Rosetta_Binder_Design

The computational design protocol from Cao et. al. 2021

cao_2021_protocol_guide.txt has a step-by-step guide

monomer_design_adendum.txt is a side-note about how we design scaffolds.

See this for the rest of the supplement: files.ipd.uw.edu/pub/robust_de_novo_design_minibinders_2021/supplemental_files/download_supplement.txt

Name		Name	Last commit message	Last commit date
Latest commit History 4 Commits
README.md		README.md
adjust_total_netcharge.xml		adjust_total_netcharge.xml
cao_2021_protocol_guide.txt		cao_2021_protocol_guide.txt
chain_change.py		chain_change.py
collect_score_files.sh		collect_score_files.sh
final_filtering.ipynb		final_filtering.ipynb
large_sampling_10deg_by1.1_2A_by0.35.x		large_sampling_10deg_by1.1_2A_by0.35.x
minus7.charge		minus7.charge
monomer_design_adendum.txt		monomer_design_adendum.txt
motif_extraction.py		motif_extraction.py
motif_finalization.py		motif_finalization.py
motif_selection.py		motif_selection.py
old_beta_16_ref.rosettacon2018.txt		old_beta_16_ref.rosettacon2018.txt
old_beta_16_ref_2trp_2met_-1tyr_4ala.rosettacon2018.txt		old_beta_16_ref_2trp_2met_-1tyr_4ala.rosettacon2018.txt
paper_coord_relax.xml		paper_coord_relax.xml
paper_interface_design.xml		paper_interface_design.xml
paper_monomer_design.xml		paper_monomer_design.xml
paper_motif_graft.xml		paper_motif_graft.xml
paper_predictor.ipynb		paper_predictor.ipynb
paper_predictor.xml		paper_predictor.xml
per_res_sap.py		per_res_sap.py
per_res_sap.xml		per_res_sap.xml
polyV.xml		polyV.xml
prepare_run.py		prepare_run.py
rifdock.flag		rifdock.flag
rifgen.flag		rifgen.flag
rifres.py		rifres.py
rosetta_numbering.py		rosetta_numbering.py
setup_motif_graft.sh		setup_motif_graft.sh
setup_patchdock_jobs.py		setup_patchdock_jobs.py
setup_rifdock_commands.py		setup_rifdock_commands.py
small_sampling_10deg_by1.7_1.5A_by_0.6.x		small_sampling_10deg_by1.7_1.5A_by_0.6.x

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