data_AM9 # _chem_comp.id AM9 _chem_comp.name "6-(2,6-dimethylphenyl)-2-{[4-(4-methylpiperazin-1-yl)phenyl]amino}pyrimido[5',4':5,6]pyrimido[1,2-a]benzimidazol-5(6H)-one" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C31 H30 N8 O" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2008-01-21 _chem_comp.pdbx_modified_date 2011-06-04 _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 530.623 _chem_comp.one_letter_code ? _chem_comp.three_letter_code AM9 _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 3BYO _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 AM9 C1 C1 C 0 1 Y N N 25.759 35.800 82.930 0.717 -0.966 0.256 C1 AM9 1 AM9 N1 N1 N 0 1 Y N N 25.574 36.546 84.069 -0.498 -1.482 0.116 N1 AM9 2 AM9 C2 C2 C 0 1 Y N N 24.371 36.768 84.633 -1.560 -0.693 0.092 C2 AM9 3 AM9 C3 C3 C 0 1 Y N N 23.214 36.141 83.938 -1.375 0.699 0.217 C3 AM9 4 AM9 C4 C4 C 0 1 Y N N 23.389 35.328 82.727 -0.081 1.197 0.363 C4 AM9 5 AM9 N2 N2 N 0 1 Y N N 24.682 35.202 82.277 0.926 0.339 0.377 N2 AM9 6 AM9 N3 N3 N 0 1 N N N 27.045 35.726 82.415 1.802 -1.819 0.284 N3 AM9 7 AM9 C5 C5 C 0 1 Y N N 28.233 36.421 82.761 3.102 -1.297 0.314 C5 AM9 8 AM9 C6 C6 C 0 1 Y N N 28.153 37.686 83.517 4.103 -1.965 1.007 C6 AM9 9 AM9 C7 C7 C 0 1 Y N N 29.312 38.347 83.982 5.384 -1.450 1.037 C7 AM9 10 AM9 C8 C8 C 0 1 Y N N 30.536 37.684 83.649 5.671 -0.265 0.373 C8 AM9 11 AM9 C9 C9 C 0 1 Y N N 30.672 36.421 82.868 4.671 0.403 -0.321 C9 AM9 12 AM9 C10 C10 C 0 1 Y N N 29.478 35.777 82.410 3.391 -0.115 -0.355 C10 AM9 13 AM9 N4 N4 N 0 1 Y N N 24.250 37.621 85.821 -2.840 -1.194 -0.053 N4 AM9 14 AM9 C11 C11 C 0 1 Y N N 23.045 37.913 86.429 -3.922 -0.357 -0.076 C11 AM9 15 AM9 N5 N5 N 0 1 N N N 21.892 37.337 85.833 -3.772 1.013 0.045 N5 AM9 16 AM9 C12 C12 C 0 1 N N N 22.007 36.496 84.618 -2.553 1.574 0.190 C12 AM9 17 AM9 C13 C13 C 0 1 Y N N 25.187 38.354 86.628 -3.312 -2.491 -0.195 C13 AM9 18 AM9 C14 C14 C 0 1 Y N N 24.508 39.096 87.704 -4.708 -2.388 -0.302 C14 AM9 19 AM9 N6 N6 N 0 1 Y N N 23.176 38.793 87.550 -5.019 -1.069 -0.223 N6 AM9 20 AM9 C15 C15 C 0 1 Y N N 26.657 38.522 86.577 -2.703 -3.735 -0.244 C15 AM9 21 AM9 C16 C16 C 0 1 Y N N 27.424 39.358 87.515 -3.472 -4.870 -0.398 C16 AM9 22 AM9 C17 C17 C 0 1 Y N N 26.681 40.060 88.542 -4.852 -4.775 -0.504 C17 AM9 23 AM9 C18 C18 C 0 1 Y N N 25.244 39.951 88.659 -5.473 -3.547 -0.457 C18 AM9 24 AM9 O1 O1 O 0 1 N N N 21.024 36.087 84.012 -2.434 2.780 0.295 O1 AM9 25 AM9 C19 C19 C 0 1 Y N N 20.676 37.486 86.446 -4.906 1.834 0.017 C19 AM9 26 AM9 C20 C20 C 0 1 Y N N 20.154 36.434 87.317 -5.568 2.147 1.197 C20 AM9 27 AM9 C21 C21 C 0 1 Y N N 18.855 36.605 87.953 -6.687 2.956 1.166 C21 AM9 28 AM9 C22 C22 C 0 1 Y N N 18.055 37.775 87.767 -7.148 3.455 -0.039 C22 AM9 29 AM9 C23 C23 C 0 1 Y N N 18.608 38.762 86.916 -6.491 3.144 -1.216 C23 AM9 30 AM9 C24 C24 C 0 1 Y N N 19.884 38.671 86.241 -5.368 2.341 -1.191 C24 AM9 31 AM9 C25 C25 C 0 1 N N N 20.318 39.788 85.316 -4.649 2.009 -2.473 C25 AM9 32 AM9 C26 C26 C 0 1 N N N 20.981 35.179 87.517 -5.067 1.604 2.510 C26 AM9 33 AM9 N7 N7 N 0 1 N N N 31.578 38.364 84.228 6.969 0.257 0.404 N7 AM9 34 AM9 C27 C27 C 0 1 N N N 32.642 38.740 83.331 7.943 -0.724 -0.094 C27 AM9 35 AM9 C28 C28 C 0 1 N N N 33.995 38.460 83.971 9.355 -0.146 0.030 C28 AM9 36 AM9 N8 N8 N 0 1 N N N 33.945 39.015 85.334 9.437 1.107 -0.733 N8 AM9 37 AM9 C29 C29 C 0 1 N N N 33.020 38.275 86.206 8.463 2.088 -0.235 C29 AM9 38 AM9 C30 C30 C 0 1 N N N 31.662 38.748 85.695 7.051 1.510 -0.359 C30 AM9 39 AM9 C31 C31 C 0 1 N N N 35.238 38.638 85.884 10.800 1.655 -0.701 C31 AM9 40 AM9 H4 H4 H 0 1 N N N 22.556 34.860 82.223 0.095 2.258 0.461 H4 AM9 41 AM9 HN3 HN3 H 0 1 N N N 27.154 35.068 81.670 1.665 -2.779 0.282 HN3 AM9 42 AM9 H6 H6 H 0 1 N N N 27.184 38.117 83.720 3.879 -2.886 1.524 H6 AM9 43 AM9 H7 H7 H 0 1 N N N 29.277 39.271 84.540 6.161 -1.969 1.577 H7 AM9 44 AM9 H9 H9 H 0 1 N N N 31.645 36.003 82.654 4.894 1.325 -0.837 H9 AM9 45 AM9 H10 H10 H 0 1 N N N 29.506 34.863 81.836 2.614 0.402 -0.898 H10 AM9 46 AM9 H15 H15 H 0 1 N N N 27.200 37.999 85.804 -1.629 -3.816 -0.162 H15 AM9 47 AM9 H16 H16 H 0 1 N N N 28.498 39.445 87.441 -2.997 -5.839 -0.437 H16 AM9 48 AM9 H17 H17 H 0 1 N N N 27.217 40.684 89.242 -5.443 -5.670 -0.624 H17 AM9 49 AM9 H18 H18 H 0 1 N N N 24.716 40.487 89.434 -6.548 -3.480 -0.541 H18 AM9 50 AM9 H21 H21 H 0 1 N N N 18.481 35.817 88.590 -7.202 3.200 2.083 H21 AM9 51 AM9 H22 H22 H 0 1 N N N 17.094 37.898 88.244 -8.023 4.088 -0.061 H22 AM9 52 AM9 H23 H23 H 0 1 N N N 18.028 39.659 86.757 -6.854 3.535 -2.155 H23 AM9 53 AM9 H25 H25 H 0 1 N N N 20.423 40.720 85.890 -5.072 1.100 -2.901 H25 AM9 54 AM9 H25A H25A H 0 0 N N N 21.284 39.529 84.857 -4.766 2.832 -3.178 H25A AM9 55 AM9 H25B H25B H 0 0 N N N 19.562 39.926 84.529 -3.590 1.855 -2.266 H25B AM9 56 AM9 H26 H26 H 0 1 N N N 21.181 34.712 86.541 -4.349 2.301 2.941 H26 AM9 57 AM9 H26A H26A H 0 0 N N N 21.934 35.441 88.000 -5.905 1.476 3.194 H26A AM9 58 AM9 H26B H26B H 0 0 N N N 20.428 34.473 88.154 -4.583 0.641 2.344 H26B AM9 59 AM9 H27 H27 H 0 1 N N N 32.554 38.159 82.401 7.872 -1.639 0.495 H27 AM9 60 AM9 H27A H27A H 0 0 N N N 32.564 39.815 83.113 7.732 -0.947 -1.140 H27A AM9 61 AM9 H28 H28 H 0 1 N N N 34.185 37.377 84.005 9.576 0.052 1.079 H28 AM9 62 AM9 H28A H28A H 0 0 N N N 34.808 38.919 83.389 10.077 -0.861 -0.366 H28A AM9 63 AM9 H29 H29 H 0 1 N N N 33.142 37.186 86.110 8.674 2.312 0.811 H29 AM9 64 AM9 H29A H29A H 0 0 N N N 33.178 38.462 87.278 8.535 3.003 -0.824 H29A AM9 65 AM9 H30 H30 H 0 1 N N N 31.571 39.838 85.809 6.830 1.312 -1.408 H30 AM9 66 AM9 H30A H30A H 0 0 N N N 30.846 38.283 86.268 6.330 2.225 0.036 H30A AM9 67 AM9 H31 H31 H 0 1 N N N 35.970 38.543 85.069 11.491 0.934 -1.137 H31 AM9 68 AM9 H31A H31A H 0 0 N N N 35.575 39.411 86.591 10.832 2.582 -1.273 H31A AM9 69 AM9 H31B H31B H 0 0 N N N 35.146 37.675 86.408 11.087 1.855 0.331 H31B AM9 70 # 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 AM9 N2 C1 DOUB Y N 1 AM9 N3 C1 SING N N 2 AM9 C1 N1 SING Y N 3 AM9 N1 C2 DOUB Y N 4 AM9 C3 C2 SING Y N 5 AM9 C2 N4 SING Y N 6 AM9 C4 C3 DOUB Y N 7 AM9 C3 C12 SING N N 8 AM9 N2 C4 SING Y N 9 AM9 C4 H4 SING N N 10 AM9 N3 C5 SING N N 11 AM9 N3 HN3 SING N N 12 AM9 C10 C5 DOUB Y N 13 AM9 C5 C6 SING Y N 14 AM9 C6 C7 DOUB Y N 15 AM9 C6 H6 SING N N 16 AM9 C8 C7 SING Y N 17 AM9 C7 H7 SING N N 18 AM9 C9 C8 DOUB Y N 19 AM9 C8 N7 SING N N 20 AM9 C10 C9 SING Y N 21 AM9 C9 H9 SING N N 22 AM9 C10 H10 SING N N 23 AM9 N4 C11 SING Y N 24 AM9 N4 C13 SING Y N 25 AM9 N5 C11 SING N N 26 AM9 C11 N6 DOUB Y N 27 AM9 C12 N5 SING N N 28 AM9 N5 C19 SING N N 29 AM9 O1 C12 DOUB N N 30 AM9 C15 C13 SING Y N 31 AM9 C13 C14 DOUB Y N 32 AM9 N6 C14 SING Y N 33 AM9 C14 C18 SING Y N 34 AM9 C15 C16 DOUB Y N 35 AM9 C15 H15 SING N N 36 AM9 C16 C17 SING Y N 37 AM9 C16 H16 SING N N 38 AM9 C17 C18 DOUB Y N 39 AM9 C17 H17 SING N N 40 AM9 C18 H18 SING N N 41 AM9 C24 C19 DOUB Y N 42 AM9 C19 C20 SING Y N 43 AM9 C20 C26 SING N N 44 AM9 C20 C21 DOUB Y N 45 AM9 C22 C21 SING Y N 46 AM9 C21 H21 SING N N 47 AM9 C23 C22 DOUB Y N 48 AM9 C22 H22 SING N N 49 AM9 C24 C23 SING Y N 50 AM9 C23 H23 SING N N 51 AM9 C25 C24 SING N N 52 AM9 C25 H25 SING N N 53 AM9 C25 H25A SING N N 54 AM9 C25 H25B SING N N 55 AM9 C26 H26 SING N N 56 AM9 C26 H26A SING N N 57 AM9 C26 H26B SING N N 58 AM9 C27 N7 SING N N 59 AM9 N7 C30 SING N N 60 AM9 C27 C28 SING N N 61 AM9 C27 H27 SING N N 62 AM9 C27 H27A SING N N 63 AM9 C28 N8 SING N N 64 AM9 C28 H28 SING N N 65 AM9 C28 H28A SING N N 66 AM9 N8 C31 SING N N 67 AM9 N8 C29 SING N N 68 AM9 C30 C29 SING N N 69 AM9 C29 H29 SING N N 70 AM9 C29 H29A SING N N 71 AM9 C30 H30 SING N N 72 AM9 C30 H30A SING N N 73 AM9 C31 H31 SING N N 74 AM9 C31 H31A SING N N 75 AM9 C31 H31B SING N N 76 # 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 AM9 SMILES ACDLabs 10.04 "O=C3N(c1c(cccc1C)C)c6nc7ccccc7n6c2nc(ncc23)Nc4ccc(cc4)N5CCN(C)CC5" AM9 SMILES_CANONICAL CACTVS 3.341 "CN1CCN(CC1)c2ccc(Nc3ncc4C(=O)N(c5nc6ccccc6n5c4n3)c7c(C)cccc7C)cc2" AM9 SMILES CACTVS 3.341 "CN1CCN(CC1)c2ccc(Nc3ncc4C(=O)N(c5nc6ccccc6n5c4n3)c7c(C)cccc7C)cc2" AM9 SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "Cc1cccc(c1N2c3nc4ccccc4n3-c5c(cnc(n5)Nc6ccc(cc6)N7CCN(CC7)C)C2=O)C" AM9 SMILES "OpenEye OEToolkits" 1.5.0 "Cc1cccc(c1N2c3nc4ccccc4n3-c5c(cnc(n5)Nc6ccc(cc6)N7CCN(CC7)C)C2=O)C" AM9 InChI InChI 1.03 "InChI=1S/C31H30N8O/c1-20-7-6-8-21(2)27(20)39-29(40)24-19-32-30(35-28(24)38-26-10-5-4-9-25(26)34-31(38)39)33-22-11-13-23(14-12-22)37-17-15-36(3)16-18-37/h4-14,19H,15-18H2,1-3H3,(H,32,33,35)" AM9 InChIKey InChI 1.03 BHJJWVDKNXABFS-UHFFFAOYSA-N # 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 AM9 "SYSTEMATIC NAME" ACDLabs 10.04 "6-(2,6-dimethylphenyl)-2-{[4-(4-methylpiperazin-1-yl)phenyl]amino}pyrimido[5',4':5,6]pyrimido[1,2-a]benzimidazol-5(6H)-one" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site AM9 "Create component" 2008-01-21 RCSB AM9 "Modify aromatic_flag" 2011-06-04 RCSB AM9 "Modify descriptor" 2011-06-04 RCSB #