PROTEIN ENGINEERING

V. Renugopalakrishnan

Prerequisites : Biochemistry, Molecular Biology, Protein Strucure

Suggested Book :T. E. Creighton “Protein : Structure and Molecular Properties, 2^nd or later edition  W H Freeman and Co., New York, NY and current literature

in Protein Engineering

Silicon Graphics Demonstration of Protein Structures

Guest Lecturers from other institutions

Syllabus

I.  Chemical and physical characterization of proteins                               

    Properties of amino acids, peptides, and proteins

                                                Chemical modification of proteins      

                Post-translational modification of proteins   

                Forces that determine protein structures
                        How to keep a protein folded properly

                Secondary and tertiary structures of proteins                                                                      Protein folding patterns

                                                Protein modules

                                                Protein structure – based drug design    

II.  Biogenesis of Proteins and Protein Engineering

                   General Introduction, Gene Structure and DNA Replication                                               

                   Transcription, Splicing and Translation                                                                                           

                   Protein Engineering: Cloning and Expression of Genes and Mutagenesis     

 III. Approaches to Study Protein Functions and Regulation in Budding Yeast

                  Introduction to  Yeast                                                                                                               

                 Mammalian Cells as Expression Systems

                 Gene Disruption and Tetrad Analysis

                 Random and Rational Mutagenesis and Making Yeast Mutants                                       

                 Characterization of Proteins in the Cell Cycle                                                                                             

                 DNA and Chromatin Association of Proteins                                                                                

                 Identification and Characterization of Interacting Proteins by Using          

                 Phenotypic Screens: Finding Genes Involved in Particular Cellular                

                 Functions or Pathways

                 Using Yeast to Study Proteins of Other Eukaryotes and                                                                        

                 Two-hybrid System to Study Protein-Protein Interactions

IV.   Protein and DNA Sequence Analysis

                 Web-based Literature Search, Sequence Retrieval and Sequence                            

                 Analysis

V.    Activities and Regulation of Protein Enzymes

                Functions and Regulation of Enzymes

                Regulation of the Activities of Enzymes and Other Proteins

                Phosphorylation and Dephosphorylation

VI.   Protein-Protein and Protein-DNA Interactions

                Biochemical Methods to Study Protein-Protein Interactions

                Biochemical Methods to Study Protein-DNA Interactions                            

VII.   Proteolysis in Cellular Regulation

              Mechanism of Protein Degradation and Proteolysis Pathways

              Case study: Proteolysis in Cell Cycle Control