data_8DVO # _model_server_result.job_id YNVyL74-exWx07NBD0slbA _model_server_result.datetime_utc '2025-01-10 17:52:27' _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 8dvo # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":203}' # _entry.id 8DVO # _exptl.entry_id 8DVO _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 463.407 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 5-hydroxy-N-[2-(4-hydroxy-3-methoxyphenyl)ethyl]-6-oxo-2-{[2-(trifluoromethyl)phenyl]methyl}-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 8DVO _cell.length_a 90.067 _cell.length_b 90.067 _cell.length_c 134.09 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8DVO _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 3 _struct_asym.id D _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 ? ? ? ? ? ? ? ? ? ? ? ? 2.274 ? metalc ? metalc2 A OE2 GLU 81 A GLU 80 1_555 C MN MN . A MN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.168 ? metalc ? metalc3 A OD2 ASP 109 A ASP 108 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.112 ? metalc ? metalc4 A OD1 ASP 109 A ASP 108 1_555 C MN MN . A MN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.25 ? metalc ? metalc5 A OE2 GLU 120 A GLU 119 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? metalc ? metalc6 A O ILE 121 A ILE 120 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.262 ? metalc ? metalc7 B MN MN . A MN 201 1_555 D O01 U0I . A U0I 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? metalc ? metalc8 B MN MN . A MN 201 1_555 D O33 U0I . A U0I 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.166 ? metalc ? metalc9 C MN MN . A MN 202 1_555 D O33 U0I . A U0I 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.115 ? metalc ? metalc10 C MN MN . A MN 202 1_555 D O31 U0I . A U0I 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.952 ? metalc ? metalc11 C MN MN . A MN 202 1_555 H O HOH . A HOH 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.107 ? # _chem_comp.formula 'C22 H20 F3 N3 O5' _chem_comp.formula_weight 463.407 _chem_comp.id U0I _chem_comp.mon_nstd_flag . _chem_comp.name 5-hydroxy-N-[2-(4-hydroxy-3-methoxyphenyl)ethyl]-6-oxo-2-{[2-(trifluoromethyl)phenyl]methyl}-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 O01 C02 U0I doub 471 n n O33 C32 U0I sing 472 n n C02 C32 U0I sing 473 n n C02 N03 U0I sing 474 n n F11 C08 U0I sing 475 n n F09 C08 U0I sing 476 n n C32 C17 U0I doub 477 n n N03 C04 U0I sing 478 n n F10 C08 U0I sing 479 n n C08 C07 U0I sing 480 n n C17 C18 U0I sing 481 n n C17 N16 U0I sing 482 n n O31 C18 U0I doub 483 n n C04 N16 U0I doub 484 n n C04 C05 U0I sing 485 n n C18 N19 U0I sing 486 n n C05 C06 U0I sing 487 n n C07 C06 U0I doub 488 n y C07 C12 U0I sing 489 n y C06 C15 U0I sing 490 n y N19 C20 U0I sing 491 n n C12 C13 U0I doub 492 n y C20 C21 U0I sing 493 n n C15 C14 U0I doub 494 n y C23 C24 U0I doub 495 n y C23 C22 U0I sing 496 n y C13 C14 U0I sing 497 n y C24 C25 U0I sing 498 n y C21 C22 U0I sing 499 n n C22 C30 U0I doub 500 n y C25 O26 U0I sing 501 n n C25 C27 U0I doub 502 n y C30 C27 U0I sing 503 n y C27 O28 U0I sing 504 n n O28 C29 U0I sing 505 n n C05 H1 U0I sing 506 n n C05 H2 U0I sing 507 n n C12 H3 U0I sing 508 n n C13 H4 U0I sing 509 n n C14 H5 U0I sing 510 n n C15 H6 U0I sing 511 n n C20 H7 U0I sing 512 n n C20 H8 U0I sing 513 n n C21 H9 U0I sing 514 n n C21 H10 U0I sing 515 n n C23 H11 U0I sing 516 n n C24 H12 U0I sing 517 n n C29 H13 U0I sing 518 n n C29 H14 U0I sing 519 n n C29 H15 U0I sing 520 n n C30 H16 U0I sing 521 n n N19 H18 U0I sing 522 n n O26 H19 U0I sing 523 n n O33 H20 U0I sing 524 n n N03 H17 U0I sing 525 n n # _atom_sites.entry_id 8DVO _atom_sites.fract_transf_matrix[1][1] 0.011103 _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] 0.011103 _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] 0.007458 _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 U0I A 1 203 203 U0I 018 . E 4 QQ4 A 1 204 401 QQ4 PVP . F 5 SO4 A 1 205 1 SO4 SO4 . G 5 SO4 A 1 206 2 SO4 SO4 . H 6 HOH A 1 301 16 HOH HOH . H 6 HOH A 2 302 28 HOH HOH . H 6 HOH A 3 303 1 HOH HOH . H 6 HOH A 4 304 3 HOH HOH . H 6 HOH A 5 305 4 HOH HOH . H 6 HOH A 6 306 31 HOH HOH . H 6 HOH A 7 307 26 HOH HOH . H 6 HOH A 8 308 6 HOH HOH . H 6 HOH A 9 309 32 HOH HOH . H 6 HOH A 10 310 2 HOH HOH . H 6 HOH A 11 311 24 HOH HOH . H 6 HOH A 12 312 17 HOH HOH . H 6 HOH A 13 313 35 HOH HOH . H 6 HOH A 14 314 29 HOH HOH . H 6 HOH A 15 315 37 HOH HOH . H 6 HOH A 16 316 36 HOH HOH . H 6 HOH A 17 317 30 HOH HOH . H 6 HOH A 18 318 14 HOH HOH . H 6 HOH A 19 319 21 HOH HOH . H 6 HOH A 20 320 20 HOH HOH . H 6 HOH A 21 321 19 HOH HOH . H 6 HOH A 22 322 25 HOH HOH . H 6 HOH A 23 323 34 HOH HOH . H 6 HOH A 24 324 8 HOH HOH . H 6 HOH A 25 325 9 HOH HOH . H 6 HOH A 26 326 7 HOH HOH . H 6 HOH A 27 327 27 HOH HOH . H 6 HOH A 28 328 15 HOH HOH . H 6 HOH A 29 329 18 HOH HOH . H 6 HOH A 30 330 11 HOH HOH . H 6 HOH A 31 331 12 HOH HOH . H 6 HOH A 32 332 33 HOH HOH . H 6 HOH A 33 333 10 HOH HOH . H 6 HOH A 34 334 22 HOH HOH . H 6 HOH A 35 335 23 HOH HOH . H 6 HOH A 36 336 13 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 C02 U0I . . . D 3 15.545 39.191 -18.184 1 92.57 ? C02 U0I 203 A 1 HETATM 2 C C04 U0I . . . D 3 13.627 38.861 -16.542 1 105.15 ? C04 U0I 203 A 1 HETATM 3 C C05 U0I . . . D 3 12.516 37.962 -15.907 1 114.16 ? C05 U0I 203 A 1 HETATM 4 C C06 U0I . . . D 3 11.594 38.911 -15.081 1 121.86 ? C06 U0I 203 A 1 HETATM 5 C C07 U0I . . . D 3 10.667 39.792 -15.703 1 128.46 ? C07 U0I 203 A 1 HETATM 6 C C08 U0I . . . D 3 10.485 39.892 -17.224 1 130.93 ? C08 U0I 203 A 1 HETATM 7 C C12 U0I . . . D 3 9.879 40.624 -14.917 1 129.41 ? C12 U0I 203 A 1 HETATM 8 C C13 U0I . . . D 3 9.988 40.598 -13.528 1 126.13 ? C13 U0I 203 A 1 HETATM 9 C C14 U0I . . . D 3 10.903 39.729 -12.916 1 123.66 ? C14 U0I 203 A 1 HETATM 10 C C15 U0I . . . D 3 11.701 38.893 -13.7 1 119.83 ? C15 U0I 203 A 1 HETATM 11 C C17 U0I . . . D 3 14.79 41.138 -16.637 1 106.32 ? C17 U0I 203 A 1 HETATM 12 C C18 U0I . . . D 3 14.946 42.587 -16.107 1 103.97 ? C18 U0I 203 A 1 HETATM 13 C C20 U0I . . . D 3 14.313 44.382 -14.419 1 115.28 ? C20 U0I 203 A 1 HETATM 14 C C21 U0I . . . D 3 15.226 44.232 -13.169 1 118.12 ? C21 U0I 203 A 1 HETATM 15 C C22 U0I . . . D 3 15.501 42.715 -12.913 1 116.11 ? C22 U0I 203 A 1 HETATM 16 C C23 U0I . . . D 3 16.578 42.102 -13.534 1 115.87 ? C23 U0I 203 A 1 HETATM 17 C C24 U0I . . . D 3 16.827 40.746 -13.344 1 113.83 ? C24 U0I 203 A 1 HETATM 18 C C25 U0I . . . D 3 15.995 40.017 -12.521 1 111.74 ? C25 U0I 203 A 1 HETATM 19 C C27 U0I . . . D 3 14.913 40.615 -11.89 1 104.18 ? C27 U0I 203 A 1 HETATM 20 C C29 U0I . . . D 3 13.723 40.535 -9.852 1 101.75 ? C29 U0I 203 A 1 HETATM 21 C C30 U0I . . . D 3 14.662 41.972 -12.09 1 110.79 ? C30 U0I 203 A 1 HETATM 22 C C32 U0I . . . D 3 15.699 40.611 -17.703 1 91.19 ? C32 U0I 203 A 1 HETATM 23 F F09 U0I . . . D 3 11.513 40.623 -17.751 1 127.56 ? F09 U0I 203 A 1 HETATM 24 F F10 U0I . . . D 3 9.311 40.548 -17.46 1 133.79 ? F10 U0I 203 A 1 HETATM 25 F F11 U0I . . . D 3 10.422 38.67 -17.826 1 127.43 ? F11 U0I 203 A 1 HETATM 26 N N03 U0I . . . D 3 14.515 38.332 -17.604 1 98.66 ? N03 U0I 203 A 1 HETATM 27 N N16 U0I . . . D 3 13.776 40.274 -16.055 1 111.52 ? N16 U0I 203 A 1 HETATM 28 N N19 U0I . . . D 3 14.128 43.027 -14.983 1 108.68 ? N19 U0I 203 A 1 HETATM 29 O O01 U0I . . . D 3 16.254 38.767 -19.033 1 76.13 ? O01 U0I 203 A 1 HETATM 30 O O26 U0I . . . D 3 16.273 38.658 -12.355 1 103.79 ? O26 U0I 203 A 1 HETATM 31 O O28 U0I . . . D 3 14.063 39.866 -11.05 1 104.62 ? O28 U0I 203 A 1 HETATM 32 O O31 U0I . . . D 3 15.768 43.313 -16.558 1 97.72 ? O31 U0I 203 A 1 HETATM 33 O O33 U0I . . . D 3 16.691 41.44 -18.254 1 94.28 ? O33 U0I 203 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 32 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 326 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 33 #