data_TM3 # _chem_comp.id TM3 _chem_comp.name "2-[[6-[[[2-(3-hydroxypropyl)-5-methylphenyl]amino]methyl]-2-[[3-(4-morpholinyl)propyl]amino]-1H-benzimidazol-1-yl]methyl]-6-methyl-3-pyridinol" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C32 H42 N6 O3" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms TMC353121 _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2009-11-20 _chem_comp.pdbx_modified_date 2021-03-01 _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 558.714 _chem_comp.one_letter_code ? _chem_comp.three_letter_code TM3 _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 3KPE _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 TM3 C1 C1 C 0 1 N N N 27.938 -10.313 -9.907 10.200 1.773 -0.409 C1 TM3 1 TM3 C2 C2 C 0 1 N N N 26.511 -9.888 -9.531 8.839 2.044 -1.056 C2 TM3 2 TM3 N3 N3 N 0 1 N N N 26.218 -10.335 -8.156 7.781 1.456 -0.222 N3 TM3 3 TM3 C4 C4 C 0 1 N N N 27.250 -9.756 -7.268 7.814 2.018 1.135 C4 TM3 4 TM3 C5 C5 C 0 1 N N N 28.637 -10.279 -7.630 9.185 1.748 1.760 C5 TM3 5 TM3 O6 O6 O 0 1 N N N 28.924 -9.850 -8.958 10.203 2.300 0.921 O6 TM3 6 TM3 C13 C13 C 0 1 N N N 24.844 -9.931 -7.731 6.460 1.644 -0.838 C13 TM3 7 TM3 C14 C14 C 0 1 N N N 24.290 -10.788 -6.591 5.422 0.813 -0.082 C14 TM3 8 TM3 C15 C15 C 0 1 N N N 22.800 -10.628 -6.379 4.047 1.009 -0.723 C15 TM3 9 TM3 N16 N16 N 0 1 N N N 22.508 -9.301 -5.818 3.052 0.213 0.001 N16 TM3 10 TM3 C17 C17 C 0 1 Y N N 22.316 -9.089 -4.502 1.732 0.230 -0.398 C17 TM3 11 TM3 N23 N23 N 0 1 Y N N 22.417 -10.071 -3.597 1.260 0.920 -1.406 N23 TM3 12 TM3 C24 C24 C 0 1 Y N N 22.150 -9.474 -2.394 -0.078 0.706 -1.518 C24 TM3 13 TM3 C25 C25 C 0 1 Y N N 21.891 -8.116 -2.607 -0.441 -0.184 -0.495 C25 TM3 14 TM3 N26 N26 N 0 1 Y N N 21.989 -7.914 -3.957 0.724 -0.474 0.196 N26 TM3 15 TM3 C32 C32 C 0 1 Y N N 21.572 -7.224 -1.566 -1.762 -0.587 -0.364 C32 TM3 16 TM3 C33 C33 C 0 1 Y N N 21.528 -7.763 -0.269 -2.715 -0.110 -1.240 C33 TM3 17 TM3 C34 C34 C 0 1 Y N N 21.832 -9.131 -0.043 -2.362 0.770 -2.252 C34 TM3 18 TM3 C35 C35 C 0 1 Y N N 22.132 -9.987 -1.097 -1.055 1.180 -2.397 C35 TM3 19 TM3 C41 C41 C 0 1 N N N 21.711 -6.660 -4.692 0.851 -1.367 1.350 C41 TM3 20 TM3 C42 C42 C 0 1 Y N N 22.589 -5.522 -4.351 1.265 -2.739 0.881 C42 TM3 21 TM3 C45 C45 C 0 1 Y N N 23.943 -5.608 -4.457 0.300 -3.712 0.668 C45 TM3 22 TM3 C46 C46 C 0 1 Y N N 24.733 -4.515 -4.179 0.696 -4.973 0.235 C46 TM3 23 TM3 C47 C47 C 0 1 Y N N 24.056 -3.355 -3.725 2.047 -5.206 0.034 C47 TM3 24 TM3 C48 C48 C 0 1 Y N N 22.681 -3.312 -3.631 2.950 -4.185 0.267 C48 TM3 25 TM3 N49 N49 N 0 1 Y N N 21.938 -4.395 -3.917 2.541 -2.999 0.672 N49 TM3 26 TM3 O56 O56 O 0 1 N N N 24.455 -6.787 -4.924 -1.014 -3.437 0.880 O56 TM3 27 TM3 C58 C58 C 0 1 N N N 21.956 -2.070 -3.161 4.421 -4.430 0.051 C58 TM3 28 TM3 C60 C60 C 0 1 N N N 21.223 -6.912 0.939 -4.150 -0.549 -1.096 C60 TM3 29 TM3 N61 N61 N 0 1 N N N 20.893 -5.496 0.655 -4.856 0.376 -0.206 N61 TM3 30 TM3 C62 C62 C 0 1 Y N N 20.737 -4.580 1.665 -6.208 0.173 0.080 C62 TM3 31 TM3 C66 C66 C 0 1 Y N N 20.895 -4.976 3.003 -6.884 -0.905 -0.478 C66 TM3 32 TM3 C67 C67 C 0 1 Y N N 20.753 -4.068 4.054 -8.221 -1.102 -0.192 C67 TM3 33 TM3 C68 C68 C 0 1 Y N N 20.430 -2.747 3.772 -8.886 -0.229 0.649 C68 TM3 34 TM3 C69 C69 C 0 1 Y N N 20.299 -2.340 2.460 -8.217 0.845 1.206 C69 TM3 35 TM3 C70 C70 C 0 1 Y N N 20.418 -3.248 1.414 -6.878 1.045 0.929 C70 TM3 36 TM3 C77 C77 C 0 1 N N N 20.897 -4.514 5.495 -8.955 -2.271 -0.797 C77 TM3 37 TM3 C79 C79 C 0 1 N N N 20.258 -2.722 -0.007 -6.148 2.212 1.541 C79 TM3 38 TM3 C80 C80 C 0 1 N N N 18.809 -2.664 -0.499 -6.156 3.389 0.564 C80 TM3 39 TM3 C81 C81 C 0 1 N N N 18.036 -3.996 -0.409 -5.414 4.574 1.186 C81 TM3 40 TM3 O82 O82 O 0 1 N N N 18.700 -5.006 -1.186 -5.422 5.673 0.273 O82 TM3 41 TM3 H1 H1 H 0 1 N N N 27.976 -11.412 -9.940 10.380 0.699 -0.375 H1 TM3 42 TM3 H1A H1A H 0 1 N N N 28.179 -9.889 -10.893 10.983 2.257 -0.993 H1A TM3 43 TM3 H2 H2 H 0 1 N N N 26.426 -8.793 -9.588 8.682 3.119 -1.138 H2 TM3 44 TM3 H2A H2A H 0 1 N N N 25.794 -10.347 -10.228 8.813 1.594 -2.049 H2A TM3 45 TM3 H4 H4 H 0 1 N N N 27.241 -8.661 -7.375 7.641 3.093 1.088 H4 TM3 46 TM3 H4A H4A H 0 1 N N N 27.023 -10.033 -6.228 7.038 1.551 1.742 H4A TM3 47 TM3 H5 H5 H 0 1 N N N 29.387 -9.878 -6.932 9.234 2.213 2.745 H5 TM3 48 TM3 H5A H5A H 0 1 N N N 28.654 -11.378 -7.575 9.335 0.673 1.858 H5A TM3 49 TM3 H13 H13 H 0 1 N N N 24.882 -8.886 -7.389 6.185 2.697 -0.793 H13 TM3 50 TM3 H13A H13A H 0 0 N N N 24.172 -10.032 -8.596 6.495 1.321 -1.879 H13A TM3 51 TM3 H14 H14 H 0 1 N N N 24.490 -11.843 -6.829 5.697 -0.241 -0.127 H14 TM3 52 TM3 H14A H14A H 0 0 N N N 24.801 -10.493 -5.663 5.386 1.135 0.959 H14A TM3 53 TM3 H15 H15 H 0 1 N N N 22.283 -10.736 -7.344 3.771 2.062 -0.678 H15 TM3 54 TM3 H15A H15A H 0 0 N N N 22.448 -11.402 -5.681 4.082 0.687 -1.764 H15A TM3 55 TM3 HN16 HN16 H 0 0 N N N 23.294 -8.734 -6.063 3.322 -0.326 0.761 HN16 TM3 56 TM3 H32 H32 H 0 1 N N N 21.371 -6.180 -1.754 -2.043 -1.272 0.422 H32 TM3 57 TM3 H34 H34 H 0 1 N N N 21.830 -9.514 0.967 -3.117 1.136 -2.931 H34 TM3 58 TM3 H35 H35 H 0 1 N N N 22.347 -11.030 -0.915 -0.787 1.865 -3.187 H35 TM3 59 TM3 H41 H41 H 0 1 N N N 21.838 -6.868 -5.765 1.604 -0.974 2.033 H41 TM3 60 TM3 H41A H41A H 0 0 N N N 20.677 -6.363 -4.463 -0.107 -1.434 1.865 H41A TM3 61 TM3 H46 H46 H 0 1 N N N 25.806 -4.540 -4.300 -0.031 -5.752 0.061 H46 TM3 62 TM3 H47 H47 H 0 1 N N N 24.631 -2.484 -3.446 2.391 -6.173 -0.302 H47 TM3 63 TM3 HO56 HO56 H 0 0 N N N 25.403 -6.731 -4.955 -1.494 -3.172 0.083 HO56 TM3 64 TM3 H58 H58 H 0 1 N N N 20.874 -2.267 -3.128 4.683 -4.183 -0.978 H58 TM3 65 TM3 H58A H58A H 0 0 N N N 22.310 -1.797 -2.156 4.998 -3.805 0.732 H58A TM3 66 TM3 H58B H58B H 0 0 N N N 22.157 -1.243 -3.858 4.647 -5.479 0.241 H58B TM3 67 TM3 H60 H60 H 0 1 N N N 20.356 -7.358 1.448 -4.629 -0.549 -2.075 H60 TM3 68 TM3 H66 H66 H 0 1 N N N 21.132 -6.006 3.224 -6.365 -1.587 -1.135 H66 TM3 69 TM3 H68 H68 H 0 1 N N N 20.282 -2.041 4.576 -9.932 -0.385 0.870 H68 TM3 70 TM3 H69 H69 H 0 1 N N N 20.101 -1.301 2.243 -8.739 1.525 1.862 H69 TM3 71 TM3 H77 H77 H 0 1 N N N 21.944 -4.399 5.812 -8.873 -3.134 -0.135 H77 TM3 72 TM3 H77A H77A H 0 0 N N N 20.250 -3.897 6.136 -10.005 -2.012 -0.928 H77A TM3 73 TM3 H77B H77B H 0 0 N N N 20.601 -5.570 5.583 -8.517 -2.514 -1.765 H77B TM3 74 TM3 H79 H79 H 0 1 N N N 20.666 -1.701 -0.037 -6.642 2.505 2.467 H79 TM3 75 TM3 H79A H79A H 0 0 N N N 20.816 -3.390 -0.679 -5.118 1.925 1.755 H79A TM3 76 TM3 H80 H80 H 0 1 N N N 18.276 -1.926 0.119 -5.661 3.096 -0.362 H80 TM3 77 TM3 H80A H80A H 0 0 N N N 18.827 -2.359 -1.556 -7.186 3.677 0.350 H80A TM3 78 TM3 H81 H81 H 0 1 N N N 17.990 -4.318 0.642 -5.909 4.867 2.112 H81 TM3 79 TM3 H81A H81A H 0 0 N N N 17.017 -3.851 -0.797 -4.385 4.286 1.399 H81A TM3 80 TM3 HO82 HO82 H 0 0 N N N 18.217 -5.822 -1.125 -4.968 6.461 0.602 HO82 TM3 81 TM3 HO83 HO83 H 0 0 N N N 21.644 -5.152 0.092 -4.385 1.128 0.184 HO83 TM3 82 TM3 HO84 HO84 H 0 0 N N N 22.114 -6.921 1.584 -4.182 -1.554 -0.676 HO84 TM3 83 # # 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 TM3 C1 C2 SING N N 1 TM3 C1 O6 SING N N 2 TM3 C1 H1 SING N N 3 TM3 C1 H1A SING N N 4 TM3 C2 N3 SING N N 5 TM3 C2 H2 SING N N 6 TM3 C2 H2A SING N N 7 TM3 N3 C13 SING N N 8 TM3 N3 C4 SING N N 9 TM3 C5 C4 SING N N 10 TM3 C4 H4 SING N N 11 TM3 C4 H4A SING N N 12 TM3 O6 C5 SING N N 13 TM3 C5 H5 SING N N 14 TM3 C5 H5A SING N N 15 TM3 C13 C14 SING N N 16 TM3 C13 H13 SING N N 17 TM3 C13 H13A SING N N 18 TM3 C14 C15 SING N N 19 TM3 C14 H14 SING N N 20 TM3 C14 H14A SING N N 21 TM3 C15 N16 SING N N 22 TM3 C15 H15 SING N N 23 TM3 C15 H15A SING N N 24 TM3 N16 C17 SING N N 25 TM3 N16 HN16 SING N N 26 TM3 C17 N26 SING Y N 27 TM3 C17 N23 DOUB Y N 28 TM3 N23 C24 SING Y N 29 TM3 C25 C24 DOUB Y N 30 TM3 C24 C35 SING Y N 31 TM3 N26 C25 SING Y N 32 TM3 C25 C32 SING Y N 33 TM3 C41 N26 SING N N 34 TM3 C32 C33 DOUB Y N 35 TM3 C32 H32 SING N N 36 TM3 C33 C34 SING Y N 37 TM3 C33 C60 SING N N 38 TM3 C35 C34 DOUB Y N 39 TM3 C34 H34 SING N N 40 TM3 C35 H35 SING N N 41 TM3 C41 C42 SING N N 42 TM3 C41 H41 SING N N 43 TM3 C41 H41A SING N N 44 TM3 C45 C42 DOUB Y N 45 TM3 C42 N49 SING Y N 46 TM3 O56 C45 SING N N 47 TM3 C45 C46 SING Y N 48 TM3 C46 C47 DOUB Y N 49 TM3 C46 H46 SING N N 50 TM3 C47 C48 SING Y N 51 TM3 C47 H47 SING N N 52 TM3 N49 C48 DOUB Y N 53 TM3 C48 C58 SING N N 54 TM3 O56 HO56 SING N N 55 TM3 C58 H58 SING N N 56 TM3 C58 H58A SING N N 57 TM3 C58 H58B SING N N 58 TM3 N61 C60 SING N N 59 TM3 C60 H60 SING N N 60 TM3 N61 C62 SING N N 61 TM3 C70 C62 DOUB Y N 62 TM3 C62 C66 SING Y N 63 TM3 C66 C67 DOUB Y N 64 TM3 C66 H66 SING N N 65 TM3 C68 C67 SING Y N 66 TM3 C67 C77 SING N N 67 TM3 C69 C68 DOUB Y N 68 TM3 C68 H68 SING N N 69 TM3 C70 C69 SING Y N 70 TM3 C69 H69 SING N N 71 TM3 C79 C70 SING N N 72 TM3 C77 H77 SING N N 73 TM3 C77 H77A SING N N 74 TM3 C77 H77B SING N N 75 TM3 C80 C79 SING N N 76 TM3 C79 H79 SING N N 77 TM3 C79 H79A SING N N 78 TM3 C80 C81 SING N N 79 TM3 C80 H80 SING N N 80 TM3 C80 H80A SING N N 81 TM3 O82 C81 SING N N 82 TM3 C81 H81 SING N N 83 TM3 C81 H81A SING N N 84 TM3 O82 HO82 SING N N 85 TM3 N61 HO83 SING N N 86 TM3 C60 HO84 SING N N 87 # # 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 TM3 SMILES_CANONICAL CACTVS 3.352 "Cc1ccc(CCCO)c(NCc2ccc3nc(NCCCN4CCOCC4)n(Cc5nc(C)ccc5O)c3c2)c1" TM3 SMILES CACTVS 3.352 "Cc1ccc(CCCO)c(NCc2ccc3nc(NCCCN4CCOCC4)n(Cc5nc(C)ccc5O)c3c2)c1" TM3 SMILES_CANONICAL "OpenEye OEToolkits" 1.7.0 "Cc1ccc(c(c1)NCc2ccc3c(c2)n(c(n3)NCCCN4CCOCC4)Cc5c(ccc(n5)C)O)CCCO" TM3 SMILES "OpenEye OEToolkits" 1.7.0 "Cc1ccc(c(c1)NCc2ccc3c(c2)n(c(n3)NCCCN4CCOCC4)Cc5c(ccc(n5)C)O)CCCO" TM3 InChI InChI 1.03 "InChI=1S/C32H42N6O3/c1-23-6-9-26(5-3-16-39)28(19-23)34-21-25-8-10-27-30(20-25)38(22-29-31(40)11-7-24(2)35-29)32(36-27)33-12-4-13-37-14-17-41-18-15-37/h6-11,19-20,34,39-40H,3-5,12-18,21-22H2,1-2H3,(H,33,36)" TM3 InChIKey InChI 1.03 DKORMNNYNRPTBJ-UHFFFAOYSA-N # _pdbx_chem_comp_identifier.comp_id TM3 _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 1.6.1 _pdbx_chem_comp_identifier.identifier "2-[[6-[[[2-(3-hydroxypropyl)-5-methyl-phenyl]amino]methyl]-2-(3-morpholin-4-ylpropylamino)benzimidazol-1-yl]methyl]-6-methyl-pyridin-3-ol" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site TM3 "Create component" 2009-11-20 RCSB TM3 "Modify aromatic_flag" 2011-06-04 RCSB TM3 "Modify descriptor" 2011-06-04 RCSB TM3 "Modify synonyms" 2021-03-01 PDBE # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id TM3 _pdbx_chem_comp_synonyms.name TMC353121 _pdbx_chem_comp_synonyms.provenance ? _pdbx_chem_comp_synonyms.type ? ##