data_8DPJ # _model_server_result.job_id GhPnfQWj8xSrMAX7ALs7Ug _model_server_result.datetime_utc '2024-11-28 00:52:56' _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 8dpj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":204}' # _entry.id 8DPJ # _exptl.entry_id 8DPJ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 434.369 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (2P)-5-hydroxy-N-[2-(2-methoxypyridin-4-yl)ethyl]-6-oxo-2-[3-(trifluoromethyl)phenyl]-1,6-dihydropyrimidine-4-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 8DPJ _cell.length_a 89.598 _cell.length_b 89.598 _cell.length_c 134.158 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8DPJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 97 _symmetry.space_group_name_Hall 'I 4 2' _symmetry.space_group_name_H-M 'I 4 2 2' # _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,H _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 4 _struct_asym.id E _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 NE2 HIS 61 A HIS 41 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.437 ? metalc ? metalc2 A OE1 GLU 81 A GLU 80 1_555 C MN MN . A MN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.613 ? metalc ? metalc3 A OD2 ASP 109 A ASP 108 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? metalc ? metalc4 A OD1 ASP 109 A ASP 108 1_555 C MN MN . A MN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.146 ? metalc ? metalc5 A OE2 GLU 120 A GLU 119 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.272 ? metalc ? metalc6 A O ILE 121 A ILE 120 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.116 ? metalc ? metalc7 B MN MN . A MN 201 1_555 E O13 SE9 . A SE9 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.374 ? metalc ? metalc8 B MN MN . A MN 201 1_555 E O15 SE9 . A SE9 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.948 ? metalc ? metalc9 C MN MN . A MN 202 1_555 E O10 SE9 . A SE9 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.672 ? metalc ? metalc10 C MN MN . A MN 202 1_555 E O13 SE9 . A SE9 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.34 ? # _chem_comp.formula 'C20 H17 F3 N4 O4' _chem_comp.formula_weight 434.369 _chem_comp.id SE9 _chem_comp.mon_nstd_flag . _chem_comp.name (2P)-5-hydroxy-N-[2-(2-methoxypyridin-4-yl)ethyl]-6-oxo-2-[3-(trifluoromethyl)phenyl]-1,6-dihydropyrimidine-4-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 C01 O02 SE9 sing 386 n n O02 C03 SE9 sing 387 n n C03 N31 SE9 doub 388 n y C03 C04 SE9 sing 389 n y N31 C30 SE9 sing 390 n y C04 C05 SE9 doub 391 n y C30 C29 SE9 doub 392 n y C05 C29 SE9 sing 393 n y C05 C06 SE9 sing 394 n n C06 C07 SE9 sing 395 n n F28 C25 SE9 sing 396 n n C07 N08 SE9 sing 397 n n C22 C21 SE9 doub 398 n y C22 C23 SE9 sing 399 n y C21 C20 SE9 sing 400 n y F26 C25 SE9 sing 401 n n N08 C09 SE9 sing 402 n n C25 C23 SE9 sing 403 n n C25 F27 SE9 sing 404 n n C23 C24 SE9 doub 405 n y C20 C19 SE9 doub 406 n y C24 C19 SE9 sing 407 n y C19 C17 SE9 sing 408 n n N18 C17 SE9 doub 409 n n N18 C11 SE9 sing 410 n n C09 O10 SE9 doub 411 n n C09 C11 SE9 sing 412 n n C17 N16 SE9 sing 413 n n C11 C12 SE9 doub 414 n n N16 C14 SE9 sing 415 n n C12 C14 SE9 sing 416 n n C12 O13 SE9 sing 417 n n C14 O15 SE9 doub 418 n n C01 H1 SE9 sing 419 n n C01 H2 SE9 sing 420 n n C01 H3 SE9 sing 421 n n C04 H4 SE9 sing 422 n n C06 H5 SE9 sing 423 n n C06 H6 SE9 sing 424 n n C07 H7 SE9 sing 425 n n C07 H8 SE9 sing 426 n n C20 H9 SE9 sing 427 n n C21 H10 SE9 sing 428 n n C22 H11 SE9 sing 429 n n C24 H12 SE9 sing 430 n n C29 H13 SE9 sing 431 n n C30 H14 SE9 sing 432 n n N08 H15 SE9 sing 433 n n N16 H16 SE9 sing 434 n n O13 H17 SE9 sing 435 n n # _atom_sites.entry_id 8DPJ _atom_sites.fract_transf_matrix[1][1] 0.011161 _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] 0.011161 _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] 0.007454 _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 MN A 1 201 201 MN MN . C 2 MN A 1 202 202 MN MN . D 3 QQ4 A 1 203 203 QQ4 PVP . E 4 SE9 A 1 204 204 SE9 007 . F 5 SO4 A 1 205 1 SO4 SO4 . G 5 SO4 A 1 206 2 SO4 SO4 . H 6 HOH A 1 301 1 HOH HOH . H 6 HOH A 2 302 2 HOH HOH . H 6 HOH A 3 303 3 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 C11 SE9 . . . E 4 40.317 14.364 16.619 1 110.07 ? C11 SE9 204 A 1 HETATM 2 C C12 SE9 . . . E 4 40.112 15.172 17.854 1 94.39 ? C12 SE9 204 A 1 HETATM 3 C C01 SE9 . . . E 4 40.768 15.122 11.27 1 111.33 ? C01 SE9 204 A 1 HETATM 4 C C03 SE9 . . . E 4 40.188 12.865 10.907 1 126.46 ? C03 SE9 204 A 1 HETATM 5 C C04 SE9 . . . E 4 41.005 12.587 11.994 1 129.4 ? C04 SE9 204 A 1 HETATM 6 C C05 SE9 . . . E 4 41.179 11.292 12.446 1 130.95 ? C05 SE9 204 A 1 HETATM 7 C C06 SE9 . . . E 4 42.085 10.994 13.651 1 132.78 ? C06 SE9 204 A 1 HETATM 8 C C07 SE9 . . . E 4 42.649 12.254 14.335 1 128.22 ? C07 SE9 204 A 1 HETATM 9 C C09 SE9 . . . E 4 41.673 13.91 16.109 1 114.07 ? C09 SE9 204 A 1 HETATM 10 C C14 SE9 . . . E 4 38.718 15.548 18.236 1 90.95 ? C14 SE9 204 A 1 HETATM 11 C C17 SE9 . . . E 4 37.824 14.335 16.198 1 114.08 ? C17 SE9 204 A 1 HETATM 12 C C19 SE9 . . . E 4 36.656 13.911 15.324 1 132.28 ? C19 SE9 204 A 1 HETATM 13 C C20 SE9 . . . E 4 36.838 13.761 13.956 1 124.29 ? C20 SE9 204 A 1 HETATM 14 C C21 SE9 . . . E 4 35.768 13.383 13.161 1 119.26 ? C21 SE9 204 A 1 HETATM 15 C C22 SE9 . . . E 4 34.522 13.169 13.736 1 130.87 ? C22 SE9 204 A 1 HETATM 16 C C23 SE9 . . . E 4 34.345 13.329 15.105 1 146.06 ? C23 SE9 204 A 1 HETATM 17 C C24 SE9 . . . E 4 35.415 13.707 15.897 1 143.75 ? C24 SE9 204 A 1 HETATM 18 C C25 SE9 . . . E 4 32.977 13.099 15.758 1 149.03 ? C25 SE9 204 A 1 HETATM 19 C C29 SE9 . . . E 4 40.487 10.298 11.756 1 131.2 ? C29 SE9 204 A 1 HETATM 20 C C30 SE9 . . . E 4 39.679 10.632 10.673 1 133.1 ? C30 SE9 204 A 1 HETATM 21 F F26 SE9 . . . E 4 32.145 12.481 14.859 1 140.83 ? F26 SE9 204 A 1 HETATM 22 F F27 SE9 . . . E 4 32.45 14.305 16.138 1 142.73 ? F27 SE9 204 A 1 HETATM 23 F F28 SE9 . . . E 4 33.123 12.32 16.877 1 149.15 ? F28 SE9 204 A 1 HETATM 24 N N08 SE9 . . . E 4 41.574 12.911 15.055 1 127.3 ? N08 SE9 204 A 1 HETATM 25 N N16 SE9 . . . E 4 37.593 15.139 17.421 1 109.14 ? N16 SE9 204 A 1 HETATM 26 N N18 SE9 . . . E 4 39.194 13.958 15.807 1 115.78 ? N18 SE9 204 A 1 HETATM 27 N N31 SE9 . . . E 4 39.547 11.89 10.276 1 125.81 ? N31 SE9 204 A 1 HETATM 28 O O02 SE9 . . . E 4 40.049 14.197 10.495 1 118.82 ? O02 SE9 204 A 1 HETATM 29 O O10 SE9 . . . E 4 42.693 14.354 16.531 1 92.28 ? O10 SE9 204 A 1 HETATM 30 O O13 SE9 . . . E 4 41.205 15.568 18.634 1 94.15 ? O13 SE9 204 A 1 HETATM 31 O O15 SE9 . . . E 4 38.504 16.19 19.2 1 80.32 ? O15 SE9 204 A 1 # _model_server_stats.io_time_ms 59 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 311 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 31 #