Search for dissertations about: "codon recognition"
Showing result 1 - 5 of 10 swedish dissertations containing the words codon recognition.
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1. Computational Analysis of Molecular Recognition Involving the Ribosome and a Voltage Gated K+ Channel
Abstract : Over the last few decades, computer simulation techniques have been established as an essential tool for understanding biochemical processes. This thesis deals mainly with the application of free energy calculations to ribosomal complexes and a cardiac ion channel. READ MORE
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2. Evolutionary Mechanisms Shaping Bacterial Translation Termination
Abstract : Translation termination in bacteria involves precise reading of stop codons (UAA, UAG, UGA) and coordinated peptidyl-tRNA hydrolysis by the class-I release factors (RFs) on the ribosome (70S). This thesis investigates the evolutionary and post-translational modification mechanisms of these RFs and the concurrent effect on bacterial translation termination. READ MORE
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3. The Mechanism of translation termination in Escherichia coli
Abstract : Protein synthesis in E. coli is terminated by the release factors (RFs) and the ribosome is prepared for another round of protein synthesis by ribosome recycling factor (RRF), elongation factor G (EF-G) and initiation factor (IF3). READ MORE
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4. Choice of tRNA on Translating Ribosomes
Abstract : This thesis addresses different aspects of the question about accuracy of protein synthesis: i) the mechanism of tRNA selection during translation ii) study of ribosomal mutations that affect accuracy and iii) the choice of aminoacyl-tRNA isoacceptors on synonymous codons.By measuring the codon reading efficiencies of cognate and near-cognate ternary complexes we demonstrate that in optimal physiological conditions accuracy of substrate selection is much higher than previously reported; that during translation the ribosomal A site is not blocked by unspecific binding of the non-cognate tRNAs which would inhibit the speed of protein synthesis. READ MORE
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5. Computational Methods for Calculation of Ligand-Receptor Binding Affinities Involving Protein and Nucleic Acid Complexes
Abstract : The ability to accurately predict binding free energies from computer simulations is an invaluable resource in understanding biochemical processes and drug action. Several methods based on microscopic molecular dynamics simulations exist, and in this thesis the validation, application, and development of the linear interaction energy (LIE) method is presented. READ MORE