├── .gitignore ├── README.md ├── colab └── CB.ipynb ├── environment.yml ├── examples ├── example_lpla_esmif1.ipynb ├── example_lpla_frame2seq.ipynb ├── example_lpla_proteinmpnn.ipynb └── example_lpla_thermompnn.ipynb ├── images ├── CB.jpg └── CB_cartoon.jpg ├── modeling └── single_state_kconf_model.ipynb ├── pdbs ├── annotations.md ├── b2ar │ ├── 2rh1_native.pdb │ ├── 3sn6_native.pdb │ └── af2 │ │ ├── 2rh1_inactive_af2_sample1.pdb │ │ ├── 2rh1_inactive_af2_sample2.pdb │ │ ├── 2rh1_inactive_af2_sample3.pdb │ │ ├── 2rh1_inactive_af2_sample4.pdb │ │ ├── 2rh1_inactive_af2_sample5.pdb │ │ ├── 2rh1_inactive_af2_sample6.pdb │ │ ├── 3sn6_active_af2_sample1.pdb │ │ ├── 3sn6_active_af2_sample2.pdb │ │ ├── 3sn6_active_af2_sample3.pdb │ │ ├── 3sn6_active_af2_sample4.pdb │ │ ├── 3sn6_active_af2_sample5.pdb │ │ ├── 3sn6_active_af2_sample6.pdb │ │ ├── README.md │ │ ├── active_af2_scores.json │ │ └── inactive_af2_scores.json ├── binders │ ├── 8da3.pdb │ ├── 8da4.pdb │ ├── 8da5.pdb │ ├── 8da6.pdb │ ├── 8da7.pdb │ ├── 8da8.pdb │ ├── 8da9.pdb │ ├── 8daa.pdb │ ├── 8dab.pdb │ └── 8dac.pdb ├── braf │ ├── 7mfd.pdb │ └── 7mff.pdb ├── fabz │ ├── 2gll_chainB_closed_AF2.pdb │ └── 2gll_chainF_open_AF2.pdb ├── kras │ ├── 6xhb.pdb │ └── 8t71.pdb ├── lpla │ ├── 1x2g.pdb │ └── 3a7r.pdb ├── mura │ ├── 1naw_open_AF2.pdb │ ├── 1uae_closed_AF2.pdb │ └── 1uae_closed_native.pdb ├── sars_cov2 │ ├── 7xix.pdb │ └── 7xo8.pdb └── src │ ├── 1y57.pdb │ └── 2src.pdb ├── saxs ├── README.md ├── analysis │ ├── combined_oligomer_analysis_kratky_addition.py │ └── create_complete_enhanced_weighted_averages.py ├── denss.ipynb ├── oligomer.ipynb ├── pdbs │ ├── 1X2H_ChainA_Closed_Monomer.pdb │ ├── 3A7R_Open_Dimer.pdb │ ├── 3A7R_Open_Monomer.pdb │ ├── AF3_Closed_Dimer.pdb │ ├── AF3_Closed_Tetramer.pdb │ ├── AF3_Open_Dimer_A48N_AMP.pdb │ ├── AF3_Open_Monomer.pdb │ └── Chai1_Closed_Monomer.pdb └── trim_files.ipynb └── utilities └── cbutils.py /.gitignore: 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