data_9BY4 # _model_server_result.job_id secRJyBTkwYkxly1VvsTew _model_server_result.datetime_utc '2025-08-03 22:24:29' _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 9by4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1302}' # _entry.id 9BY4 # _exptl.entry_id 9BY4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 501.623 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description ~{N}-[2-[2-(dimethylamino)ethyl-methyl-amino]-4-methoxy-5-[[4-(1-methylindol-3-yl)pyrimidin-2-yl]amino]phenyl]propanamide _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 9BY4 _cell.length_a 145.968 _cell.length_b 145.968 _cell.length_c 145.968 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9BY4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 197 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 3' # _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,D,E,F,G _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 3 _struct_asym.id C _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 metalc ? metalc1 A OD1 ASP 324 A ASP 1008 1_555 D CA CA . A CA 1303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.823 ? metalc ? metalc2 A OD2 ASP 324 A ASP 1008 1_555 D CA CA . A CA 1303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.772 ? # _chem_comp.formula 'C28 H35 N7 O2' _chem_comp.formula_weight 501.623 _chem_comp.id Q6K _chem_comp.mon_nstd_flag . _chem_comp.name ~{N}-[2-[2-(dimethylamino)ethyl-methyl-amino]-4-methoxy-5-[[4-(1-methylindol-3-yl)pyrimidin-2-yl]amino]phenyl]propanamide _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 C32 C31 Q6K sing 289 n n C31 C30 Q6K sing 290 n n C22 N21 Q6K sing 291 n n C30 O33 Q6K doub 292 n n C30 N29 Q6K sing 293 n n N29 C28 Q6K sing 294 n n C28 C34 Q6K doub 295 n y C28 C20 Q6K sing 296 n y N21 C20 Q6K sing 297 n n N21 C23 Q6K sing 298 n n C34 C15 Q6K sing 299 n y C20 C19 Q6K doub 300 n y C15 C16 Q6K doub 301 n y C15 N14 Q6K sing 302 n n C19 C16 Q6K sing 303 n y C23 C24 Q6K sing 304 n n C16 O17 Q6K sing 305 n n N14 C13 Q6K sing 306 n n N35 C13 Q6K doub 307 n y N35 C36 Q6K sing 308 n y C13 N12 Q6K sing 309 n y C24 N25 Q6K sing 310 n n C36 C37 Q6K doub 311 n y N12 C11 Q6K doub 312 n y C37 C11 Q6K sing 313 n y C11 C10 Q6K sing 314 n n C18 O17 Q6K sing 315 n n C09 C10 Q6K doub 316 n y C09 N02 Q6K sing 317 n y C10 C04 Q6K sing 318 n y C01 N02 Q6K sing 319 n n N02 C03 Q6K sing 320 n y C04 C03 Q6K doub 321 n y C04 C05 Q6K sing 322 n y C03 C08 Q6K sing 323 n y C05 C06 Q6K doub 324 n y C08 C07 Q6K doub 325 n y C06 C07 Q6K sing 326 n y N25 C27 Q6K sing 327 n n N25 C26 Q6K sing 328 n n C22 H1 Q6K sing 329 n n C22 H2 Q6K sing 330 n n C22 H3 Q6K sing 331 n n C24 H4 Q6K sing 332 n n C24 H5 Q6K sing 333 n n C26 H6 Q6K sing 334 n n C26 H7 Q6K sing 335 n n C26 H8 Q6K sing 336 n n C01 H9 Q6K sing 337 n n C01 H10 Q6K sing 338 n n C01 H11 Q6K sing 339 n n C05 H12 Q6K sing 340 n n C06 H13 Q6K sing 341 n n C07 H14 Q6K sing 342 n n C08 H15 Q6K sing 343 n n C09 H16 Q6K sing 344 n n C18 H17 Q6K sing 345 n n C18 H18 Q6K sing 346 n n C18 H19 Q6K sing 347 n n C19 H20 Q6K sing 348 n n C23 H21 Q6K sing 349 n n C23 H22 Q6K sing 350 n n C27 H23 Q6K sing 351 n n C27 H24 Q6K sing 352 n n C27 H25 Q6K sing 353 n n C31 H26 Q6K sing 354 n n C31 H27 Q6K sing 355 n n C32 H28 Q6K sing 356 n n C32 H29 Q6K sing 357 n n C32 H30 Q6K sing 358 n n C34 H31 Q6K sing 359 n n C36 H32 Q6K sing 360 n n C37 H33 Q6K sing 361 n n N14 H34 Q6K sing 362 n n N29 H36 Q6K sing 363 n n # _atom_sites.entry_id 9BY4 _atom_sites.fract_transf_matrix[1][1] 0.006851 _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] 0.006851 _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] 0.006851 _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 PDO A 1 1301 1301 PDO PDO . C 3 Q6K A 1 1302 1401 Q6K YY4 . D 4 CA A 1 1303 1501 CA CA . E 2 PDO A 1 1304 1601 PDO PDO . F 2 PDO A 1 1305 1701 PDO PDO . G 5 HOH A 1 1401 70 HOH HOH . G 5 HOH A 2 1402 88 HOH HOH . G 5 HOH A 3 1403 58 HOH HOH . G 5 HOH A 4 1404 59 HOH HOH . G 5 HOH A 5 1405 69 HOH HOH . G 5 HOH A 6 1406 67 HOH HOH . G 5 HOH A 7 1407 62 HOH HOH . G 5 HOH A 8 1408 80 HOH HOH . G 5 HOH A 9 1409 85 HOH HOH . G 5 HOH A 10 1410 65 HOH HOH . G 5 HOH A 11 1411 56 HOH HOH . G 5 HOH A 12 1412 4 HOH HOH . G 5 HOH A 13 1413 75 HOH HOH . G 5 HOH A 14 1414 33 HOH HOH . G 5 HOH A 15 1415 10 HOH HOH . G 5 HOH A 16 1416 72 HOH HOH . G 5 HOH A 17 1417 5 HOH HOH . G 5 HOH A 18 1418 87 HOH HOH . G 5 HOH A 19 1419 78 HOH HOH . G 5 HOH A 20 1420 1 HOH HOH . G 5 HOH A 21 1421 79 HOH HOH . G 5 HOH A 22 1422 66 HOH HOH . G 5 HOH A 23 1423 64 HOH HOH . G 5 HOH A 24 1424 35 HOH HOH . G 5 HOH A 25 1425 86 HOH HOH . G 5 HOH A 26 1426 40 HOH HOH . G 5 HOH A 27 1427 84 HOH HOH . G 5 HOH A 28 1428 71 HOH HOH . G 5 HOH A 29 1429 68 HOH HOH . G 5 HOH A 30 1430 81 HOH HOH . G 5 HOH A 31 1431 6 HOH HOH . G 5 HOH A 32 1432 89 HOH HOH . G 5 HOH A 33 1433 19 HOH HOH . G 5 HOH A 34 1434 57 HOH HOH . G 5 HOH A 35 1435 76 HOH HOH . G 5 HOH A 36 1436 8 HOH HOH . G 5 HOH A 37 1437 41 HOH HOH . G 5 HOH A 38 1438 27 HOH HOH . G 5 HOH A 39 1439 13 HOH HOH . G 5 HOH A 40 1440 15 HOH HOH . G 5 HOH A 41 1441 74 HOH HOH . G 5 HOH A 42 1442 61 HOH HOH . G 5 HOH A 43 1443 46 HOH HOH . G 5 HOH A 44 1444 82 HOH HOH . G 5 HOH A 45 1445 7 HOH HOH . G 5 HOH A 46 1446 77 HOH HOH . G 5 HOH A 47 1447 38 HOH HOH . G 5 HOH A 48 1448 29 HOH HOH . G 5 HOH A 49 1449 17 HOH HOH . G 5 HOH A 50 1450 42 HOH HOH . G 5 HOH A 51 1451 83 HOH HOH . G 5 HOH A 52 1452 51 HOH HOH . G 5 HOH A 53 1453 34 HOH HOH . G 5 HOH A 54 1454 40 HOH HOH . G 5 HOH A 55 1455 55 HOH HOH . G 5 HOH A 56 1456 63 HOH HOH . G 5 HOH A 57 1457 4 HOH HOH . G 5 HOH A 58 1458 60 HOH HOH . G 5 HOH A 59 1459 32 HOH HOH . G 5 HOH A 60 1460 30 HOH HOH . G 5 HOH A 61 1461 31 HOH HOH . G 5 HOH A 62 1462 16 HOH HOH . G 5 HOH A 63 1463 73 HOH HOH . G 5 HOH A 64 1464 2 HOH HOH . G 5 HOH A 65 1465 45 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 C10 Q6K . . . C 3 51.053 -0.049 22.63 1 84.17 ? C10 Q6K 1302 A 1 HETATM 2 N N12 Q6K . . . C 3 51.979 1.008 20.755 1 73.39 ? N12 Q6K 1302 A 1 HETATM 3 C C13 Q6K . . . C 3 52.954 1.706 20.147 1 72.24 ? C13 Q6K 1302 A 1 HETATM 4 C C15 Q6K . . . C 3 52.128 1.549 17.907 1 71.61 ? C15 Q6K 1302 A 1 HETATM 5 C C20 Q6K . . . C 3 50.636 0.714 15.705 1 88.66 ? C20 Q6K 1302 A 1 HETATM 6 C C22 Q6K . . . C 3 48.629 0.976 14.42 1 98.56 ? C22 Q6K 1302 A 1 HETATM 7 C C24 Q6K . . . C 3 49.539 -1.998 13.959 1 116.99 ? C24 Q6K 1302 A 1 HETATM 8 C C26 Q6K . . . C 3 48.892 -2.802 11.816 1 123.16 ? C26 Q6K 1302 A 1 HETATM 9 C C28 Q6K . . . C 3 50.591 -0.026 16.896 1 83.28 ? C28 Q6K 1302 A 1 HETATM 10 C C01 Q6K . . . C 3 49.628 -1.896 25.345 1 86.15 ? C01 Q6K 1302 A 1 HETATM 11 C C03 Q6K . . . C 3 49.203 -1.051 23.045 1 86 ? C03 Q6K 1302 A 1 HETATM 12 C C04 Q6K . . . C 3 49.855 -0.345 22.114 1 85.78 ? C04 Q6K 1302 A 1 HETATM 13 C C05 Q6K . . . C 3 49.271 -0.076 20.943 1 86.41 ? C05 Q6K 1302 A 1 HETATM 14 C C06 Q6K . . . C 3 47.985 -0.518 20.663 1 88.45 ? C06 Q6K 1302 A 1 HETATM 15 C C07 Q6K . . . C 3 47.316 -1.249 21.632 1 86.72 ? C07 Q6K 1302 A 1 HETATM 16 C C08 Q6K . . . C 3 47.966 -1.502 22.832 1 85.78 ? C08 Q6K 1302 A 1 HETATM 17 C C09 Q6K . . . C 3 51.147 -0.554 23.855 1 84.77 ? C09 Q6K 1302 A 1 HETATM 18 C C11 Q6K . . . C 3 52.036 0.651 22.049 1 76.34 ? C11 Q6K 1302 A 1 HETATM 19 C C16 Q6K . . . C 3 52.166 2.258 16.715 1 75.66 ? C16 Q6K 1302 A 1 HETATM 20 C C18 Q6K . . . C 3 52.642 4.276 15.662 1 67.72 ? C18 Q6K 1302 A 1 HETATM 21 C C19 Q6K . . . C 3 51.426 1.854 15.61 1 81.23 ? C19 Q6K 1302 A 1 HETATM 22 C C23 Q6K . . . C 3 50.388 -0.745 13.732 1 107.75 ? C23 Q6K 1302 A 1 HETATM 23 C C27 Q6K . . . C 3 49.428 -4.346 13.555 1 123.74 ? C27 Q6K 1302 A 1 HETATM 24 C C30 Q6K . . . C 3 50.15 -2.25 17.556 1 97.77 ? C30 Q6K 1302 A 1 HETATM 25 C C31 Q6K . . . C 3 49.118 -3.378 17.47 1 99.87 ? C31 Q6K 1302 A 1 HETATM 26 C C32 Q6K . . . C 3 47.746 -2.856 17.898 1 102.1 ? C32 Q6K 1302 A 1 HETATM 27 C C34 Q6K . . . C 3 51.336 0.403 17.998 1 75.34 ? C34 Q6K 1302 A 1 HETATM 28 C C36 Q6K . . . C 3 54.156 1.752 22.201 1 67.61 ? C36 Q6K 1302 A 1 HETATM 29 C C37 Q6K . . . C 3 53.142 1.023 22.806 1 71.07 ? C37 Q6K 1302 A 1 HETATM 30 N N02 Q6K . . . C 3 49.998 -1.176 24.105 1 85.42 ? N02 Q6K 1302 A 1 HETATM 31 N N14 Q6K . . . C 3 52.914 2.084 18.86 1 71.01 ? N14 Q6K 1302 A 1 HETATM 32 N N21 Q6K . . . C 3 49.915 0.302 14.655 1 100.13 ? N21 Q6K 1302 A 1 HETATM 33 N N25 Q6K . . . C 3 49.778 -3.047 12.961 1 123 ? N25 Q6K 1302 A 1 HETATM 34 N N29 Q6K . . . C 3 49.793 -1.109 16.918 1 88.59 ? N29 Q6K 1302 A 1 HETATM 35 N N35 Q6K . . . C 3 54.031 2.089 20.85 1 70.94 ? N35 Q6K 1302 A 1 HETATM 36 O O17 Q6K . . . C 3 52.968 3.363 16.715 1 73.52 ? O17 Q6K 1302 A 1 HETATM 37 O O33 Q6K . . . C 3 51.206 -2.442 18.158 1 102.62 ? O33 Q6K 1302 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 32 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 226 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 37 #