data_XBD # _chem_comp.id XBD _chem_comp.name "2-{[2-methoxy-4-(4-methylpiperazin-1-yl)phenyl]amino}-11-methyl-5-(2,2,2-trifluoroethyl)-5,11-dihydro-6H-pyrimido[4,5-b][1,4]benzodiazepin-6-one" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C26 H28 F3 N7 O2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2020-12-08 _chem_comp.pdbx_modified_date 2021-09-17 _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 527.541 _chem_comp.one_letter_code ? _chem_comp.three_letter_code XBD _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 7KXW _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 XBD N1 N1 N 0 1 Y N N -11.607 -6.804 11.286 1.389 -1.496 0.718 N1 XBD 1 XBD C7 C1 C 0 1 Y N N -11.599 -4.092 12.550 -2.385 -0.225 -0.376 C7 XBD 2 XBD C8 C2 C 0 1 Y N N -12.049 -3.216 13.517 -3.638 0.292 -0.645 C8 XBD 3 XBD N2 N2 N 0 1 N N N -9.761 -5.437 11.605 -0.934 -1.623 0.958 N2 XBD 4 XBD C9 C3 C 0 1 Y N N -11.198 -2.753 14.519 -4.722 -0.063 0.148 C9 XBD 5 XBD O1 O1 O 0 1 N N N -8.120 -4.521 13.470 -3.121 -2.315 2.523 O1 XBD 6 XBD C1 C4 C 0 1 N N N -11.350 -10.752 8.669 3.477 2.609 -0.176 C1 XBD 7 XBD C5 C5 C 0 1 Y N N -10.335 -6.501 10.972 0.200 -0.933 0.558 C5 XBD 8 XBD C6 C6 C 0 1 Y N N -10.265 -4.536 12.553 -2.207 -1.099 0.685 C6 XBD 9 XBD N3 N3 N 0 1 N N N -11.679 -1.943 15.537 -5.990 0.461 -0.126 N3 XBD 10 XBD C4 C7 C 0 1 Y N N -12.197 -7.755 10.552 2.495 -0.859 0.348 C4 XBD 11 XBD C3 C8 C 0 1 Y N N -11.505 -8.427 9.506 2.393 0.430 -0.177 C3 XBD 12 XBD C2 C9 C 0 1 N N N -11.743 -11.673 9.788 4.021 2.826 1.238 C2 XBD 13 XBD N4 N4 N 0 1 N N N -12.657 -0.093 17.471 -8.315 0.898 -1.709 N4 XBD 14 XBD N N5 N 0 1 N N N -12.096 -9.482 8.764 3.523 1.181 -0.502 N XBD 15 XBD C C10 C 0 1 N N N -13.311 -9.430 8.126 4.633 0.737 -1.075 C XBD 16 XBD O O2 O 0 1 N N N -13.661 -10.292 7.347 5.507 1.553 -1.293 O XBD 17 XBD C10 C11 C 0 1 N N N -13.066 -1.466 15.477 -6.971 -0.613 -0.330 C10 XBD 18 XBD C11 C12 C 0 1 N N N -13.561 -1.063 16.859 -8.357 -0.000 -0.548 C11 XBD 19 XBD C12 C13 C 0 1 N N N -13.176 0.358 18.766 -9.647 1.449 -1.997 C12 XBD 20 XBD C13 C14 C 0 1 N N N -11.337 -0.698 17.624 -7.334 1.973 -1.506 C13 XBD 21 XBD C14 C15 C 0 1 N N N -10.759 -1.072 16.272 -5.948 1.360 -1.288 C14 XBD 22 XBD C15 C16 C 0 1 Y N N -9.857 -3.169 14.512 -4.548 -0.939 1.211 C15 XBD 23 XBD C16 C17 C 0 1 Y N N -9.424 -4.040 13.554 -3.293 -1.457 1.482 C16 XBD 24 XBD C17 C18 C 0 1 N N N -7.219 -4.121 14.502 -4.278 -2.637 3.296 C17 XBD 25 XBD C18 C19 C 0 1 Y N N -10.197 -8.013 9.287 1.128 0.974 -0.347 C18 XBD 26 XBD C19 C20 C 0 1 N N N -14.005 -7.680 12.130 4.220 -1.889 1.798 C19 XBD 27 XBD C20 C21 C 0 1 Y N N -14.354 -7.641 9.661 4.484 -1.719 -0.663 C20 XBD 28 XBD C21 C22 C 0 1 Y N N -14.239 -8.289 8.425 4.901 -0.651 -1.469 C21 XBD 29 XBD C22 C23 C 0 1 Y N N -15.045 -7.884 7.360 5.592 -0.916 -2.655 C22 XBD 30 XBD C23 C24 C 0 1 Y N N -15.952 -6.855 7.533 5.884 -2.215 -3.008 C23 XBD 31 XBD C24 C25 C 0 1 Y N N -16.067 -6.222 8.752 5.497 -3.266 -2.192 C24 XBD 32 XBD C25 C26 C 0 1 Y N N -15.271 -6.610 9.821 4.796 -3.022 -1.028 C25 XBD 33 XBD F F1 F 0 1 N N N -13.062 -11.641 10.021 5.343 2.374 1.304 F XBD 34 XBD F1 F2 F 0 1 N N N -11.430 -12.950 9.524 3.977 4.190 1.549 F1 XBD 35 XBD F2 F3 F 0 1 N N N -11.122 -11.344 10.937 3.238 2.114 2.153 F2 XBD 36 XBD N5 N6 N 0 1 Y N N -9.594 -7.060 10.004 0.067 0.273 0.027 N5 XBD 37 XBD N6 N7 N 0 1 N N N -13.553 -8.025 10.783 3.726 -1.484 0.479 N6 XBD 38 XBD H1 H1 H 0 1 N N N -12.277 -4.439 11.785 -1.544 0.049 -0.996 H1 XBD 39 XBD H2 H2 H 0 1 N N N -13.077 -2.884 13.497 -3.775 0.972 -1.472 H2 XBD 40 XBD H3 H3 H 0 1 N N N -8.810 -5.270 11.346 -0.847 -2.469 1.426 H3 XBD 41 XBD H4 H4 H 0 1 N N N -11.576 -11.234 7.706 2.447 2.961 -0.227 H4 XBD 42 XBD H5 H5 H 0 1 N N N -10.272 -10.545 8.732 4.087 3.163 -0.889 H5 XBD 43 XBD H7 H7 H 0 1 N N N -13.119 -0.595 14.807 -6.692 -1.200 -1.205 H7 XBD 44 XBD H8 H8 H 0 1 N N N -13.707 -2.270 15.085 -6.993 -1.258 0.549 H8 XBD 45 XBD H9 H9 H 0 1 N N N -14.562 -0.616 16.767 -8.648 0.564 0.338 H9 XBD 46 XBD H10 H10 H 0 1 N N N -13.616 -1.957 17.497 -9.082 -0.794 -0.728 H10 XBD 47 XBD H11 H11 H 0 1 N N N -12.480 1.087 19.207 -9.601 2.057 -2.901 H11 XBD 48 XBD H12 H12 H 0 1 N N N -14.159 0.831 18.622 -10.354 0.632 -2.144 H12 XBD 49 XBD H13 H13 H 0 1 N N N -13.279 -0.505 19.440 -9.973 2.066 -1.160 H13 XBD 50 XBD H14 H14 H 0 1 N N N -11.424 -1.603 18.242 -7.312 2.618 -2.385 H14 XBD 51 XBD H15 H15 H 0 1 N N N -10.666 0.020 18.118 -7.613 2.560 -0.631 H15 XBD 52 XBD H16 H16 H 0 1 N N N -9.805 -1.599 16.421 -5.224 2.154 -1.108 H16 XBD 53 XBD H17 H17 H 0 1 N N N -10.585 -0.156 15.688 -5.657 0.796 -2.174 H17 XBD 54 XBD H18 H18 H 0 1 N N N -9.171 -2.802 15.261 -5.391 -1.215 1.827 H18 XBD 55 XBD H19 H19 H 0 1 N N N -6.230 -4.566 14.319 -5.026 -3.103 2.655 H19 XBD 56 XBD H20 H20 H 0 1 N N N -7.132 -3.024 14.508 -4.002 -3.329 4.093 H20 XBD 57 XBD H21 H21 H 0 1 N N N -7.601 -4.464 15.475 -4.689 -1.727 3.732 H21 XBD 58 XBD H22 H22 H 0 1 N N N -9.637 -8.487 8.494 1.009 1.957 -0.779 H22 XBD 59 XBD H23 H23 H 0 1 N N N -13.276 -8.048 12.867 3.487 -1.620 2.559 H23 XBD 60 XBD H24 H24 H 0 1 N N N -14.095 -6.587 12.218 4.378 -2.968 1.811 H24 XBD 61 XBD H25 H25 H 0 1 N N N -14.984 -8.145 12.319 5.161 -1.382 2.005 H25 XBD 62 XBD H26 H26 H 0 1 N N N -14.960 -8.374 6.401 5.896 -0.101 -3.296 H26 XBD 63 XBD H27 H27 H 0 1 N N N -16.575 -6.545 6.707 6.418 -2.416 -3.925 H27 XBD 64 XBD H28 H28 H 0 1 N N N -16.780 -5.420 8.876 5.744 -4.281 -2.468 H28 XBD 65 XBD H29 H29 H 0 1 N N N -15.364 -6.112 10.775 4.489 -3.846 -0.401 H29 XBD 66 # # 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 XBD O C DOUB N N 1 XBD C22 C23 DOUB Y N 2 XBD C22 C21 SING Y N 3 XBD C23 C24 SING Y N 4 XBD C C21 SING N N 5 XBD C N SING N N 6 XBD C21 C20 DOUB Y N 7 XBD C1 N SING N N 8 XBD C1 C2 SING N N 9 XBD C24 C25 DOUB Y N 10 XBD N C3 SING N N 11 XBD C18 C3 DOUB Y N 12 XBD C18 N5 SING Y N 13 XBD C3 C4 SING Y N 14 XBD F1 C2 SING N N 15 XBD C20 C25 SING Y N 16 XBD C20 N6 SING N N 17 XBD C2 F SING N N 18 XBD C2 F2 SING N N 19 XBD N5 C5 DOUB Y N 20 XBD C4 N6 SING N N 21 XBD C4 N1 DOUB Y N 22 XBD N6 C19 SING N N 23 XBD C5 N1 SING Y N 24 XBD C5 N2 SING N N 25 XBD N2 C6 SING N N 26 XBD C7 C6 DOUB Y N 27 XBD C7 C8 SING Y N 28 XBD C6 C16 SING Y N 29 XBD O1 C16 SING N N 30 XBD O1 C17 SING N N 31 XBD C8 C9 DOUB Y N 32 XBD C16 C15 DOUB Y N 33 XBD C15 C9 SING Y N 34 XBD C9 N3 SING N N 35 XBD C10 N3 SING N N 36 XBD C10 C11 SING N N 37 XBD N3 C14 SING N N 38 XBD C14 C13 SING N N 39 XBD C11 N4 SING N N 40 XBD N4 C13 SING N N 41 XBD N4 C12 SING N N 42 XBD C7 H1 SING N N 43 XBD C8 H2 SING N N 44 XBD N2 H3 SING N N 45 XBD C1 H4 SING N N 46 XBD C1 H5 SING N N 47 XBD C10 H7 SING N N 48 XBD C10 H8 SING N N 49 XBD C11 H9 SING N N 50 XBD C11 H10 SING N N 51 XBD C12 H11 SING N N 52 XBD C12 H12 SING N N 53 XBD C12 H13 SING N N 54 XBD C13 H14 SING N N 55 XBD C13 H15 SING N N 56 XBD C14 H16 SING N N 57 XBD C14 H17 SING N N 58 XBD C15 H18 SING N N 59 XBD C17 H19 SING N N 60 XBD C17 H20 SING N N 61 XBD C17 H21 SING N N 62 XBD C18 H22 SING N N 63 XBD C19 H23 SING N N 64 XBD C19 H24 SING N N 65 XBD C19 H25 SING N N 66 XBD C22 H26 SING N N 67 XBD C23 H27 SING N N 68 XBD C24 H28 SING N N 69 XBD C25 H29 SING N N 70 # # 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 XBD SMILES ACDLabs 12.01 "n3c(Nc2ccc(N1CCN(C)CC1)cc2OC)ncc4c3N(C)c5ccccc5C(N4CC(F)(F)F)=O" XBD InChI InChI 1.03 "InChI=1S/C26H28F3N7O2/c1-33-10-12-35(13-11-33)17-8-9-19(22(14-17)38-3)31-25-30-15-21-23(32-25)34(2)20-7-5-4-6-18(20)24(37)36(21)16-26(27,28)29/h4-9,14-15H,10-13,16H2,1-3H3,(H,30,31,32)" XBD InChIKey InChI 1.03 OQFCHSFVWSLDAO-UHFFFAOYSA-N XBD SMILES_CANONICAL CACTVS 3.385 "COc1cc(ccc1Nc2ncc3N(CC(F)(F)F)C(=O)c4ccccc4N(C)c3n2)N5CCN(C)CC5" XBD SMILES CACTVS 3.385 "COc1cc(ccc1Nc2ncc3N(CC(F)(F)F)C(=O)c4ccccc4N(C)c3n2)N5CCN(C)CC5" XBD SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CN1CCN(CC1)c2ccc(c(c2)OC)Nc3ncc4c(n3)N(c5ccccc5C(=O)N4CC(F)(F)F)C" XBD SMILES "OpenEye OEToolkits" 2.0.7 "CN1CCN(CC1)c2ccc(c(c2)OC)Nc3ncc4c(n3)N(c5ccccc5C(=O)N4CC(F)(F)F)C" # # 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 XBD "SYSTEMATIC NAME" ACDLabs 12.01 "2-{[2-methoxy-4-(4-methylpiperazin-1-yl)phenyl]amino}-11-methyl-5-(2,2,2-trifluoroethyl)-5,11-dihydro-6H-pyrimido[4,5-b][1,4]benzodiazepin-6-one" XBD "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "2-[[2-methoxy-4-(4-methylpiperazin-1-yl)phenyl]amino]-11-methyl-5-[2,2,2-tris(fluoranyl)ethyl]pyrimido[4,5-b][1,4]benzodiazepin-6-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 XBD "Create component" 2020-12-08 RCSB XBD "Initial release" 2021-09-22 RCSB ##