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prediction error using alphafold multimer #684

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sjnoh8 opened this issue Feb 18, 2025 · 0 comments
Open

prediction error using alphafold multimer #684

sjnoh8 opened this issue Feb 18, 2025 · 0 comments

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@sjnoh8
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sjnoh8 commented Feb 18, 2025

Hi,

I'm designing antibody for my protein using RFdiffusion and ProteinMPNN.
subsequently, I'm predicting the structure of the sequence obtained from proteinMPNN using colabfold alphafold multimer.

I have a question about the structure obtained from colabfold alphafold multimer.

first, my protein is dimer. so, I predict that, designed antibody interacts only one protomer of dimer.
however, designed antibody seems to combine (interact) center of the dimer.
I think the antibody is slightly shifted.

Is there any solution?
What can I try?

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