data_A1IMI # _chem_comp.id A1IMI _chem_comp.name "5-[2-[5-(3,5-dimethyl-1,2-oxazol-4-yl)-1-[2-(4-ethanoylpiperazin-1-ium-1-yl)ethyl]benzimidazol-2-yl]ethyl]-2-methyl-benzenecarbonitrile" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C30 H35 N6 O2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 1 _chem_comp.pdbx_initial_date 2024-08-23 _chem_comp.pdbx_modified_date 2025-08-29 _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 511.638 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1IMI _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 9GJR _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBE _chem_comp.pdbx_pcm ? # 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.pdbx_n_terminal_atom_flag _chem_comp_atom.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_c_terminal_atom_flag _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 A1IMI C5 C1 C 0 1 Y N N N N N -11.701 6.743 10.098 -7.295 -0.685 -1.162 C5 A1IMI 1 A1IMI C6 C2 C 0 1 N N N N N N -12.157 7.720 9.078 -6.729 -1.519 -2.283 C6 A1IMI 2 A1IMI C7 C3 C 0 1 Y N N N N N -12.099 6.444 11.363 -6.598 -0.104 -0.141 C7 A1IMI 3 A1IMI C8 C4 C 0 1 Y N N N N N -13.207 7.083 12.118 -5.136 -0.148 0.114 C8 A1IMI 4 A1IMI C9 C5 C 0 1 Y N N N N N -14.173 6.287 12.749 -4.519 -1.365 0.416 C9 A1IMI 5 A1IMI C10 C6 C 0 1 Y N N N N N -15.166 6.847 13.536 -3.174 -1.420 0.654 C10 A1IMI 6 A1IMI C11 C7 C 0 1 Y N N N N N -13.236 8.471 12.267 -4.388 1.017 0.045 C11 A1IMI 7 A1IMI C12 C8 C 0 1 Y N N N N N -14.232 9.045 13.057 -3.013 0.968 0.287 C12 A1IMI 8 A1IMI N3 N1 N 0 1 Y N N N N N -10.414 5.050 10.834 -8.732 0.316 0.018 N3 A1IMI 9 A1IMI C13 C9 C 0 1 Y N N N N N -15.172 8.229 13.678 -2.409 -0.263 0.595 C13 A1IMI 10 A1IMI C15 C10 C 0 1 Y N N N N N -15.516 10.358 14.174 -0.893 1.343 0.583 C15 A1IMI 11 A1IMI C1 C11 C 0 1 N N N N N N -11.268 4.637 13.072 -7.403 1.363 1.875 C1 A1IMI 12 A1IMI C2 C12 C 0 1 Y N N N N N -11.258 5.375 11.774 -7.604 0.554 0.621 C2 A1IMI 13 A1IMI C20 C13 C 0 1 Y N N N N N -11.719 12.223 16.591 4.796 2.768 -0.171 C20 A1IMI 14 A1IMI C19 C14 C 0 1 Y N N N N N -13.037 11.783 16.687 3.575 2.096 -0.266 C19 A1IMI 15 A1IMI C18 C15 C 0 1 Y N N N N N -14.071 12.442 16.030 2.429 2.797 -0.580 C18 A1IMI 16 A1IMI C17 C16 C 0 1 N N N N N N -15.494 11.943 16.142 1.111 2.074 -0.682 C17 A1IMI 17 A1IMI C16 C17 C 0 1 N N N N N N -16.137 11.565 14.795 0.425 2.066 0.686 C16 A1IMI 18 A1IMI C21 C18 C 0 1 N N N N N N -10.681 11.512 17.288 5.990 2.048 0.154 C21 A1IMI 19 A1IMI C23 C19 C 0 1 Y N N N N N -11.401 13.350 15.821 4.848 4.144 -0.401 C23 A1IMI 20 A1IMI C24 C20 C 0 1 N N N N N N -9.976 13.826 15.683 6.161 4.878 -0.302 C24 A1IMI 21 A1IMI C25 C21 C 0 1 Y N N N N N -12.446 14.001 15.169 3.694 4.831 -0.720 C25 A1IMI 22 A1IMI C26 C22 C 0 1 Y N N N N N -13.754 13.560 15.269 2.487 4.162 -0.801 C26 A1IMI 23 A1IMI C28 C23 C 0 1 N N N N N N -17.096 8.681 15.265 -0.023 -0.963 1.115 C28 A1IMI 24 A1IMI C29 C24 C 0 1 N N N N N N -18.308 8.354 14.426 0.580 -1.529 -0.172 C29 A1IMI 25 A1IMI C31 C25 C 0 1 N N N N N N -19.192 6.456 15.739 2.728 -1.817 0.852 C31 A1IMI 26 A1IMI C32 C26 C 0 1 N N N N N N -20.314 6.050 16.684 3.767 -2.848 1.305 C32 A1IMI 27 A1IMI C34 C27 C 0 1 N N N N N N -21.863 7.508 15.423 3.130 -4.230 -0.708 C34 A1IMI 28 A1IMI C35 C28 C 0 1 N N N N N N -20.726 7.865 14.484 2.121 -3.134 -1.066 C35 A1IMI 29 A1IMI C36 C29 C 0 1 N N N N N N -22.623 5.284 16.126 5.484 -3.818 -0.155 C36 A1IMI 30 A1IMI C38 C30 C 0 1 N N N N N N -22.312 3.962 16.759 6.543 -3.203 0.724 C38 A1IMI 31 A1IMI N14 N2 N 0 1 Y N N N N N -14.469 10.380 13.380 -2.031 1.905 0.296 N14 A1IMI 32 A1IMI N22 N3 N 0 1 N N N N N N -9.838 10.941 17.805 6.937 1.476 0.412 N22 A1IMI 33 A1IMI N27 N4 N 0 1 Y N N N N N -15.990 9.090 14.397 -1.067 0.009 0.779 N27 A1IMI 34 A1IMI N30 N5 N 1 1 N N N N N N -19.449 7.845 15.257 1.627 -2.503 0.165 N30 A1IMI 35 A1IMI N33 N6 N 0 1 N N N N N N -21.630 6.199 16.045 4.180 -3.639 0.135 N33 A1IMI 36 A1IMI O37 O1 O 0 1 N N N N N N -23.758 5.561 15.757 5.806 -4.473 -1.123 O37 A1IMI 37 A1IMI O4 O2 O 0 1 Y N N N N N -10.686 5.925 9.743 -8.581 -0.361 -0.972 O4 A1IMI 38 A1IMI H1 H1 H 0 1 N N N N N N -11.558 7.602 8.163 -6.718 -2.568 -1.986 H1 A1IMI 39 A1IMI H2 H2 H 0 1 N N N N N N -13.218 7.541 8.848 -7.348 -1.400 -3.172 H2 A1IMI 40 A1IMI H3 H3 H 0 1 N N N N N N -12.034 8.741 9.468 -5.712 -1.192 -2.502 H3 A1IMI 41 A1IMI H4 H4 H 0 1 N N N N N N -14.142 5.215 12.619 -5.109 -2.269 0.463 H4 A1IMI 42 A1IMI H5 H5 H 0 1 N N N N N N -15.909 6.231 14.022 -2.706 -2.365 0.887 H5 A1IMI 43 A1IMI H6 H6 H 0 1 N N N N N N -12.499 9.091 11.778 -4.864 1.957 -0.193 H6 A1IMI 44 A1IMI H7 H7 H 0 1 N N N N N N -10.496 3.854 13.055 -7.229 2.407 1.611 H7 A1IMI 45 A1IMI H8 H8 H 0 1 N N N N N N -11.061 5.338 13.894 -8.292 1.291 2.501 H8 A1IMI 46 A1IMI H9 H9 H 0 1 N N N N N N -12.255 4.176 13.224 -6.542 0.979 2.422 H9 A1IMI 47 A1IMI H10 H10 H 0 1 N N N N N N -13.261 10.912 17.284 3.529 1.031 -0.094 H10 A1IMI 48 A1IMI H11 H11 H 0 1 N N N N N N -16.102 12.734 16.605 0.473 2.582 -1.406 H11 A1IMI 49 A1IMI H12 H12 H 0 1 N N N N N N -15.498 11.053 16.788 1.283 1.048 -1.008 H12 A1IMI 50 A1IMI H13 H13 H 0 1 N N N N N N -16.026 12.413 14.103 0.253 3.092 1.011 H13 A1IMI 51 A1IMI H14 H14 H 0 1 N N N N N N -17.206 11.364 14.960 1.063 1.558 1.409 H14 A1IMI 52 A1IMI H15 H15 H 0 1 N N N N N N -9.753 14.553 16.478 6.649 4.881 -1.276 H15 A1IMI 53 A1IMI H16 H16 H 0 1 N N N N N N -9.293 12.968 15.770 5.980 5.904 0.018 H16 A1IMI 54 A1IMI H17 H17 H 0 1 N N N N N N -9.842 14.303 14.701 6.802 4.378 0.424 H17 A1IMI 55 A1IMI H18 H18 H 0 1 N N N N N N -12.230 14.873 14.570 3.733 5.897 -0.893 H18 A1IMI 56 A1IMI H19 H19 H 0 1 N N N N N N -14.538 14.091 14.749 1.587 4.704 -1.051 H19 A1IMI 57 A1IMI H20 H20 H 0 1 N N N N N N -16.799 7.792 15.841 -0.455 -1.773 1.701 H20 A1IMI 58 A1IMI H21 H21 H 0 1 N N N N N N -17.340 9.501 15.956 0.758 -0.471 1.696 H21 A1IMI 59 A1IMI H22 H22 H 0 1 N N N N N N -18.033 7.583 13.691 -0.200 -2.021 -0.753 H22 A1IMI 60 A1IMI H23 H23 H 0 1 N N N N N N -18.631 9.264 13.900 1.013 -0.719 -0.758 H23 A1IMI 61 A1IMI H24 H24 H 0 1 N N N N N N -19.163 5.767 14.882 2.340 -1.286 1.721 H24 A1IMI 62 A1IMI H25 H25 H 0 1 N N N N N N -18.230 6.421 16.271 3.195 -1.106 0.171 H25 A1IMI 63 A1IMI H26 H26 H 0 1 N N N N N N -20.174 4.999 16.976 4.633 -2.336 1.725 H26 A1IMI 64 A1IMI H27 H27 H 0 1 N N N N N N -20.276 6.687 17.580 3.329 -3.503 2.058 H27 A1IMI 65 A1IMI H28 H28 H 0 1 N N N N N N -21.936 8.274 16.209 2.626 -5.027 -0.161 H28 A1IMI 66 A1IMI H29 H29 H 0 1 N N N N N N -22.804 7.475 14.855 3.574 -4.634 -1.617 H29 A1IMI 67 A1IMI H30 H30 H 0 1 N N N N N N -20.891 8.869 14.066 2.606 -2.383 -1.690 H30 A1IMI 68 A1IMI H31 H31 H 0 1 N N N N N N -20.676 7.131 13.666 1.285 -3.573 -1.610 H31 A1IMI 69 A1IMI H32 H32 H 0 1 N N N N N N -23.229 3.357 16.815 6.444 -3.590 1.738 H32 A1IMI 70 A1IMI H33 H33 H 0 1 N N N N N N -21.560 3.434 16.154 7.530 -3.454 0.334 H33 A1IMI 71 A1IMI H34 H34 H 0 1 N N N N N N -21.918 4.125 17.773 6.422 -2.120 0.735 H34 A1IMI 72 A1IMI H35 H35 H 0 1 N N N N N N -19.551 8.443 16.052 1.243 -3.212 0.772 H35 A1IMI 73 # 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 A1IMI C6 C5 SING N N 1 A1IMI O4 C5 SING Y N 2 A1IMI O4 N3 SING Y N 3 A1IMI C5 C7 DOUB Y N 4 A1IMI N3 C2 DOUB Y N 5 A1IMI C7 C2 SING Y N 6 A1IMI C7 C8 SING N N 7 A1IMI C2 C1 SING N N 8 A1IMI C8 C11 DOUB Y N 9 A1IMI C8 C9 SING Y N 10 A1IMI C11 C12 SING Y N 11 A1IMI C9 C10 DOUB Y N 12 A1IMI C12 N14 SING Y N 13 A1IMI C12 C13 DOUB Y N 14 A1IMI N14 C15 DOUB Y N 15 A1IMI C10 C13 SING Y N 16 A1IMI C13 N27 SING Y N 17 A1IMI C15 N27 SING Y N 18 A1IMI C15 C16 SING N N 19 A1IMI N27 C28 SING N N 20 A1IMI C29 N30 SING N N 21 A1IMI C29 C28 SING N N 22 A1IMI C35 N30 SING N N 23 A1IMI C35 C34 SING N N 24 A1IMI C16 C17 SING N N 25 A1IMI C25 C26 DOUB Y N 26 A1IMI C25 C23 SING Y N 27 A1IMI N30 C31 SING N N 28 A1IMI C26 C18 SING Y N 29 A1IMI C34 N33 SING N N 30 A1IMI C24 C23 SING N N 31 A1IMI C31 C32 SING N N 32 A1IMI O37 C36 DOUB N N 33 A1IMI C23 C20 DOUB Y N 34 A1IMI C18 C17 SING N N 35 A1IMI C18 C19 DOUB Y N 36 A1IMI N33 C36 SING N N 37 A1IMI N33 C32 SING N N 38 A1IMI C36 C38 SING N N 39 A1IMI C20 C19 SING Y N 40 A1IMI C20 C21 SING N N 41 A1IMI C21 N22 TRIP N N 42 A1IMI C6 H1 SING N N 43 A1IMI C6 H2 SING N N 44 A1IMI C6 H3 SING N N 45 A1IMI C9 H4 SING N N 46 A1IMI C10 H5 SING N N 47 A1IMI C11 H6 SING N N 48 A1IMI C1 H7 SING N N 49 A1IMI C1 H8 SING N N 50 A1IMI C1 H9 SING N N 51 A1IMI C19 H10 SING N N 52 A1IMI C17 H11 SING N N 53 A1IMI C17 H12 SING N N 54 A1IMI C16 H13 SING N N 55 A1IMI C16 H14 SING N N 56 A1IMI C24 H15 SING N N 57 A1IMI C24 H16 SING N N 58 A1IMI C24 H17 SING N N 59 A1IMI C25 H18 SING N N 60 A1IMI C26 H19 SING N N 61 A1IMI C28 H20 SING N N 62 A1IMI C28 H21 SING N N 63 A1IMI C29 H22 SING N N 64 A1IMI C29 H23 SING N N 65 A1IMI C31 H24 SING N N 66 A1IMI C31 H25 SING N N 67 A1IMI C32 H26 SING N N 68 A1IMI C32 H27 SING N N 69 A1IMI C34 H28 SING N N 70 A1IMI C34 H29 SING N N 71 A1IMI C35 H30 SING N N 72 A1IMI C35 H31 SING N N 73 A1IMI C38 H32 SING N N 74 A1IMI C38 H33 SING N N 75 A1IMI C38 H34 SING N N 76 A1IMI N30 H35 SING N N 77 # 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 A1IMI InChI InChI 1.06 "InChI=1S/C30H34N6O2/c1-20-5-6-24(17-26(20)19-31)7-10-29-32-27-18-25(30-21(2)33-38-22(30)3)8-9-28(27)36(29)16-13-34-11-14-35(15-12-34)23(4)37/h5-6,8-9,17-18H,7,10-16H2,1-4H3/p+1" A1IMI InChIKey InChI 1.06 MBOHTEXMGONSHT-UHFFFAOYSA-O A1IMI SMILES_CANONICAL CACTVS 3.385 "CC(=O)N1CC[NH+](CC1)CCn2c(CCc3ccc(C)c(c3)C#N)nc4cc(ccc24)c5c(C)onc5C" A1IMI SMILES CACTVS 3.385 "CC(=O)N1CC[NH+](CC1)CCn2c(CCc3ccc(C)c(c3)C#N)nc4cc(ccc24)c5c(C)onc5C" A1IMI SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "Cc1ccc(cc1C#N)CCc2nc3cc(ccc3n2CC[NH+]4CCN(CC4)C(=O)C)c5c(noc5C)C" A1IMI SMILES "OpenEye OEToolkits" 2.0.7 "Cc1ccc(cc1C#N)CCc2nc3cc(ccc3n2CC[NH+]4CCN(CC4)C(=O)C)c5c(noc5C)C" # _pdbx_chem_comp_identifier.comp_id A1IMI _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 2.0.7 _pdbx_chem_comp_identifier.identifier "5-[2-[5-(3,5-dimethyl-1,2-oxazol-4-yl)-1-[2-(4-ethanoylpiperazin-1-ium-1-yl)ethyl]benzimidazol-2-yl]ethyl]-2-methyl-benzenecarbonitrile" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1IMI "Create component" 2024-08-23 PDBE A1IMI "Initial release" 2025-09-03 RCSB #