data_8DIP # _model_server_result.job_id Wm8qWS0w12kfJpUi_L7kxw _model_server_result.datetime_utc '2024-11-24 07:18:10' _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 8dip # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":204}' # _entry.id 8DIP # _exptl.entry_id 8DIP _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 8DIP _cell.length_a 89.316 _cell.length_b 89.316 _cell.length_c 134.121 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8DIP _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 _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 ? ? ? ? ? ? ? ? ? ? ? ? 2.371 ? metalc ? metalc2 A OE1 GLU 81 A GLU 80 1_555 C MN MN . A MN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.49 ? metalc ? metalc3 A OD2 ASP 109 A ASP 108 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? metalc ? metalc4 A OD1 ASP 109 A ASP 108 1_555 C MN MN . A MN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.182 ? metalc ? metalc5 A OE2 GLU 120 A GLU 119 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.192 ? metalc ? metalc6 A O ILE 121 A ILE 120 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.187 ? metalc ? metalc7 B MN MN . A MN 201 1_555 E O13 SE9 . A SE9 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.272 ? metalc ? metalc8 B MN MN . A MN 201 1_555 E O15 SE9 . A SE9 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? metalc ? metalc9 C MN MN . A MN 202 1_555 E O10 SE9 . A SE9 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.421 ? metalc ? metalc10 C MN MN . A MN 202 1_555 E O13 SE9 . A SE9 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.256 ? # _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 8DIP _atom_sites.fract_transf_matrix[1][1] 0.011196 _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] 0.011196 _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] 0.007456 _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 6 HOH A 1 301 2 HOH HOH . G 6 HOH A 2 302 8 HOH HOH . G 6 HOH A 3 303 29 HOH HOH . G 6 HOH A 4 304 5 HOH HOH . G 6 HOH A 5 305 6 HOH HOH . G 6 HOH A 6 306 17 HOH HOH . G 6 HOH A 7 307 25 HOH HOH . G 6 HOH A 8 308 26 HOH HOH . G 6 HOH A 9 309 13 HOH HOH . G 6 HOH A 10 310 3 HOH HOH . G 6 HOH A 11 311 1 HOH HOH . G 6 HOH A 12 312 21 HOH HOH . G 6 HOH A 13 313 30 HOH HOH . G 6 HOH A 14 314 9 HOH HOH . G 6 HOH A 15 315 10 HOH HOH . G 6 HOH A 16 316 11 HOH HOH . G 6 HOH A 17 317 27 HOH HOH . G 6 HOH A 18 318 23 HOH HOH . G 6 HOH A 19 319 22 HOH HOH . G 6 HOH A 20 320 32 HOH HOH . G 6 HOH A 21 321 24 HOH HOH . G 6 HOH A 22 322 31 HOH HOH . G 6 HOH A 23 323 4 HOH HOH . G 6 HOH A 24 324 28 HOH HOH . G 6 HOH A 25 325 18 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 4.656 30.403 16.754 1 109.92 ? C11 SE9 204 A 1 HETATM 2 C C12 SE9 . . . E 4 4.882 29.405 17.839 1 85.08 ? C12 SE9 204 A 1 HETATM 3 C C01 SE9 . . . E 4 5.725 31.698 9.862 1 110.41 ? C01 SE9 204 A 1 HETATM 4 C C03 SE9 . . . E 4 4.328 32.98 11.249 1 120.69 ? C03 SE9 204 A 1 HETATM 5 C C04 SE9 . . . E 4 3.284 32.879 12.157 1 115.06 ? C04 SE9 204 A 1 HETATM 6 C C05 SE9 . . . E 4 3.178 33.776 13.206 1 124.26 ? C05 SE9 204 A 1 HETATM 7 C C06 SE9 . . . E 4 2.035 33.678 14.216 1 128.15 ? C06 SE9 204 A 1 HETATM 8 C C07 SE9 . . . E 4 1.877 32.246 14.731 1 122.43 ? C07 SE9 204 A 1 HETATM 9 C C09 SE9 . . . E 4 3.259 30.734 16.239 1 109 ? C09 SE9 204 A 1 HETATM 10 C C14 SE9 . . . E 4 6.274 29.127 18.302 1 90.01 ? C14 SE9 204 A 1 HETATM 11 C C17 SE9 . . . E 4 7.164 30.809 16.623 1 111.28 ? C17 SE9 204 A 1 HETATM 12 C C19 SE9 . . . E 4 8.332 31.551 15.983 1 133.68 ? C19 SE9 204 A 1 HETATM 13 C C20 SE9 . . . E 4 9.404 30.854 15.447 1 131.43 ? C20 SE9 204 A 1 HETATM 14 C C21 SE9 . . . E 4 10.453 31.548 14.869 1 133.57 ? C21 SE9 204 A 1 HETATM 15 C C22 SE9 . . . E 4 10.428 32.934 14.823 1 146.25 ? C22 SE9 204 A 1 HETATM 16 C C23 SE9 . . . E 4 9.353 33.626 15.357 1 153.65 ? C23 SE9 204 A 1 HETATM 17 C C24 SE9 . . . E 4 8.305 32.933 15.936 1 143.81 ? C24 SE9 204 A 1 HETATM 18 C C25 SE9 . . . E 4 9.31 35.152 15.314 1 157.19 ? C25 SE9 204 A 1 HETATM 19 C C29 SE9 . . . E 4 4.156 34.759 13.299 1 123.06 ? C29 SE9 204 A 1 HETATM 20 C C30 SE9 . . . E 4 5.176 34.808 12.36 1 132.03 ? C30 SE9 204 A 1 HETATM 21 F F26 SE9 . . . E 4 10.559 35.641 15.055 1 149.01 ? F26 SE9 204 A 1 HETATM 22 F F27 SE9 . . . E 4 8.876 35.623 16.52 1 163.77 ? F27 SE9 204 A 1 HETATM 23 F F28 SE9 . . . E 4 8.447 35.554 14.335 1 151.19 ? F28 SE9 204 A 1 HETATM 24 N N08 SE9 . . . E 4 3.143 31.826 15.294 1 116.33 ? N08 SE9 204 A 1 HETATM 25 N N16 SE9 . . . E 4 7.4 29.821 17.704 1 102.13 ? N16 SE9 204 A 1 HETATM 26 N N18 SE9 . . . E 4 5.784 31.093 16.161 1 112.86 ? N18 SE9 204 A 1 HETATM 27 N N31 SE9 . . . E 4 5.239 33.932 11.372 1 127.41 ? N31 SE9 204 A 1 HETATM 28 O O02 SE9 . . . E 4 4.416 32.065 10.194 1 110.81 ? O02 SE9 204 A 1 HETATM 29 O O10 SE9 . . . E 4 2.306 30.122 16.59 1 96.26 ? O10 SE9 204 A 1 HETATM 30 O O13 SE9 . . . E 4 3.798 28.735 18.418 1 85.35 ? O13 SE9 204 A 1 HETATM 31 O O15 SE9 . . . E 4 6.473 28.337 19.159 1 63.02 ? O15 SE9 204 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 1 _model_server_stats.query_time_ms 221 _model_server_stats.encode_time_ms 13 _model_server_stats.element_count 31 #