Skip to content

homo-oligomeric binders #202

@thomas-tugwell

Description

@thomas-tugwell

I was wondering if there is currently a way to generate homo-oligomeric binders for homo-oligomeric targets?
When I try something like this, where i supply a binder scaffold:

af_model = mk_afdesign_model(protocol="binder", data_dir="/params")
af_model.prep_inputs(
    pdb_filename="../pdbs/toy_complex.pdb",
    num_model=1,
    use_multimer=True,
    chain="A,B,C,D,E",
    binder_chain="F,G,H,I,J",
    copies=5,
    homooligomer=True
)

af_model.design_3stage()   
af_model.save_pdb("designed_output.pdb")

I get my target returned with five non-identical binders that are not arranged symmetrically. Any advice on how to do something like this? I would also eventually like to do the case where I dont have to supply a binder scaffold.

Metadata

Metadata

Assignees

No one assigned

    Labels

    No labels
    No labels

    Projects

    No projects

    Milestone

    No milestone

    Relationships

    None yet

    Development

    No branches or pull requests

    Issue actions