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Multimer and Alphafold3 prediction #98

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Kangfengyuuuu opened this issue Oct 31, 2024 · 0 comments
Open

Multimer and Alphafold3 prediction #98

Kangfengyuuuu opened this issue Oct 31, 2024 · 0 comments

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@Kangfengyuuuu
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May I ask how to use multimer parameters for predicting complexes in the AF2 initial guess section after designing the sequence for ProteinMPPNN. Why do some proteins with poor plddt_binder (=50) and pae_interaction (=27) predicted by AlphaFold3 have high iptm and ptm scores and small PAE when I use AlphaFold3 for prediction?
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