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RF to refine PDB

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I wish to utilize RF to refine a low-resolution single-chain PDB structure into a stable one. Which component should I employ? thinks！

Thank you for your outstanding work. I have a question regarding docking: since my protein is completely novel, should I perform docking using the fully monomeric protein, or should I...

Dear Developer, My research focuses on the covalent binding between proteins and small molecules. Could you please clarify how DiffDock considers covalent bond formation?

Dear Developers, thank you for your help! I would like to ask: how does RF handle the problem of excessively large loss deviations across different timesteps t and different protein...

RF loss

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fape_kwargs = { 'masks_1d' : masks_1d, 'pred_in' : pred_in, 'indep' : indep, 'mask_crds' : fape_mask, 'fi_dev' : self.fi_dev, 'atom_frames' : atom_frames, 'sm_Ls' : sm_Ls, 'conf' : self.conf, 'diffusion_mask' : ~masks_1d['was_noised_in_3d']...

RFD3

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Dear Developers, Thank you for open-sourcing such a powerful tool! When I use RFD3 for protein–small-molecule design, I set the hydrogen-bond donors and acceptors, but it seems to have no...