data_1YI3 # _model_server_result.job_id eKN6vlKgshQemPoNClDsqA _model_server_result.datetime_utc '2024-11-08 18:09:40' _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 1yi3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":306}' # _entry.id 1YI3 # _exptl.entry_id 1YI3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 307.343 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-MORPHOLIN-4-YL-7-PHENYL-4H-CHROMEN-4-ONE _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 120 _cell.entry_id 1YI3 _cell.length_a 97.647 _cell.length_b 97.647 _cell.length_c 80.725 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1YI3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 170 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 ASN 128 A ASN 160 1_555 A N CME 129 A CME 161 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale2 A C CME 129 A CME 161 1_555 A N GLY 130 A GLY 162 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale3 A C SER 228 A SER 260 1_555 A N SEP 229 A SEP 261 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale4 A C SEP 229 A SEP 261 1_555 A N GLU 230 A GLU 262 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? # _chem_comp.formula 'C19 H17 N O3' _chem_comp.formula_weight 307.343 _chem_comp.id LY2 _chem_comp.mon_nstd_flag . _chem_comp.name 2-MORPHOLIN-4-YL-7-PHENYL-4H-CHROMEN-4-ONE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 2-(4-MORPHOLINYL)-8-PHENYL-4H-1-BENZOPYRAN-4-ONE # 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 N14 C15 LY2 sing 215 n n N14 C19 LY2 sing 216 n n N14 C11 LY2 sing 217 n n C15 C16 LY2 sing 218 n n C15 H151 LY2 sing 219 n n C15 H152 LY2 sing 220 n n C19 C18 LY2 sing 221 n n C19 H191 LY2 sing 222 n n C19 H192 LY2 sing 223 n n C11 O12 LY2 sing 224 n y C11 C10 LY2 doub 225 n y C16 O17 LY2 sing 226 n n C16 H161 LY2 sing 227 n n C16 H162 LY2 sing 228 n n O17 C18 LY2 sing 229 n n C18 H181 LY2 sing 230 n n C18 H182 LY2 sing 231 n n C1 C2 LY2 doub 232 n y C1 C6 LY2 sing 233 n y C1 HC1 LY2 sing 234 n n C2 C3 LY2 sing 235 n y C2 HC2 LY2 sing 236 n n C6 C5 LY2 doub 237 n y C6 HC6 LY2 sing 238 n n C3 C4 LY2 doub 239 n y C3 C9 LY2 sing 240 n y C4 C5 LY2 sing 241 n y C4 O12 LY2 sing 242 n y C9 C10 LY2 sing 243 n y C9 O13 LY2 doub 244 n n C5 C20 LY2 sing 245 n y C20 C25 LY2 doub 246 n y C20 C21 LY2 sing 247 n y C25 C24 LY2 sing 248 n y C25 H25 LY2 sing 249 n n C24 C23 LY2 doub 250 n y C24 H24 LY2 sing 251 n n C21 C22 LY2 doub 252 n y C21 H21 LY2 sing 253 n n C22 C23 LY2 sing 254 n y C22 H22 LY2 sing 255 n n C23 H23 LY2 sing 256 n n C10 H10 LY2 sing 257 n n # _atom_sites.entry_id 1YI3 _atom_sites.fract_transf_matrix[1][1] 0.010241 _atom_sites.fract_transf_matrix[1][2] 0.005913 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011825 _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] 0.012388 _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 LY2 A 1 306 201 LY2 LY2 . C 3 HOH A 1 307 1 HOH HOH . C 3 HOH A 2 308 2 HOH HOH . C 3 HOH A 3 309 3 HOH HOH . C 3 HOH A 4 310 4 HOH HOH . C 3 HOH A 5 311 5 HOH HOH . C 3 HOH A 6 312 6 HOH HOH . C 3 HOH A 7 313 7 HOH HOH . C 3 HOH A 8 314 8 HOH HOH . C 3 HOH A 9 315 9 HOH HOH . C 3 HOH A 10 316 10 HOH HOH . C 3 HOH A 11 317 12 HOH HOH . C 3 HOH A 12 318 13 HOH HOH . C 3 HOH A 13 319 14 HOH HOH . C 3 HOH A 14 320 15 HOH HOH . C 3 HOH A 15 321 16 HOH HOH . C 3 HOH A 16 322 18 HOH HOH . C 3 HOH A 17 323 19 HOH HOH . C 3 HOH A 18 324 20 HOH HOH . C 3 HOH A 19 325 21 HOH HOH . C 3 HOH A 20 326 22 HOH HOH . C 3 HOH A 21 327 23 HOH HOH . C 3 HOH A 22 328 24 HOH HOH . C 3 HOH A 23 329 25 HOH HOH . C 3 HOH A 24 330 26 HOH HOH . C 3 HOH A 25 331 27 HOH HOH . C 3 HOH A 26 332 28 HOH HOH . C 3 HOH A 27 333 29 HOH HOH . C 3 HOH A 28 334 30 HOH HOH . C 3 HOH A 29 335 31 HOH HOH . C 3 HOH A 30 336 33 HOH HOH . C 3 HOH A 31 337 34 HOH HOH . C 3 HOH A 32 338 35 HOH HOH . C 3 HOH A 33 339 37 HOH HOH . C 3 HOH A 34 340 38 HOH HOH . C 3 HOH A 35 341 39 HOH HOH . C 3 HOH A 36 342 40 HOH HOH . C 3 HOH A 37 343 42 HOH HOH . C 3 HOH A 38 344 44 HOH HOH . C 3 HOH A 39 345 46 HOH HOH . C 3 HOH A 40 346 48 HOH HOH . C 3 HOH A 41 347 49 HOH HOH . C 3 HOH A 42 348 50 HOH HOH . C 3 HOH A 43 349 51 HOH HOH . C 3 HOH A 44 350 52 HOH HOH . C 3 HOH A 45 351 56 HOH HOH . C 3 HOH A 46 352 59 HOH HOH . C 3 HOH A 47 353 60 HOH HOH . C 3 HOH A 48 354 61 HOH HOH . C 3 HOH A 49 355 63 HOH HOH . C 3 HOH A 50 356 64 HOH HOH . C 3 HOH A 51 357 65 HOH HOH . C 3 HOH A 52 358 67 HOH HOH . C 3 HOH A 53 359 69 HOH HOH . C 3 HOH A 54 360 71 HOH HOH . C 3 HOH A 55 361 72 HOH HOH . C 3 HOH A 56 362 74 HOH HOH . C 3 HOH A 57 363 76 HOH HOH . C 3 HOH A 58 364 77 HOH HOH . C 3 HOH A 59 365 78 HOH HOH . C 3 HOH A 60 366 79 HOH HOH . C 3 HOH A 61 367 83 HOH HOH . C 3 HOH A 62 368 84 HOH HOH . C 3 HOH A 63 369 85 HOH HOH . C 3 HOH A 64 370 86 HOH HOH . C 3 HOH A 65 371 87 HOH HOH . C 3 HOH A 66 372 88 HOH HOH . C 3 HOH A 67 373 89 HOH HOH . C 3 HOH A 68 374 90 HOH HOH . C 3 HOH A 69 375 91 HOH HOH . C 3 HOH A 70 376 92 HOH HOH . C 3 HOH A 71 377 93 HOH HOH . C 3 HOH A 72 378 94 HOH HOH . C 3 HOH A 73 379 96 HOH HOH . C 3 HOH A 74 380 97 HOH HOH . C 3 HOH A 75 381 99 HOH HOH . C 3 HOH A 76 382 100 HOH HOH . C 3 HOH A 77 383 101 HOH HOH . C 3 HOH A 78 384 102 HOH HOH . C 3 HOH A 79 385 103 HOH HOH . C 3 HOH A 80 386 104 HOH HOH . C 3 HOH A 81 387 105 HOH HOH . C 3 HOH A 82 388 106 HOH HOH . C 3 HOH A 83 389 107 HOH HOH . C 3 HOH A 84 390 108 HOH HOH . C 3 HOH A 85 391 110 HOH HOH . C 3 HOH A 86 392 112 HOH HOH . C 3 HOH A 87 393 113 HOH HOH . C 3 HOH A 88 394 114 HOH HOH . C 3 HOH A 89 395 115 HOH HOH . C 3 HOH A 90 396 116 HOH HOH . C 3 HOH A 91 397 117 HOH HOH . C 3 HOH A 92 398 118 HOH HOH . C 3 HOH A 93 399 119 HOH HOH . C 3 HOH A 94 400 120 HOH HOH . C 3 HOH A 95 401 121 HOH HOH . C 3 HOH A 96 402 124 HOH HOH . C 3 HOH A 97 403 125 HOH HOH . C 3 HOH A 98 404 126 HOH HOH . C 3 HOH A 99 405 127 HOH HOH . C 3 HOH A 100 406 128 HOH HOH . C 3 HOH A 101 407 129 HOH HOH . C 3 HOH A 102 408 130 HOH HOH . C 3 HOH A 103 409 131 HOH HOH . C 3 HOH A 104 410 132 HOH HOH . C 3 HOH A 105 411 133 HOH HOH . C 3 HOH A 106 412 134 HOH HOH . C 3 HOH A 107 413 135 HOH HOH . C 3 HOH A 108 414 136 HOH HOH . C 3 HOH A 109 415 137 HOH HOH . C 3 HOH A 110 416 138 HOH HOH . C 3 HOH A 111 417 140 HOH HOH . C 3 HOH A 112 418 141 HOH HOH . C 3 HOH A 113 419 143 HOH HOH . C 3 HOH A 114 420 145 HOH HOH . C 3 HOH A 115 421 146 HOH HOH . C 3 HOH A 116 422 148 HOH HOH . C 3 HOH A 117 423 149 HOH HOH . C 3 HOH A 118 424 151 HOH HOH . C 3 HOH A 119 425 152 HOH HOH . C 3 HOH A 120 426 153 HOH HOH . C 3 HOH A 121 427 154 HOH HOH . C 3 HOH A 122 428 155 HOH HOH . C 3 HOH A 123 429 156 HOH HOH . C 3 HOH A 124 430 157 HOH HOH . C 3 HOH A 125 431 158 HOH HOH . C 3 HOH A 126 432 159 HOH HOH . C 3 HOH A 127 433 160 HOH HOH . C 3 HOH A 128 434 161 HOH HOH . C 3 HOH A 129 435 162 HOH HOH . C 3 HOH A 130 436 163 HOH HOH . C 3 HOH A 131 437 164 HOH HOH . C 3 HOH A 132 438 165 HOH HOH . C 3 HOH A 133 439 166 HOH HOH . C 3 HOH A 134 440 167 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 N N14 LY2 . . . B 2 -18.471 34.638 -2.293 1 30.52 ? N14 LY2 306 A 1 HETATM 2 C C15 LY2 . . . B 2 -18.695 35.645 -3.345 1 30.7 ? C15 LY2 306 A 1 HETATM 3 C C19 LY2 . . . B 2 -17.486 33.642 -2.755 1 30.58 ? C19 LY2 306 A 1 HETATM 4 C C11 LY2 . . . B 2 -18.362 35.24 -0.95 1 30.75 ? C11 LY2 306 A 1 HETATM 5 C C16 LY2 . . . B 2 -19.209 34.942 -4.608 1 31.4 ? C16 LY2 306 A 1 HETATM 6 O O17 LY2 . . . B 2 -18.262 33.963 -5.029 1 31.87 ? O17 LY2 306 A 1 HETATM 7 C C18 LY2 . . . B 2 -18.027 32.974 -4.029 1 31.23 ? C18 LY2 306 A 1 HETATM 8 C C1 LY2 . . . B 2 -19.545 38.214 2.945 1 30.25 ? C1 LY2 306 A 1 HETATM 9 C C2 LY2 . . . B 2 -18.711 37.093 2.824 1 30.59 ? C2 LY2 306 A 1 HETATM 10 C C6 LY2 . . . B 2 -20.2 38.731 1.814 1 29.93 ? C6 LY2 306 A 1 HETATM 11 C C3 LY2 . . . B 2 -18.558 36.496 1.562 1 30.52 ? C3 LY2 306 A 1 HETATM 12 C C4 LY2 . . . B 2 -19.224 37.014 0.442 1 30.47 ? C4 LY2 306 A 1 HETATM 13 C C9 LY2 . . . B 2 -17.682 35.335 1.401 1 30.77 ? C9 LY2 306 A 1 HETATM 14 C C5 LY2 . . . B 2 -20.042 38.138 0.544 1 30.43 ? C5 LY2 306 A 1 HETATM 15 O O12 LY2 . . . B 2 -19.087 36.376 -0.778 1 30.87 ? O12 LY2 306 A 1 HETATM 16 C C20 LY2 . . . B 2 -20.712 38.742 -0.656 1 31.06 ? C20 LY2 306 A 1 HETATM 17 C C25 LY2 . . . B 2 -22.045 39.222 -0.584 1 31.3 ? C25 LY2 306 A 1 HETATM 18 C C24 LY2 . . . B 2 -22.659 39.798 -1.719 1 32.19 ? C24 LY2 306 A 1 HETATM 19 C C21 LY2 . . . B 2 -20.004 38.847 -1.88 1 31.38 ? C21 LY2 306 A 1 HETATM 20 C C22 LY2 . . . B 2 -20.613 39.421 -3.017 1 31.81 ? C22 LY2 306 A 1 HETATM 21 C C23 LY2 . . . B 2 -21.941 39.896 -2.932 1 31.95 ? C23 LY2 306 A 1 HETATM 22 C C10 LY2 . . . B 2 -17.643 34.713 0.063 1 30.61 ? C10 LY2 306 A 1 HETATM 23 O O13 LY2 . . . B 2 -16.987 34.834 2.277 1 31.56 ? O13 LY2 306 A 1 # _model_server_stats.io_time_ms 61 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 228 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 23 #