data_8UR9 # _model_server_result.job_id jRrrYMsmnkndjnEWhN0EOw _model_server_result.datetime_utc '2025-03-13 06:59:51' _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 8ur9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":401}' # _entry.id 8UR9 # _exptl.entry_id 8UR9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 565.379 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "(5P)-5-[(1P,3M,3'P)-3-{3-chloro-5-[(2-chlorophenyl)methoxy]-4-fluorophenyl}-2-oxo-2H-[1,3'-bipyridin]-5-yl]-1-methylpyrimidine-2,4(1H,3H)-dione" _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 8UR9 _cell.length_a 67.91 _cell.length_b 99.895 _cell.length_c 104.314 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8UR9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall 'P 2ac 2ab' _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_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 C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C28 H19 Cl2 F N4 O4' _chem_comp.formula_weight 565.379 _chem_comp.id XEK _chem_comp.mon_nstd_flag . _chem_comp.name "(5P)-5-[(1P,3M,3'P)-3-{3-chloro-5-[(2-chlorophenyl)methoxy]-4-fluorophenyl}-2-oxo-2H-[1,3'-bipyridin]-5-yl]-1-methylpyrimidine-2,4(1H,3H)-dione" _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 O1 C1 XEK doub 376 n n C1 C2 XEK sing 377 n n C1 N3 XEK sing 378 n n C2 C3 XEK sing 379 n n C2 C16 XEK doub 380 n n C3 C4 XEK doub 381 n y C3 C15 XEK sing 382 n y C4 C5 XEK sing 383 n y C5 CL1 XEK sing 384 n n C5 C6 XEK doub 385 n y C6 F1 XEK sing 386 n n C6 C7 XEK sing 387 n y C7 O2 XEK sing 388 n n C7 C15 XEK doub 389 n y O2 C8 XEK sing 390 n n C8 C9 XEK sing 391 n n C9 C10 XEK doub 392 n y C9 C14 XEK sing 393 n y C10 C11 XEK sing 394 n y C11 C12 XEK doub 395 n y C12 C13 XEK sing 396 n y C13 C14 XEK doub 397 n y C14 CL2 XEK sing 398 n n C16 C17 XEK sing 399 n n C17 C18 XEK sing 400 n n C17 C23 XEK doub 401 n n C18 C19 XEK sing 402 n n C18 C20 XEK doub 403 n n C19 N1 XEK sing 404 n n C19 O3 XEK doub 405 n n N1 C22 XEK sing 406 n n C20 N2 XEK sing 407 n n N2 C21 XEK sing 408 n n N2 C22 XEK sing 409 n n C22 O4 XEK doub 410 n n C23 N3 XEK sing 411 n n N3 C24 XEK sing 412 n n C24 C25 XEK doub 413 n y C24 C28 XEK sing 414 n y C25 C26 XEK sing 415 n y C26 C27 XEK doub 416 n y C27 N4 XEK sing 417 n y N4 C28 XEK doub 418 n y C4 H1 XEK sing 419 n n C8 H2 XEK sing 420 n n C8 H3 XEK sing 421 n n C10 H4 XEK sing 422 n n C11 H5 XEK sing 423 n n C12 H6 XEK sing 424 n n C13 H7 XEK sing 425 n n C15 H8 XEK sing 426 n n C21 H13 XEK sing 427 n n C21 H14 XEK sing 428 n n C21 H12 XEK sing 429 n n C25 H16 XEK sing 430 n n C27 H18 XEK sing 431 n n C16 H9 XEK sing 432 n n C20 H11 XEK sing 433 n n C23 H15 XEK sing 434 n n C26 H17 XEK sing 435 n n C28 H19 XEK sing 436 n n N1 H10 XEK sing 437 n n # _atom_sites.entry_id 8UR9 _atom_sites.fract_transf_matrix[1][1] 0.014725 _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] 0.010011 _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] 0.009586 _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 C 2 XEK A 1 401 1 XEK M61 . D 3 HOH A 1 501 61 HOH HOH . D 3 HOH A 2 502 56 HOH HOH . D 3 HOH A 3 503 62 HOH HOH . D 3 HOH A 4 504 6 HOH HOH . D 3 HOH A 5 505 12 HOH HOH . D 3 HOH A 6 506 54 HOH HOH . D 3 HOH A 7 507 3 HOH HOH . D 3 HOH A 8 508 39 HOH HOH . D 3 HOH A 9 509 2 HOH HOH . D 3 HOH A 10 510 37 HOH HOH . D 3 HOH A 11 511 24 HOH HOH . D 3 HOH A 12 512 48 HOH HOH . D 3 HOH A 13 513 26 HOH HOH . D 3 HOH A 14 514 52 HOH HOH . D 3 HOH A 15 515 36 HOH HOH . D 3 HOH A 16 516 23 HOH HOH . D 3 HOH A 17 517 5 HOH HOH . D 3 HOH A 18 518 28 HOH HOH . D 3 HOH A 19 519 16 HOH HOH . D 3 HOH A 20 520 44 HOH HOH . D 3 HOH A 21 521 40 HOH HOH . D 3 HOH A 22 522 42 HOH HOH . D 3 HOH A 23 523 47 HOH HOH . D 3 HOH A 24 524 53 HOH HOH . D 3 HOH A 25 525 22 HOH HOH . D 3 HOH A 26 526 38 HOH HOH . D 3 HOH A 27 527 46 HOH HOH . D 3 HOH A 28 528 18 HOH HOH . D 3 HOH A 29 529 58 HOH HOH . E 3 HOH B 1 401 14 HOH HOH . E 3 HOH B 2 402 59 HOH HOH . E 3 HOH B 3 403 4 HOH HOH . E 3 HOH B 4 404 21 HOH HOH . E 3 HOH B 5 405 11 HOH HOH . E 3 HOH B 6 406 19 HOH HOH . E 3 HOH B 7 407 41 HOH HOH . E 3 HOH B 8 408 51 HOH HOH . E 3 HOH B 9 409 67 HOH HOH . E 3 HOH B 10 410 30 HOH HOH . E 3 HOH B 11 411 50 HOH HOH . E 3 HOH B 12 412 20 HOH HOH . E 3 HOH B 13 413 1 HOH HOH . E 3 HOH B 14 414 45 HOH HOH . E 3 HOH B 15 415 49 HOH HOH . E 3 HOH B 16 416 69 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 C1 XEK . . . C 2 -20.318 -4.717 -27.439 1 51.49 ? C1 XEK 401 A 1 HETATM 2 C C2 XEK . . . C 2 -21.621 -4.449 -27.816 1 51.53 ? C2 XEK 401 A 1 HETATM 3 C C3 XEK . . . C 2 -21.956 -4.288 -29.289 1 53.98 ? C3 XEK 401 A 1 HETATM 4 C C4 XEK . . . C 2 -22.494 -3.095 -29.699 1 53.64 ? C4 XEK 401 A 1 HETATM 5 C C5 XEK . . . C 2 -22.789 -2.924 -31.032 1 62.82 ? C5 XEK 401 A 1 HETATM 6 C C6 XEK . . . C 2 -22.564 -3.938 -31.958 1 66.98 ? C6 XEK 401 A 1 HETATM 7 C C7 XEK . . . C 2 -22.02 -5.155 -31.552 1 69.05 ? C7 XEK 401 A 1 HETATM 8 C C8 XEK . . . C 2 -20.411 -6.566 -32.675 1 81.42 ? C8 XEK 401 A 1 HETATM 9 C C9 XEK . . . C 2 -20.211 -7.369 -33.98 1 82.93 ? C9 XEK 401 A 1 HETATM 10 C C10 XEK . . . C 2 -20.674 -8.683 -34.073 1 81.36 ? C10 XEK 401 A 1 HETATM 11 C C11 XEK . . . C 2 -20.505 -9.413 -35.25 1 78.17 ? C11 XEK 401 A 1 HETATM 12 C C12 XEK . . . C 2 -19.868 -8.844 -36.348 1 79.6 ? C12 XEK 401 A 1 HETATM 13 C C13 XEK . . . C 2 -19.396 -7.54 -36.272 1 81.49 ? C13 XEK 401 A 1 HETATM 14 C C14 XEK . . . C 2 -19.566 -6.81 -35.092 1 84.14 ? C14 XEK 401 A 1 HETATM 15 C C15 XEK . . . C 2 -21.722 -5.318 -30.202 1 64.37 ? C15 XEK 401 A 1 HETATM 16 C C17 XEK . . . C 2 -22.283 -4.453 -25.514 1 54.98 ? C17 XEK 401 A 1 HETATM 17 C C21 XEK . . . C 2 -26.986 -4.991 -24.292 1 72.83 ? C21 XEK 401 A 1 HETATM 18 C C22 XEK . . . C 2 -25.375 -4.323 -22.605 1 64.78 ? C22 XEK 401 A 1 HETATM 19 C C24 XEK . . . C 2 -18.661 -5.128 -25.77 1 50.73 ? C24 XEK 401 A 1 HETATM 20 C C25 XEK . . . C 2 -18.219 -6.381 -25.383 1 47.66 ? C25 XEK 401 A 1 HETATM 21 C C27 XEK . . . C 2 -16.016 -5.421 -25.111 1 49.53 ? C27 XEK 401 A 1 HETATM 22 C C16 XEK . . . C 2 -22.608 -4.322 -26.852 1 58.09 ? C16 XEK 401 A 1 HETATM 23 C C18 XEK . . . C 2 -23.364 -4.362 -24.429 1 60.14 ? C18 XEK 401 A 1 HETATM 24 C C19 XEK . . . C 2 -23.117 -4.029 -23.092 1 57.71 ? C19 XEK 401 A 1 HETATM 25 C C20 XEK . . . C 2 -24.664 -4.682 -24.794 1 60.9 ? C20 XEK 401 A 1 HETATM 26 C C23 XEK . . . C 2 -20.974 -4.754 -25.189 1 53.1 ? C23 XEK 401 A 1 HETATM 27 C C26 XEK . . . C 2 -16.878 -6.52 -25.049 1 51.75 ? C26 XEK 401 A 1 HETATM 28 C C28 XEK . . . C 2 -17.765 -4.053 -25.807 1 48.77 ? C28 XEK 401 A 1 HETATM 29 F F1 XEK . . . C 2 -22.895 -3.718 -33.26 1 71.31 ? F1 XEK 401 A 1 HETATM 30 N N1 XEK . . . C 2 -24.129 -4.013 -22.213 1 57.48 ? N1 XEK 401 A 1 HETATM 31 N N2 XEK . . . C 2 -25.633 -4.651 -23.883 1 66.49 ? N2 XEK 401 A 1 HETATM 32 N N3 XEK . . . C 2 -20.036 -4.866 -26.14 1 52.65 ? N3 XEK 401 A 1 HETATM 33 N N4 XEK . . . C 2 -16.472 -4.213 -25.484 1 45.36 ? N4 XEK 401 A 1 HETATM 34 O O1 XEK . . . C 2 -19.309 -4.85 -28.412 1 43.86 ? O1 XEK 401 A 1 HETATM 35 O O2 XEK . . . C 2 -21.775 -6.207 -32.469 1 79.47 ? O2 XEK 401 A 1 HETATM 36 O O3 XEK . . . C 2 -21.837 -3.69 -22.65 1 56.15 ? O3 XEK 401 A 1 HETATM 37 O O4 XEK . . . C 2 -26.431 -4.306 -21.673 1 72.48 ? O4 XEK 401 A 1 HETATM 38 CL CL1 XEK . . . C 2 -23.47 -1.361 -31.533 1 70.93 ? CL1 XEK 401 A 1 HETATM 39 CL CL2 XEK . . . C 2 -18.95 -5.14 -35.041 1 94.22 ? CL2 XEK 401 A 1 HETATM 40 H H1 XEK . . . C 2 -22.683 -2.301 -28.987 1 64.37 ? H1 XEK 401 A 1 HETATM 41 H H2 XEK . . . C 2 -20.079 -7.171 -31.838 1 97.7 ? H2 XEK 401 A 1 HETATM 42 H H3 XEK . . . C 2 -19.815 -5.661 -32.727 1 97.7 ? H3 XEK 401 A 1 HETATM 43 H H4 XEK . . . C 2 -21.168 -9.139 -33.224 1 97.63 ? H4 XEK 401 A 1 HETATM 44 H H5 XEK . . . C 2 -20.874 -10.43 -35.31 1 93.8 ? H5 XEK 401 A 1 HETATM 45 H H6 XEK . . . C 2 -19.739 -9.416 -37.259 1 95.52 ? H6 XEK 401 A 1 HETATM 46 H H7 XEK . . . C 2 -18.899 -7.09 -37.122 1 97.78 ? H7 XEK 401 A 1 HETATM 47 H H8 XEK . . . C 2 -21.303 -6.255 -29.855 1 77.24 ? H8 XEK 401 A 1 HETATM 48 H H13 XEK . . . C 2 -26.986 -5.278 -25.339 1 87.39 ? H13 XEK 401 A 1 HETATM 49 H H14 XEK . . . C 2 -27.633 -4.13 -24.152 1 87.39 ? H14 XEK 401 A 1 HETATM 50 H H12 XEK . . . C 2 -27.349 -5.818 -23.689 1 87.39 ? H12 XEK 401 A 1 HETATM 51 H H16 XEK . . . C 2 -18.896 -7.226 -25.343 1 57.19 ? H16 XEK 401 A 1 HETATM 52 H H18 XEK . . . C 2 -14.97 -5.545 -24.857 1 59.44 ? H18 XEK 401 A 1 HETATM 53 H H9 XEK . . . C 2 -23.631 -4.12 -27.145 1 69.71 ? H9 XEK 401 A 1 HETATM 54 H H11 XEK . . . C 2 -24.889 -4.955 -25.818 1 73.08 ? H11 XEK 401 A 1 HETATM 55 H H15 XEK . . . C 2 -20.702 -4.9 -24.151 1 63.72 ? H15 XEK 401 A 1 HETATM 56 H H17 XEK . . . C 2 -16.498 -7.485 -24.738 1 62.11 ? H17 XEK 401 A 1 HETATM 57 H H19 XEK . . . C 2 -18.121 -3.074 -26.101 1 58.52 ? H19 XEK 401 A 1 HETATM 58 H H10 XEK . . . C 2 -23.955 -3.768 -21.258 1 68.97 ? H10 XEK 401 A 1 # _model_server_stats.io_time_ms 54 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 485 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 58 #