
Molecular palaeontology as a new tool to study the evolution of ribosomal RNA