COS597N MLSB Week 3 Pre-lecture Questions
Readings:
1. Jumper, J., Evans, R., Pritzel, A. et al. Highly accurate protein structure prediction with Alphafold. Nature 2021.
2. Tunyasuvunakool, K., Adler, J., Wu, Z. et al. Highly accurate protein structure prediction for the human proteome. Nature 2021.

Due before class on 9/21.
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Q1: What is pLDDT and why is it a useful metric?
Q2: Define SE(3) equivariance. Describe one aspect of AlphaFold2 that is SE(3) equivariant.
Q3: How important is self-distillation in training AlphaFold2? Why do you think distillation works?
Q4: Try AlphaFold-ing a protein. What protein did you pick and how were the results?
Q5: What's next after AlphaFold?
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