data_Y1U # _chem_comp.id Y1U _chem_comp.name "3-(2,6-dichlorophenyl)-7-{[(2R)-2-hydroxy-2-phenylethyl]amino}-1-methyl-3,4-dihydropyrimido[4,5-d]pyrimidin-2(1H)-one" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C21 H19 Cl2 N5 O2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-06-09 _chem_comp.pdbx_modified_date 2024-12-13 _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 444.314 _chem_comp.one_letter_code ? _chem_comp.three_letter_code Y1U _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 7G5K _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB _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_backbone_atom_flag _chem_comp_atom.pdbx_n_terminal_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 Y1U C10 C1 C 0 1 Y N N N N N -13.958 15.320 51.035 6.427 1.398 -0.689 C10 Y1U 1 Y1U C15 C2 C 0 1 Y N N N N N -16.213 9.235 48.363 -0.504 0.399 -1.307 C15 Y1U 2 Y1U C16 C3 C 0 1 N N N N N N -11.303 9.685 48.187 1.247 -0.776 3.051 C16 Y1U 3 Y1U C17 C4 C 0 1 Y N N N N N -13.964 15.210 52.441 7.076 0.283 -1.186 C17 Y1U 4 Y1U C20 C5 C 0 1 Y N N N N N -14.924 7.799 47.080 -1.880 -0.062 0.486 C20 Y1U 5 Y1U C22 C6 C 0 1 N N N N N N -13.546 6.308 45.687 -4.317 0.061 0.121 C22 Y1U 6 Y1U C23 C7 C 0 1 N N R N N N -13.961 5.257 44.628 -5.607 -0.137 0.919 C23 Y1U 7 Y1U C24 C8 C 0 1 Y N N N N N -12.715 4.795 43.937 -6.794 0.114 0.025 C24 Y1U 8 Y1U C26 C9 C 0 1 Y N N N N N -12.099 5.642 43.013 -7.390 1.361 0.001 C26 Y1U 9 Y1U C27 C10 C 0 1 Y N N N N N -10.493 3.843 42.516 -8.972 0.573 -1.616 C27 Y1U 10 Y1U C28 C11 C 0 1 Y N N N N N -11.114 3.000 43.469 -8.372 -0.672 -1.595 C28 Y1U 11 Y1U N1 N1 N 0 1 N N N N N N -13.883 11.701 50.029 3.077 0.022 -0.038 N1 Y1U 12 Y1U C2 C12 C 0 1 Y N N N N N -13.907 12.875 50.847 4.420 0.110 -0.424 C2 Y1U 13 Y1U C3 C13 C 0 1 N N N N N N -15.219 11.081 49.728 2.001 0.292 -1.009 C3 Y1U 14 Y1U C4 C14 C 0 1 N N N N N N -12.635 11.275 49.561 2.750 -0.308 1.225 C4 Y1U 15 Y1U C5 C15 C 0 1 Y N N N N N -13.929 14.136 50.261 5.101 1.315 -0.307 C5 Y1U 16 Y1U C6 C16 C 0 1 Y N N N N N -13.914 12.786 52.223 5.072 -1.006 -0.934 C6 Y1U 17 Y1U C7 C17 C 0 1 Y N N N N N -15.077 9.948 48.776 0.585 0.173 -0.501 C7 Y1U 18 Y1U N8 N2 N 0 1 N N N N N N -12.620 10.140 48.677 1.485 -0.409 1.653 N8 Y1U 19 Y1U O9 O1 O 0 1 N N N N N N -11.569 11.845 49.875 3.647 -0.527 2.015 O9 Y1U 20 Y1U CL11 CL1 CL 0 0 N N N N N N -13.938 14.209 48.531 4.287 2.716 0.317 CL11 Y1U 21 Y1U C12 C18 C 0 1 Y N N N N N -13.944 13.934 53.049 6.400 -0.917 -1.308 C12 Y1U 22 Y1U CL13 CL2 CL 0 0 N N N N N N -13.897 11.218 52.927 4.223 -2.512 -1.093 CL13 Y1U 23 Y1U C14 C19 C 0 1 Y N N N N N -13.819 9.501 48.275 0.391 -0.180 0.835 C14 Y1U 24 Y1U N18 N3 N 0 1 Y N N N N N -13.711 8.426 47.411 -0.851 -0.287 1.291 N18 Y1U 25 Y1U N19 N4 N 0 1 Y N N N N N -16.209 8.145 47.527 -1.719 0.275 -0.785 N19 Y1U 26 Y1U N21 N5 N 0 1 N N N N N N -14.819 6.721 46.209 -3.163 -0.182 0.990 N21 Y1U 27 Y1U O25 O2 O 0 1 N N N N N N -14.669 4.205 45.244 -5.659 -1.476 1.416 O25 Y1U 28 Y1U C29 C20 C 0 1 Y N N N N N -10.984 5.154 42.295 -8.479 1.590 -0.819 C29 Y1U 29 Y1U C30 C21 C 0 1 Y N N N N N -12.240 3.497 44.179 -7.283 -0.902 -0.775 C30 Y1U 30 Y1U H33 H1 H 0 1 N N N N N N -13.975 16.289 50.558 6.958 2.334 -0.594 H33 Y1U 31 Y1U H35 H2 H 0 1 N N N N N N -17.170 9.571 48.733 -0.375 0.678 -2.343 H35 Y1U 32 Y1U H38 H3 H 0 1 N N N N N N -11.437 8.816 47.526 2.202 -0.920 3.556 H38 Y1U 33 Y1U H36 H4 H 0 1 N N N N N N -10.818 10.499 47.629 0.690 0.020 3.546 H36 Y1U 34 Y1U H37 H5 H 0 1 N N N N N N -10.672 9.401 49.042 0.672 -1.701 3.091 H37 Y1U 35 Y1U H39 H6 H 0 1 N N N N N N -13.984 16.100 53.053 8.113 0.349 -1.480 H39 Y1U 36 Y1U H42 H7 H 0 1 N N N N N N -13.010 7.151 45.226 -4.296 -0.638 -0.715 H42 Y1U 37 Y1U H41 H8 H 0 1 N N N N N N -12.918 5.860 46.471 -4.277 1.083 -0.258 H41 Y1U 38 Y1U H43 H9 H 0 1 N N N N N N -14.606 5.757 43.890 -5.628 0.562 1.755 H43 Y1U 39 Y1U H45 H10 H 0 1 N N N N N N -12.466 6.645 42.851 -7.006 2.155 0.623 H45 Y1U 40 Y1U H46 H11 H 0 1 N N N N N N -9.642 3.486 41.955 -9.822 0.753 -2.256 H46 Y1U 41 Y1U H47 H12 H 0 1 N N N N N N -10.741 2.003 43.652 -8.757 -1.467 -2.218 H47 Y1U 42 Y1U H31 H13 H 0 1 N N N N N N -15.663 10.711 50.664 2.138 1.303 -1.392 H31 Y1U 43 Y1U H32 H14 H 0 1 N N N N N N -15.878 11.843 49.285 2.119 -0.400 -1.844 H32 Y1U 44 Y1U H34 H15 H 0 1 N N N N N N -13.951 13.837 54.125 6.907 -1.784 -1.705 H34 Y1U 45 Y1U H40 H16 H 0 1 N N N N N N -15.198 5.930 46.689 -3.298 -0.428 1.919 H40 Y1U 46 Y1U H44 H17 H 0 1 N N N N N N -14.920 3.565 44.588 -5.644 -2.152 0.725 H44 Y1U 47 Y1U H48 H18 H 0 1 N N N N N N -10.499 5.789 41.568 -8.946 2.564 -0.838 H48 Y1U 48 Y1U H49 H19 H 0 1 N N N N N N -12.733 2.872 44.909 -6.815 -1.875 -0.760 H49 Y1U 49 # 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 Y1U N1 C2 SING N N 1 Y1U N1 C3 SING N N 2 Y1U N1 C4 SING N N 3 Y1U C2 C5 DOUB Y N 4 Y1U C2 C6 SING Y N 5 Y1U C3 C7 SING N N 6 Y1U C4 N8 SING N N 7 Y1U C4 O9 DOUB N N 8 Y1U C5 C10 SING Y N 9 Y1U C5 CL11 SING N N 10 Y1U C6 C12 DOUB Y N 11 Y1U C6 CL13 SING N N 12 Y1U C7 C14 DOUB Y N 13 Y1U C7 C15 SING Y N 14 Y1U N8 C16 SING N N 15 Y1U N8 C14 SING N N 16 Y1U C10 C17 DOUB Y N 17 Y1U C12 C17 SING Y N 18 Y1U C14 N18 SING Y N 19 Y1U C15 N19 DOUB Y N 20 Y1U N18 C20 DOUB Y N 21 Y1U N19 C20 SING Y N 22 Y1U C20 N21 SING N N 23 Y1U N21 C22 SING N N 24 Y1U C22 C23 SING N N 25 Y1U C23 C24 SING N N 26 Y1U C23 O25 SING N N 27 Y1U C24 C26 DOUB Y N 28 Y1U C24 C30 SING Y N 29 Y1U C26 C29 SING Y N 30 Y1U C27 C28 SING Y N 31 Y1U C27 C29 DOUB Y N 32 Y1U C28 C30 DOUB Y N 33 Y1U C10 H33 SING N N 34 Y1U C15 H35 SING N N 35 Y1U C16 H38 SING N N 36 Y1U C16 H36 SING N N 37 Y1U C16 H37 SING N N 38 Y1U C17 H39 SING N N 39 Y1U C22 H42 SING N N 40 Y1U C22 H41 SING N N 41 Y1U C23 H43 SING N N 42 Y1U C26 H45 SING N N 43 Y1U C27 H46 SING N N 44 Y1U C28 H47 SING N N 45 Y1U C3 H31 SING N N 46 Y1U C3 H32 SING N N 47 Y1U C12 H34 SING N N 48 Y1U N21 H40 SING N N 49 Y1U O25 H44 SING N N 50 Y1U C29 H48 SING N N 51 Y1U C30 H49 SING N N 52 # 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 Y1U SMILES ACDLabs 12.01 "Clc1cccc(Cl)c1N1Cc2cnc(nc2N(C)C1=O)NCC(O)c1ccccc1" Y1U InChI InChI 1.06 "InChI=1S/C21H19Cl2N5O2/c1-27-19-14(12-28(21(27)30)18-15(22)8-5-9-16(18)23)10-24-20(26-19)25-11-17(29)13-6-3-2-4-7-13/h2-10,17,29H,11-12H2,1H3,(H,24,25,26)" Y1U InChIKey InChI 1.06 YYLSSOPTVUREJF-UHFFFAOYSA-N Y1U SMILES_CANONICAL CACTVS 3.385 "CN1C(=O)N(Cc2cnc(NC[C@H](O)c3ccccc3)nc12)c4c(Cl)cccc4Cl" Y1U SMILES CACTVS 3.385 "CN1C(=O)N(Cc2cnc(NC[CH](O)c3ccccc3)nc12)c4c(Cl)cccc4Cl" Y1U SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CN1c2c(cnc(n2)NC[C@@H](c3ccccc3)O)CN(C1=O)c4c(cccc4Cl)Cl" Y1U SMILES "OpenEye OEToolkits" 2.0.7 "CN1c2c(cnc(n2)NCC(c3ccccc3)O)CN(C1=O)c4c(cccc4Cl)Cl" # 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 Y1U "SYSTEMATIC NAME" ACDLabs 12.01 "3-(2,6-dichlorophenyl)-7-{[(2R)-2-hydroxy-2-phenylethyl]amino}-1-methyl-3,4-dihydropyrimido[4,5-d]pyrimidin-2(1H)-one" Y1U "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "3-[2,6-bis(chloranyl)phenyl]-1-methyl-7-[[(2~{R})-2-oxidanyl-2-phenyl-ethyl]amino]-4~{H}-pyrimido[4,5-d]pyrimidin-2-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 Y1U "Create component" 2023-06-09 RCSB Y1U "Initial release" 2024-12-18 RCSB #