data_5N87 # _model_server_result.job_id MVwtwfaRGpzA_v5oMUe8YQ _model_server_result.datetime_utc '2025-01-10 20:12:15' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 5n87 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":901}' # _entry.id 5N87 # _exptl.entry_id 5N87 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 565.708 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description ~{N}-(2,6-diethylphenyl)-2-[[2-methoxy-4-(4-methylpiperazin-1-yl)phenyl]amino]-5,6-dihydropyrimido[4,5-e]indolizine-7-carboxamide _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 5N87 _cell.length_a 71.09 _cell.length_b 112.23 _cell.length_c 113.98 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5N87 _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order covale ? covale1 A C GLY 190 A GLY 685 1_555 A N TPO 191 A TPO 686 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale2 A C TPO 191 A TPO 686 1_555 A N VAL 192 A VAL 687 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? metalc ? metalc1 A OE1 GLU 76 A GLU 571 1_555 D NA NA . A NA 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.719 ? metalc ? metalc2 A OD2 ASP 169 A ASP 664 1_555 D NA NA . A NA 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.574 ? metalc ? metalc3 D NA NA . A NA 903 1_555 E O HOH . A HOH 1036 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.597 ? metalc ? metalc4 D NA NA . A NA 903 1_555 E O HOH . A HOH 1048 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.824 ? metalc ? metalc5 D NA NA . A NA 903 1_555 E O HOH . A HOH 1066 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.124 ? # _chem_comp.formula 'C33 H39 N7 O2' _chem_comp.formula_weight 565.708 _chem_comp.id N66 _chem_comp.mon_nstd_flag . _chem_comp.name ~{N}-(2,6-diethylphenyl)-2-[[2-methoxy-4-(4-methylpiperazin-1-yl)phenyl]amino]-5,6-dihydropyrimido[4,5-e]indolizine-7-carboxamide _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag C6 N1 N66 doub 237 n y C6 C5 N66 sing 238 n y CAG C5 N66 sing 239 n n CAG CAH N66 sing 240 n n N1 C2 N66 sing 241 n y C5 C4 N66 doub 242 n y CAH CAI N66 sing 243 n n C2 NAR N66 sing 244 n n C2 N3 N66 doub 245 n y C4 N3 N66 sing 246 n y C4 NAJ N66 sing 247 n n OAO CAN N66 doub 248 n n CAI NAJ N66 sing 249 n y CAI CAL N66 doub 250 n y NAR CAS N66 sing 251 n n NAJ CAK N66 sing 252 n y CAN CAL N66 sing 253 n n CAN NAP N66 sing 254 n n CAL CAM N66 sing 255 n y OBH CBI N66 sing 256 n n OBH CAX N66 sing 257 n n CAS CAX N66 doub 258 n y CAS CAT N66 sing 259 n y CAK CAM N66 doub 260 n y CBD CAY N66 sing 261 n n CBD CBE N66 sing 262 n n CAY CAZ N66 doub 263 n y CAY CAQ N66 sing 264 n y CAZ CBA N66 sing 265 n y CAX CAW N66 sing 266 n y CAQ NAP N66 sing 267 n n CAQ CBC N66 doub 268 n y CBA CBB N66 doub 269 n y CBC CBB N66 sing 270 n y CBC CBF N66 sing 271 n n CBF CBG N66 sing 272 n n CAT CAU N66 doub 273 n y CAW CAV N66 doub 274 n y CAU CAV N66 sing 275 n y CAV NBJ N66 sing 276 n n NBJ CBK N66 sing 277 n n NBJ CBO N66 sing 278 n n CBK CBL N66 sing 279 n n CBO CBN N66 sing 280 n n CBL NBM N66 sing 281 n n CBN NBM N66 sing 282 n n NBM CBP N66 sing 283 n n CBK H1 N66 sing 284 n n CBK H2 N66 sing 285 n n CBL H3 N66 sing 286 n n CBL H4 N66 sing 287 n n CBP H6 N66 sing 288 n n CBP H7 N66 sing 289 n n CBP H8 N66 sing 290 n n CBN H9 N66 sing 291 n n CBN H10 N66 sing 292 n n CBO H11 N66 sing 293 n n CBO H12 N66 sing 294 n n CAW H13 N66 sing 295 n n CBI H14 N66 sing 296 n n CBI H15 N66 sing 297 n n CBI H16 N66 sing 298 n n CAU H17 N66 sing 299 n n CAT H18 N66 sing 300 n n NAR H19 N66 sing 301 n n C6 H20 N66 sing 302 n n CAG H21 N66 sing 303 n n CAG H22 N66 sing 304 n n CAH H23 N66 sing 305 n n CAH H24 N66 sing 306 n n CAK H25 N66 sing 307 n n CAM H26 N66 sing 308 n n NAP H27 N66 sing 309 n n CBD H28 N66 sing 310 n n CBD H29 N66 sing 311 n n CBE H30 N66 sing 312 n n CBE H31 N66 sing 313 n n CBE H32 N66 sing 314 n n CAZ H33 N66 sing 315 n n CBA H34 N66 sing 316 n n CBB H35 N66 sing 317 n n CBF H36 N66 sing 318 n n CBF H37 N66 sing 319 n n CBG H38 N66 sing 320 n n CBG H39 N66 sing 321 n n CBG H40 N66 sing 322 n n # _atom_sites.entry_id 5N87 _atom_sites.fract_transf_matrix[1][1] 0.014067 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00891 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.008773 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 N66 A 1 901 795 N66 N66 . C 3 PGF A 1 902 797 PGF 7XQ . D 4 NA A 1 903 798 NA NA . E 5 HOH A 1 1001 118 HOH HOH . E 5 HOH A 2 1002 40 HOH HOH . E 5 HOH A 3 1003 31 HOH HOH . E 5 HOH A 4 1004 70 HOH HOH . E 5 HOH A 5 1005 82 HOH HOH . E 5 HOH A 6 1006 91 HOH HOH . E 5 HOH A 7 1007 17 HOH HOH . E 5 HOH A 8 1008 88 HOH HOH . E 5 HOH A 9 1009 12 HOH HOH . E 5 HOH A 10 1010 16 HOH HOH . E 5 HOH A 11 1011 71 HOH HOH . E 5 HOH A 12 1012 51 HOH HOH . E 5 HOH A 13 1013 87 HOH HOH . E 5 HOH A 14 1014 2 HOH HOH . E 5 HOH A 15 1015 113 HOH HOH . E 5 HOH A 16 1016 45 HOH HOH . E 5 HOH A 17 1017 27 HOH HOH . E 5 HOH A 18 1018 5 HOH HOH . E 5 HOH A 19 1019 55 HOH HOH . E 5 HOH A 20 1020 43 HOH HOH . E 5 HOH A 21 1021 13 HOH HOH . E 5 HOH A 22 1022 100 HOH HOH . E 5 HOH A 23 1023 14 HOH HOH . E 5 HOH A 24 1024 117 HOH HOH . E 5 HOH A 25 1025 104 HOH HOH . E 5 HOH A 26 1026 39 HOH HOH . E 5 HOH A 27 1027 63 HOH HOH . E 5 HOH A 28 1028 21 HOH HOH . E 5 HOH A 29 1029 3 HOH HOH . E 5 HOH A 30 1030 41 HOH HOH . E 5 HOH A 31 1031 26 HOH HOH . E 5 HOH A 32 1032 61 HOH HOH . E 5 HOH A 33 1033 9 HOH HOH . E 5 HOH A 34 1034 54 HOH HOH . E 5 HOH A 35 1035 10 HOH HOH . E 5 HOH A 36 1036 36 HOH HOH . E 5 HOH A 37 1037 11 HOH HOH . E 5 HOH A 38 1038 83 HOH HOH . E 5 HOH A 39 1039 120 HOH HOH . E 5 HOH A 40 1040 23 HOH HOH . E 5 HOH A 41 1041 95 HOH HOH . E 5 HOH A 42 1042 114 HOH HOH . E 5 HOH A 43 1043 1 HOH HOH . E 5 HOH A 44 1044 37 HOH HOH . E 5 HOH A 45 1045 110 HOH HOH . E 5 HOH A 46 1046 30 HOH HOH . E 5 HOH A 47 1047 103 HOH HOH . E 5 HOH A 48 1048 92 HOH HOH . E 5 HOH A 49 1049 60 HOH HOH . E 5 HOH A 50 1050 115 HOH HOH . E 5 HOH A 51 1051 73 HOH HOH . E 5 HOH A 52 1052 90 HOH HOH . E 5 HOH A 53 1053 86 HOH HOH . E 5 HOH A 54 1054 48 HOH HOH . E 5 HOH A 55 1055 19 HOH HOH . E 5 HOH A 56 1056 67 HOH HOH . E 5 HOH A 57 1057 24 HOH HOH . E 5 HOH A 58 1058 6 HOH HOH . E 5 HOH A 59 1059 109 HOH HOH . E 5 HOH A 60 1060 47 HOH HOH . E 5 HOH A 61 1061 4 HOH HOH . E 5 HOH A 62 1062 22 HOH HOH . E 5 HOH A 63 1063 98 HOH HOH . E 5 HOH A 64 1064 46 HOH HOH . E 5 HOH A 65 1065 18 HOH HOH . E 5 HOH A 66 1066 93 HOH HOH . E 5 HOH A 67 1067 25 HOH HOH . E 5 HOH A 68 1068 8 HOH HOH . E 5 HOH A 69 1069 112 HOH HOH . E 5 HOH A 70 1070 102 HOH HOH . E 5 HOH A 71 1071 53 HOH HOH . E 5 HOH A 72 1072 42 HOH HOH . E 5 HOH A 73 1073 49 HOH HOH . E 5 HOH A 74 1074 28 HOH HOH . E 5 HOH A 75 1075 97 HOH HOH . E 5 HOH A 76 1076 96 HOH HOH . E 5 HOH A 77 1077 99 HOH HOH . E 5 HOH A 78 1078 79 HOH HOH . E 5 HOH A 79 1079 119 HOH HOH . E 5 HOH A 80 1080 38 HOH HOH . E 5 HOH A 81 1081 34 HOH HOH . E 5 HOH A 82 1082 20 HOH HOH . E 5 HOH A 83 1083 105 HOH HOH . E 5 HOH A 84 1084 116 HOH HOH . E 5 HOH A 85 1085 108 HOH HOH . E 5 HOH A 86 1086 68 HOH HOH . E 5 HOH A 87 1087 66 HOH HOH . E 5 HOH A 88 1088 106 HOH HOH . E 5 HOH A 89 1089 35 HOH HOH . E 5 HOH A 90 1090 59 HOH HOH . E 5 HOH A 91 1091 64 HOH HOH . E 5 HOH A 92 1092 72 HOH HOH . E 5 HOH A 93 1093 69 HOH HOH . E 5 HOH A 94 1094 94 HOH HOH . E 5 HOH A 95 1095 52 HOH HOH . E 5 HOH A 96 1096 101 HOH HOH . E 5 HOH A 97 1097 111 HOH HOH . E 5 HOH A 98 1098 80 HOH HOH . E 5 HOH A 99 1099 107 HOH HOH . E 5 HOH A 100 1100 77 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C CBK N66 . . . B 2 32.468 47.798 45.111 1 96.98 ? CBK N66 901 A 1 HETATM 2 C CBL N66 . . . B 2 33.157 48.531 46.211 1 99.71 ? CBL N66 901 A 1 HETATM 3 N NBM N66 . . . B 2 33.065 47.617 47.373 1 101.2 ? NBM N66 901 A 1 HETATM 4 C CBP N66 . . . B 2 33.791 48.156 48.543 1 100.46 ? CBP N66 901 A 1 HETATM 5 C CBN N66 . . . B 2 33.502 46.223 47.034 1 97.45 ? CBN N66 901 A 1 HETATM 6 C CBO N66 . . . B 2 34.209 46.038 45.707 1 91.53 ? CBO N66 901 A 1 HETATM 7 N NBJ N66 . . . B 2 33.387 46.724 44.661 1 88.62 ? NBJ N66 901 A 1 HETATM 8 C CAV N66 . . . B 2 33.512 46.457 43.345 1 79.11 ? CAV N66 901 A 1 HETATM 9 C CAW N66 . . . B 2 33.682 47.517 42.458 1 71.69 ? CAW N66 901 A 1 HETATM 10 C CAX N66 . . . B 2 33.807 47.279 41.091 1 71.78 ? CAX N66 901 A 1 HETATM 11 O OBH N66 . . . B 2 33.973 48.272 40.16 1 79.23 ? OBH N66 901 A 1 HETATM 12 C CBI N66 . . . B 2 33.958 49.639 40.608 1 77.31 ? CBI N66 901 A 1 HETATM 13 C CAU N66 . . . B 2 33.474 45.147 42.846 1 73.56 ? CAU N66 901 A 1 HETATM 14 C CAT N66 . . . B 2 33.594 44.898 41.477 1 68.34 ? CAT N66 901 A 1 HETATM 15 C CAS N66 . . . B 2 33.777 45.968 40.593 1 70.57 ? CAS N66 901 A 1 HETATM 16 N NAR N66 . . . B 2 33.9 45.845 39.257 1 67.21 ? NAR N66 901 A 1 HETATM 17 C C2 N66 . . . B 2 34.705 44.915 38.701 1 66.51 ? C2 N66 901 A 1 HETATM 18 N N3 N66 . . . B 2 35.305 43.924 39.41 1 63.61 ? N3 N66 901 A 1 HETATM 19 C C4 N66 . . . B 2 36.104 43.007 38.843 1 60.8 ? C4 N66 901 A 1 HETATM 20 N N1 N66 . . . B 2 34.89 44.981 37.372 1 61.59 ? N1 N66 901 A 1 HETATM 21 C C6 N66 . . . B 2 35.717 44.042 36.727 1 59.35 ? C6 N66 901 A 1 HETATM 22 C C5 N66 . . . B 2 36.324 43.041 37.473 1 61.73 ? C5 N66 901 A 1 HETATM 23 C CAG N66 . . . B 2 37.156 42.104 36.841 1 59.87 ? CAG N66 901 A 1 HETATM 24 C CAH N66 . . . B 2 37.407 40.823 37.661 1 61.41 ? CAH N66 901 A 1 HETATM 25 C CAI N66 . . . B 2 37.289 40.963 39.049 1 63.45 ? CAI N66 901 A 1 HETATM 26 N NAJ N66 . . . B 2 36.664 42.028 39.562 1 66.36 ? NAJ N66 901 A 1 HETATM 27 C CAK N66 . . . B 2 36.678 41.911 40.893 1 64.32 ? CAK N66 901 A 1 HETATM 28 C CAM N66 . . . B 2 37.321 40.797 41.22 1 61.41 ? CAM N66 901 A 1 HETATM 29 C CAL N66 . . . B 2 37.697 40.194 40.085 1 69.09 ? CAL N66 901 A 1 HETATM 30 C CAN N66 . . . B 2 38.386 39.013 40.005 1 71.16 ? CAN N66 901 A 1 HETATM 31 O OAO N66 . . . B 2 38.968 38.678 38.969 1 66.22 ? OAO N66 901 A 1 HETATM 32 N NAP N66 . . . B 2 38.413 38.237 41.129 1 74.67 ? NAP N66 901 A 1 HETATM 33 C CAQ N66 . . . B 2 39.081 37.068 41.121 1 76.38 ? CAQ N66 901 A 1 HETATM 34 C CAY N66 . . . B 2 38.358 35.862 41.028 1 75.32 ? CAY N66 901 A 1 HETATM 35 C CBD N66 . . . B 2 36.964 35.811 40.925 1 74.75 ? CBD N66 901 A 1 HETATM 36 C CBE N66 . . . B 2 36.341 35.533 42.304 1 77.35 ? CBE N66 901 A 1 HETATM 37 C CAZ N66 . . . B 2 39.058 34.655 41.035 1 76.12 ? CAZ N66 901 A 1 HETATM 38 C CBA N66 . . . B 2 40.448 34.652 41.136 1 76.66 ? CBA N66 901 A 1 HETATM 39 C CBB N66 . . . B 2 41.151 35.853 41.24 1 78.48 ? CBB N66 901 A 1 HETATM 40 C CBC N66 . . . B 2 40.482 37.076 41.235 1 77.9 ? CBC N66 901 A 1 HETATM 41 C CBF N66 . . . B 2 41.234 38.232 41.336 1 79.05 ? CBF N66 901 A 1 HETATM 42 C CBG N66 . . . B 2 41.256 38.583 42.829 1 77.86 ? CBG N66 901 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 246 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 42 #