SCFV/nanobody design?

[varunmc92]

Hello

Thanks for sharing your work. Can we use the motif-scaffolding or protein-protein binder design modes to de novo design CDR loops towards a specified epitope on a given framework/scaffold structure? In other words, do something similar like other de novo antibody design tools like IgGM, BoltzGen and RFAntibody?

Thanks

[OdinZhang]

Hi! We will make the example configs within these days! Thanks for your attention! Maybe now you can try with motif scaffolding config, i.e., redesign CDR regions.

[varunmc92]

Thanks for the reply. Looking forward to the antibody-design example configs. It would be helpful if you provide an example input json file that combines motif-scaffolding and hotspot-centric protein design. Thanks

[OdinZhang]

Hi! You can check the antibody branch for this!

[varunmc92]

Hi Thanks for the antibody updates. I ran the example script and noticed that the output has a string of GLY residues in the designed region of the light chain in all the final 5 designs.