├── HMMs ├── ._PAN3.hmm ├── ._PIK3R4.hmm ├── ._PKDCC.hmm ├── ._RNASEL.hmm ├── ._TP53RK.hmm ├── AGC.hmm ├── ATM.hmm ├── BUB.hmm ├── CAMK.hmm ├── CAMKlong.hmm ├── CDC7.hmm ├── CK1.hmm ├── CMGC.hmm ├── CMGC2.hmm ├── EIF2AK41.hmm ├── HASP.hmm ├── MAP3K123.hmm ├── MOS.hmm ├── NEK.hmm ├── OTHER.hmm ├── PAN3.hmm ├── PEAK.hmm ├── PIK3R4.hmm ├── PINK1.hmm ├── PKDCC.hmm ├── POMK.hmm ├── PXK.hmm ├── RGC.hmm ├── RNASEL.hmm ├── RPS6KC1.hmm ├── SCYL.hmm ├── STE.hmm ├── STK31.hmm ├── TBCK.hmm ├── TKL.hmm ├── TP53RK.hmm ├── TYR.hmm ├── ULK.hmm └── WNK.hmm ├── README.md ├── kinase_state.py ├── modules ├── active_labels.py ├── assign_default_values.py ├── chelix.py ├── classify_ligands.py ├── compute_dihedrals.py ├── compute_distance.py ├── delete_files.py ├── dihedral_label.py ├── extract_ligands.py ├── extract_sequence.py ├── identify_group.py ├── identify_residues.py ├── identify_restypes.py ├── run_hmmsearch.py └── spatial_label.py └── test ├── AGC_AKT1_89.69_activePDB_5MSA_ortholog_model2.cif ├── CAMK_AURKA_86.73_activePDB_90MSA_family_model2.cif ├── CK1_CSNK1D_96.53_activeAF2_5MSA_family_model1.cif ├── CMGC_CDK2_80.16_activeAF2_5MSA_family_model2.cif ├── NEK_NEK2_71.62_activeAF2_5MSA_family_model1.cif ├── OTHER_PINK1_85.65_PDB70_10000MSA_uniref90_model1.cif ├── STE_PAK1_91.45_activePDB_5MSA_family_model1.cif ├── TKL_BRAF_37.01_activePDB_5MSA_ortholog_model1.cif ├── TYR_SRC_93.36_activeAF2_5MSA_family_model1.cif ├── readme.txt ├── test.out └── test.txt /HMMs/._PAN3.hmm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/DunbrackLab/Kincore-standalone2/HEAD/HMMs/._PAN3.hmm -------------------------------------------------------------------------------- /HMMs/._PIK3R4.hmm: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/DunbrackLab/Kincore-standalone2/HEAD/HMMs/._PIK3R4.hmm 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