B.Tech. Biotechnology (Molecular & Cellular ... - Shiats.edu.in

Introduction: Definition of BioMolecular modeling, Protein Structure – Primary,Secondary and tertiary, Structure of RNA, Nucleotide, amino acids.Unit 2Biological Databases: Types of databases and their introduction. Primary,Secondary, Structure, Ligand Databases.Unit 3Protein Structure determining methods: X-Ray, NMR, RNA Structure Prediction.Unit 4In silico methods of protein structure prediction: Threading, Ab-initio, homologyModeling.Unit 5Evaluation of modeled protein structure: Ramachandran plot, What Check,ProCheck, Verify 3-D.Unit 6Modeling Protein interaction: Protein – Protein Interaction, Protein – LigandInteraction, Software.Unit 7Application of BioMolecular modeling.Practicals:1. Introduction to the structure database PDB.2. Visualization of the protein structure using VMD.3. Secondary structure prediction using GOR algorithm.4. Tertiary structure prediction using SWISS-MODEL, ModWeb and Geno3D.5. Using Modeller for homology modeling.6. Protein Structure validation using SAVS server.7. Protein active site prediction using CastP and Pocket Finder.8. Chemical file format conversion using Open Babel.9. Automated docking using PATCH DOCK webserver.10. Structural alignment using DaliLite and SSAP.JSBB-589 SEMINAR 1(0-0-1)JSBB-500 TRAINING II EVALUATION 1(0-0-1)