How to calculate the similairty of two protein structures in .pdb file format or how to measure the accuracy of alphafold predicted protein structure?
I am new to the protein structure prediction, so the following question may sound obvious to experts in the field.
Let’s say a protein has 3d crystal structure already, and alphafold is used to predict the protein structure and generates a .pdb file. How do we know how close the predicted 3d structure is to the 3d crystal structure?
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