data_VKD # _chem_comp.id VKD _chem_comp.name Cobimetinib _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C21 H21 F3 I N3 O2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "{3,4-difluoro-2-[(2-fluoro-4-iodophenyl)amino]phenyl}{3-hydroxy-3-[(2R)-piperidin-2-yl]azetidin-1-yl}methanone" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2020-08-21 _chem_comp.pdbx_modified_date 2021-03-13 _chem_comp.pdbx_ambiguous_flag N _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.formula_weight 531.310 _chem_comp.one_letter_code ? _chem_comp.three_letter_code VKD _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 7JUS _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB # # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.alt_atom_id _chem_comp_atom.type_symbol _chem_comp_atom.charge _chem_comp_atom.pdbx_align _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_leaving_atom_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.model_Cartn_x _chem_comp_atom.model_Cartn_y _chem_comp_atom.model_Cartn_z _chem_comp_atom.pdbx_model_Cartn_x_ideal _chem_comp_atom.pdbx_model_Cartn_y_ideal _chem_comp_atom.pdbx_model_Cartn_z_ideal _chem_comp_atom.pdbx_component_atom_id _chem_comp_atom.pdbx_component_comp_id _chem_comp_atom.pdbx_ordinal VKD C25 C1 C 0 1 N N N -50.774 74.888 6.275 -6.485 2.672 -0.283 C25 VKD 1 VKD C26 C2 C 0 1 N N N -49.365 74.452 6.438 -7.595 3.351 0.525 C26 VKD 2 VKD C27 C3 C 0 1 N N N -49.215 73.220 7.281 -8.759 2.372 0.701 C27 VKD 3 VKD N29 N1 N 0 1 N N N -51.349 73.720 8.440 -7.194 0.492 0.581 N29 VKD 4 VKD C30 C4 C 0 1 N N N -51.823 76.143 9.718 -4.127 -0.319 0.432 C30 VKD 5 VKD C10 C5 C 0 1 Y N N -55.360 78.410 11.668 -0.087 -2.122 -0.513 C10 VKD 6 VKD C12 C6 C 0 1 Y N N -55.231 80.954 12.048 1.841 -0.733 -0.943 C12 VKD 7 VKD C13 C7 C 0 1 Y N N -54.875 80.780 13.377 2.173 -0.768 0.405 C13 VKD 8 VKD C14 C8 C 0 1 Y N N -54.693 81.852 14.223 3.284 -0.084 0.860 C14 VKD 9 VKD C15 C9 C 0 1 Y N N -54.837 83.140 13.735 4.065 0.637 -0.025 C15 VKD 10 VKD C17 C10 C 0 1 Y N N -55.180 83.339 12.394 3.739 0.675 -1.369 C17 VKD 11 VKD C18 C11 C 0 1 Y N N -55.378 82.245 11.551 2.628 -0.007 -1.831 C18 VKD 12 VKD C02 C12 C 0 1 N N N -53.886 77.914 9.647 -1.720 -0.237 -0.562 C02 VKD 13 VKD C03 C13 C 0 1 Y N N -54.615 77.488 10.934 -1.300 -1.564 -0.078 C03 VKD 14 VKD C04 C14 C 0 1 Y N N -54.532 76.171 11.370 -2.107 -2.273 0.817 C04 VKD 15 VKD C05 C15 C 0 1 Y N N -55.170 75.749 12.526 -1.711 -3.513 1.266 C05 VKD 16 VKD C06 C16 C 0 1 Y N N -55.911 76.656 13.262 -0.512 -4.065 0.836 C06 VKD 17 VKD C08 C17 C 0 1 Y N N -56.015 77.978 12.833 0.298 -3.375 -0.050 C08 VKD 18 VKD C21 C18 C 0 1 N N N -51.751 77.407 8.052 -3.648 1.517 -0.481 C21 VKD 19 VKD C22 C19 C 0 1 N N N -51.108 76.130 8.447 -4.950 0.702 -0.375 C22 VKD 20 VKD C24 C20 C 0 1 N N R -51.531 74.935 7.609 -6.045 1.395 0.438 C24 VKD 21 VKD C28 C21 C 0 1 N N N -49.931 73.317 8.615 -8.253 1.104 1.393 C28 VKD 22 VKD F07 F1 F 0 1 N N N -56.544 76.233 14.402 -0.133 -5.282 1.284 F07 VKD 23 VKD F09 F2 F 0 1 N N N -56.761 78.841 13.588 1.463 -3.919 -0.464 F09 VKD 24 VKD F19 F3 F 0 1 N N N -55.710 82.435 10.240 2.309 0.031 -3.143 F19 VKD 25 VKD I16 I1 I 0 1 N N N -54.517 84.732 15.092 5.747 1.673 0.671 I16 VKD 26 VKD N11 N2 N 0 1 N N N -55.442 79.792 11.190 0.720 -1.429 -1.408 N11 VKD 27 VKD N20 N3 N 0 1 N N N -52.667 77.255 9.204 -2.945 0.234 -0.258 N20 VKD 28 VKD O01 O1 O 0 1 N N N -54.304 78.795 8.979 -0.961 0.432 -1.237 O01 VKD 29 VKD O23 O2 O 0 1 N N N -49.740 76.287 8.650 -5.419 0.201 -1.628 O23 VKD 30 VKD H1 H1 H 0 1 N N N -50.783 75.893 5.828 -6.859 2.419 -1.275 H1 VKD 31 VKD H2 H2 H 0 1 N N N -51.286 74.184 5.603 -5.636 3.349 -0.375 H2 VKD 32 VKD H3 H3 H 0 1 N N N -48.947 74.246 5.442 -7.210 3.639 1.503 H3 VKD 33 VKD H4 H4 H 0 1 N N N -48.800 75.269 6.911 -7.941 4.237 -0.007 H4 VKD 34 VKD H5 H5 H 0 1 N N N -49.626 72.364 6.725 -9.535 2.835 1.311 H5 VKD 35 VKD H6 H6 H 0 1 N N N -48.144 73.054 7.470 -9.169 2.114 -0.276 H6 VKD 36 VKD H7 H7 H 0 1 N N N -51.740 73.895 9.343 -7.546 0.210 -0.321 H7 VKD 37 VKD H9 H9 H 0 1 N N N -52.377 75.218 9.935 -4.134 -0.137 1.507 H9 VKD 38 VKD H10 H10 H 0 1 N N N -51.201 76.410 10.585 -4.340 -1.356 0.175 H10 VKD 39 VKD H11 H11 H 0 1 N N N -54.737 79.779 13.758 1.564 -1.330 1.097 H11 VKD 40 VKD H12 H12 H 0 1 N N N -54.440 81.689 15.260 3.542 -0.112 1.908 H12 VKD 41 VKD H13 H13 H 0 1 N N N -55.292 84.342 12.010 4.351 1.239 -2.057 H13 VKD 42 VKD H14 H14 H 0 1 N N N -53.957 75.460 10.795 -3.040 -1.849 1.155 H14 VKD 43 VKD H15 H15 H 0 1 N N N -55.089 74.722 12.849 -2.336 -4.058 1.957 H15 VKD 44 VKD H16 H16 H 0 1 N N N -51.091 78.285 8.108 -3.477 1.945 -1.469 H16 VKD 45 VKD H17 H17 H 0 1 N N N -52.246 77.383 7.070 -3.513 2.238 0.325 H17 VKD 46 VKD H18 H18 H 0 1 N N N -52.602 75.043 7.383 -5.658 1.650 1.425 H18 VKD 47 VKD H19 H19 H 0 1 N N N -49.896 72.336 9.112 -7.856 1.361 2.375 H19 VKD 48 VKD H20 H20 H 0 1 N N N -49.421 74.064 9.241 -9.077 0.400 1.507 H20 VKD 49 VKD H21 H21 H 0 1 N N N -55.654 79.948 10.225 0.507 -1.429 -2.354 H21 VKD 50 VKD H22 H22 H 0 1 N N N -49.585 77.058 9.183 -4.746 -0.266 -2.142 H22 VKD 51 # # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal VKD C25 C26 SING N N 1 VKD C25 C24 SING N N 2 VKD C26 C27 SING N N 3 VKD C27 C28 SING N N 4 VKD C24 N29 SING N N 5 VKD C24 C22 SING N N 6 VKD C21 C22 SING N N 7 VKD C21 N20 SING N N 8 VKD N29 C28 SING N N 9 VKD C22 O23 SING N N 10 VKD C22 C30 SING N N 11 VKD O01 C02 DOUB N N 12 VKD N20 C02 SING N N 13 VKD N20 C30 SING N N 14 VKD C02 C03 SING N N 15 VKD F19 C18 SING N N 16 VKD C03 C04 DOUB Y N 17 VKD C03 C10 SING Y N 18 VKD N11 C10 SING N N 19 VKD N11 C12 SING N N 20 VKD C04 C05 SING Y N 21 VKD C18 C12 DOUB Y N 22 VKD C18 C17 SING Y N 23 VKD C10 C08 DOUB Y N 24 VKD C12 C13 SING Y N 25 VKD C17 C15 DOUB Y N 26 VKD C05 C06 DOUB Y N 27 VKD C08 C06 SING Y N 28 VKD C08 F09 SING N N 29 VKD C06 F07 SING N N 30 VKD C13 C14 DOUB Y N 31 VKD C15 C14 SING Y N 32 VKD C15 I16 SING N N 33 VKD C25 H1 SING N N 34 VKD C25 H2 SING N N 35 VKD C26 H3 SING N N 36 VKD C26 H4 SING N N 37 VKD C27 H5 SING N N 38 VKD C27 H6 SING N N 39 VKD N29 H7 SING N N 40 VKD C30 H9 SING N N 41 VKD C30 H10 SING N N 42 VKD C13 H11 SING N N 43 VKD C14 H12 SING N N 44 VKD C17 H13 SING N N 45 VKD C04 H14 SING N N 46 VKD C05 H15 SING N N 47 VKD C21 H16 SING N N 48 VKD C21 H17 SING N N 49 VKD C24 H18 SING N N 50 VKD C28 H19 SING N N 51 VKD C28 H20 SING N N 52 VKD N11 H21 SING N N 53 VKD O23 H22 SING N N 54 # # loop_ _pdbx_chem_comp_descriptor.comp_id _pdbx_chem_comp_descriptor.type _pdbx_chem_comp_descriptor.program _pdbx_chem_comp_descriptor.program_version _pdbx_chem_comp_descriptor.descriptor VKD SMILES ACDLabs 12.01 "C1CCCNC1C4(CN(C(c2c(c(c(cc2)F)F)Nc3ccc(I)cc3F)=O)C4)O" VKD InChI InChI 1.03 "InChI=1S/C21H21F3IN3O2/c22-14-6-5-13(19(18(14)24)27-16-7-4-12(25)9-15(16)23)20(29)28-10-21(30,11-28)17-3-1-2-8-26-17/h4-7,9,17,26-27,30H,1-3,8,10-11H2/t17-/m1/s1" VKD InChIKey InChI 1.03 BSMCAPRUBJMWDF-QGZVFWFLSA-N VKD SMILES_CANONICAL CACTVS 3.385 "OC1(CN(C1)C(=O)c2ccc(F)c(F)c2Nc3ccc(I)cc3F)[C@H]4CCCCN4" VKD SMILES CACTVS 3.385 "OC1(CN(C1)C(=O)c2ccc(F)c(F)c2Nc3ccc(I)cc3F)[CH]4CCCCN4" VKD SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1cc(c(cc1I)F)Nc2c(ccc(c2F)F)C(=O)N3CC(C3)([C@H]4CCCCN4)O" VKD SMILES "OpenEye OEToolkits" 2.0.7 "c1cc(c(cc1I)F)Nc2c(ccc(c2F)F)C(=O)N3CC(C3)(C4CCCCN4)O" # # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version _pdbx_chem_comp_identifier.identifier VKD "SYSTEMATIC NAME" ACDLabs 12.01 "{3,4-difluoro-2-[(2-fluoro-4-iodophenyl)amino]phenyl}{3-hydroxy-3-[(2R)-piperidin-2-yl]azetidin-1-yl}methanone" VKD "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[3,4-bis(fluoranyl)-2-[(2-fluoranyl-4-iodanyl-phenyl)amino]phenyl]-[3-oxidanyl-3-[(2~{R})-piperidin-2-yl]azetidin-1-yl]methanone" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site VKD "Create component" 2020-08-21 RCSB VKD "Initial release" 2020-09-30 RCSB VKD "Modify synonyms" 2021-03-13 RCSB # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id VKD _pdbx_chem_comp_synonyms.name "{3,4-difluoro-2-[(2-fluoro-4-iodophenyl)amino]phenyl}{3-hydroxy-3-[(2R)-piperidin-2-yl]azetidin-1-yl}methanone" _pdbx_chem_comp_synonyms.provenance PDB _pdbx_chem_comp_synonyms.type ? ##