0:00:00 - 0:15:00 Introductory Lecture on the Protein Folding Problem and Artificial Intelligence Approach to the Solution
0:15:00 - 0:30:00 Introduction to the AlphaFold Tools and Database
0:30:00 - 0:45:00 Setting up Colaboratory Notebooks to run code with a free Gmail account
0:45:00 - 1:45:00 Hands On Activity
- Introduction to the Data Set used
- Introduction to the Compute Environment
- Introduction to the Alphafold Command Line Parameters
- View the Code in the Notebooks
- Run Alphafold on Command Line or using the form —- NOTEBOOKS
- Review Alphafold results (RELAXED vs RELAXED_GPU)
- Download Alphafold results
1:45:00 - 2:00:00 Coffee Break
2:00:00 - 2:20:00 Introduction to PyMoL and other Protein Viewers (e.g. Cn3D)
2:20:00 - 2:30:00 Setting up PyMoL on your own machine
2:30:00 - 3:30:00 Hands On Activity
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Loading files into PyMOL
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Picking residues to highlight
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Other options in PyMOL for examining the protein structure
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What have we learned from the visualizations?
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What other questions might we ask?
3:30:00 - 3:45:00 Discussion session: How can this tool be applied to your research question? 3:45:00 - 4:00:00 Wrap up Lecture on Future Directions for AI and Resources for Further Study