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1. Introduction
2. 70S Ribosome (5.5 angstrom)
3. Chemistry of the peptide bond formation
4. Peptide bond formation is catalyzed by RNA
5. Proteins within 30 angstrom of the PTC
6. tRNA binding in the PTC
7. C-Pmn as model substrate for binding at the A-site
8. CC-Pmn as substrate for binding at the A-site
9. Conformational changes folowing substrate binding
10. Water exclusion keeps peptidyl-tRNA uninduced
11. The 50S subunit with the transition state analogs
12. Potential strategies of catalysis
13. Enthalpic or entropic catalysis
14. Studying the mechanism of peptide bond formation
15. Characteristics of uncatalyzed reaction
16. Reaction pathway on the 50S subunit
17. Measuring kinetics of peptide bond formation
18. pH dependence of reaction with Pmn
19. Contribution of pH-dependent catalysis
20. Aminoacyl-tRNA as A-site substrate
21. Reaction with full-size substrate
22. Entropic effects in ribosome catalysis
23. Role of active-site residues: A2451
24. Conservation of peptidyl transferase mechanism
25. pH-dependent changes in ribosome structure
26. Mutations of inner shell residues
27. Replacement of 2' OH of A76 of the P-site tRNA
28. Roles of 2' OH of A76 of the P-site tRNA
29. Conclusions
30. Literature

Topics Covered

• The ribosome
• Chemistry of peptide bond formation
• Structure of the peptidyl transferase center of the ribosome
• Structures of the catalytic subunit with reaction substrates and transition state analogs
• Induced fit in peptide bond formation and peptidyl-tRNA hydrolysis
• Reaction pathways of catalyzed and uncatalyzed reactions
• pH dependence of catalysis
• Entropic catalysis
• Role of active site residues
• Importance of 2' OH of A76 of the tRNA in the P site
• The mechanism of peptide bond formation

Links

Series:

• From DNA to Proteins

Categories:

• Biochemistry
• Cell Biology

Talk Citation

Rodnina, M. (2007, October 1). Elongation of protein synthesis: structural basis of the peptide bond [Video file]. In The Biomedical & Life Sciences Collection, Henry Stewart Talks. Retrieved April 19, 2025, from https://doi.org/10.69645/BSDW2080.
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Publication History

• Published on October 1, 2007

Financial Disclosures

• Prof. Marina Rodnina has not informed HSTalks of any commercial/financial relationship that it is appropriate to disclose.