data_5WIL # _model_server_result.job_id Qh_1BeKU5A_6vAwQIKAszQ _model_server_result.datetime_utc '2024-11-28 07:34:01' _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 5wil # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":901}' # _entry.id 5WIL # _exptl.entry_id 5WIL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 362.422 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 5-(3-fluorophenyl)-N-[(3S)-3-piperidyl]-3-ureido-thiophene-2-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 5WIL _cell.length_a 57.618 _cell.length_b 60.674 _cell.length_c 90.451 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5WIL _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C17 H19 F N4 O2 S' _chem_comp.formula_weight 362.422 _chem_comp.id YDJ _chem_comp.mon_nstd_flag . _chem_comp.name 5-(3-fluorophenyl)-N-[(3S)-3-piperidyl]-3-ureido-thiophene-2-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 C1 C2 YDJ sing 376 n y C1 C6 YDJ doub 377 n y C2 C3 YDJ doub 378 n y C3 C4 YDJ sing 379 n y C3 C7 YDJ sing 380 n y C4 C5 YDJ doub 381 n y C5 C6 YDJ sing 382 n y C5 F1 YDJ sing 383 n n C7 C8 YDJ doub 384 n y C7 S1 YDJ sing 385 n y C8 C9 YDJ sing 386 n y C9 C10 YDJ doub 387 n y C9 N3 YDJ sing 388 n n C10 S1 YDJ sing 389 n y C10 C11 YDJ sing 390 n n C11 O1 YDJ doub 391 n n C11 N1 YDJ sing 392 n n N1 C12 YDJ sing 393 n n C12 C13 YDJ sing 394 n n C12 C16 YDJ sing 395 n n C13 C14 YDJ sing 396 n n C14 C15 YDJ sing 397 n n C15 N2 YDJ sing 398 n n N2 C16 YDJ sing 399 n n N3 C17 YDJ sing 400 n n C17 O2 YDJ doub 401 n n C17 N4 YDJ sing 402 n n C1 H1 YDJ sing 403 n n C2 H2 YDJ sing 404 n n C6 H6 YDJ sing 405 n n C4 H4 YDJ sing 406 n n C8 H8 YDJ sing 407 n n N3 H3 YDJ sing 408 n n N1 HA YDJ sing 409 n n C12 H12 YDJ sing 410 n n C13 H131 YDJ sing 411 n n C13 H132 YDJ sing 412 n n C16 H161 YDJ sing 413 n n C16 H162 YDJ sing 414 n n C14 H141 YDJ sing 415 n n C14 H142 YDJ sing 416 n n C15 H151 YDJ sing 417 n n C15 H152 YDJ sing 418 n n N2 HB YDJ sing 419 n n N4 H41N YDJ sing 420 n n N4 H42N YDJ sing 421 n n # _atom_sites.entry_id 5WIL _atom_sites.fract_transf_matrix[1][1] 0.017356 _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] 0.016482 _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] 0.011056 _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 YDJ A 1 901 1 YDJ LIG . C 3 HOH A 1 1001 89 HOH HOH . C 3 HOH A 2 1002 83 HOH HOH . C 3 HOH A 3 1003 9 HOH HOH . C 3 HOH A 4 1004 16 HOH HOH . C 3 HOH A 5 1005 21 HOH HOH . C 3 HOH A 6 1006 26 HOH HOH . C 3 HOH A 7 1007 39 HOH HOH . C 3 HOH A 8 1008 24 HOH HOH . C 3 HOH A 9 1009 70 HOH HOH . C 3 HOH A 10 1010 33 HOH HOH . C 3 HOH A 11 1011 7 HOH HOH . C 3 HOH A 12 1012 25 HOH HOH . C 3 HOH A 13 1013 86 HOH HOH . C 3 HOH A 14 1014 95 HOH HOH . C 3 HOH A 15 1015 77 HOH HOH . C 3 HOH A 16 1016 30 HOH HOH . C 3 HOH A 17 1017 96 HOH HOH . C 3 HOH A 18 1018 53 HOH HOH . C 3 HOH A 19 1019 54 HOH HOH . C 3 HOH A 20 1020 72 HOH HOH . C 3 HOH A 21 1021 90 HOH HOH . C 3 HOH A 22 1022 75 HOH HOH . C 3 HOH A 23 1023 8 HOH HOH . C 3 HOH A 24 1024 40 HOH HOH . C 3 HOH A 25 1025 3 HOH HOH . C 3 HOH A 26 1026 6 HOH HOH . C 3 HOH A 27 1027 79 HOH HOH . C 3 HOH A 28 1028 45 HOH HOH . C 3 HOH A 29 1029 58 HOH HOH . C 3 HOH A 30 1030 43 HOH HOH . C 3 HOH A 31 1031 34 HOH HOH . C 3 HOH A 32 1032 12 HOH HOH . C 3 HOH A 33 1033 55 HOH HOH . C 3 HOH A 34 1034 14 HOH HOH . C 3 HOH A 35 1035 23 HOH HOH . C 3 HOH A 36 1036 18 HOH HOH . C 3 HOH A 37 1037 20 HOH HOH . C 3 HOH A 38 1038 38 HOH HOH . C 3 HOH A 39 1039 37 HOH HOH . C 3 HOH A 40 1040 46 HOH HOH . C 3 HOH A 41 1041 52 HOH HOH . C 3 HOH A 42 1042 91 HOH HOH . C 3 HOH A 43 1043 11 HOH HOH . C 3 HOH A 44 1044 2 HOH HOH . C 3 HOH A 45 1045 71 HOH HOH . C 3 HOH A 46 1046 5 HOH HOH . C 3 HOH A 47 1047 29 HOH HOH . C 3 HOH A 48 1048 84 HOH HOH . C 3 HOH A 49 1049 4 HOH HOH . C 3 HOH A 50 1050 13 HOH HOH . C 3 HOH A 51 1051 36 HOH HOH . C 3 HOH A 52 1052 73 HOH HOH . C 3 HOH A 53 1053 27 HOH HOH . C 3 HOH A 54 1054 22 HOH HOH . C 3 HOH A 55 1055 31 HOH HOH . C 3 HOH A 56 1056 51 HOH HOH . C 3 HOH A 57 1057 68 HOH HOH . C 3 HOH A 58 1058 64 HOH HOH . C 3 HOH A 59 1059 56 HOH HOH . C 3 HOH A 60 1060 10 HOH HOH . C 3 HOH A 61 1061 69 HOH HOH . C 3 HOH A 62 1062 17 HOH HOH . C 3 HOH A 63 1063 32 HOH HOH . C 3 HOH A 64 1064 57 HOH HOH . C 3 HOH A 65 1065 41 HOH HOH . C 3 HOH A 66 1066 1 HOH HOH . C 3 HOH A 67 1067 67 HOH HOH . C 3 HOH A 68 1068 61 HOH HOH . C 3 HOH A 69 1069 19 HOH HOH . C 3 HOH A 70 1070 42 HOH HOH . C 3 HOH A 71 1071 81 HOH HOH . C 3 HOH A 72 1072 35 HOH HOH . C 3 HOH A 73 1073 50 HOH HOH . C 3 HOH A 74 1074 44 HOH HOH . C 3 HOH A 75 1075 65 HOH HOH . C 3 HOH A 76 1076 59 HOH HOH . C 3 HOH A 77 1077 76 HOH HOH . C 3 HOH A 78 1078 15 HOH HOH . C 3 HOH A 79 1079 49 HOH HOH . C 3 HOH A 80 1080 60 HOH HOH . C 3 HOH A 81 1081 48 HOH HOH . C 3 HOH A 82 1082 87 HOH HOH . C 3 HOH A 83 1083 47 HOH HOH . C 3 HOH A 84 1084 88 HOH HOH . C 3 HOH A 85 1085 85 HOH HOH . C 3 HOH A 86 1086 94 HOH HOH . C 3 HOH A 87 1087 66 HOH HOH . C 3 HOH A 88 1088 63 HOH HOH . C 3 HOH A 89 1089 74 HOH HOH . C 3 HOH A 90 1090 62 HOH HOH . C 3 HOH A 91 1091 97 HOH HOH . C 3 HOH A 92 1092 92 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 YDJ . . . B 2 -1.993 -9.145 6.056 1 33.62 ? C1 YDJ 901 A 1 HETATM 2 C C2 YDJ . . . B 2 -2.169 -8.427 4.886 1 33.5 ? C2 YDJ 901 A 1 HETATM 3 C C3 YDJ . . . B 2 -3.188 -8.766 4.015 1 36.6 ? C3 YDJ 901 A 1 HETATM 4 C C4 YDJ . . . B 2 -3.984 -9.865 4.266 1 38.85 ? C4 YDJ 901 A 1 HETATM 5 C C5 YDJ . . . B 2 -3.797 -10.576 5.427 1 39.87 ? C5 YDJ 901 A 1 HETATM 6 C C6 YDJ . . . B 2 -2.808 -10.22 6.331 1 35.91 ? C6 YDJ 901 A 1 HETATM 7 F F1 YDJ . . . B 2 -4.63 -11.627 5.649 1 44.18 ? F1 YDJ 901 A 1 HETATM 8 C C7 YDJ . . . B 2 -3.378 -8.023 2.71 1 34.01 ? C7 YDJ 901 A 1 HETATM 9 C C8 YDJ . . . B 2 -2.291 -7.226 2.218 1 28.11 ? C8 YDJ 901 A 1 HETATM 10 C C9 YDJ . . . B 2 -2.732 -6.631 0.841 1 28.9 ? C9 YDJ 901 A 1 HETATM 11 C C10 YDJ . . . B 2 -4.073 -7.066 0.539 1 31.94 ? C10 YDJ 901 A 1 HETATM 12 S S1 YDJ . . . B 2 -4.59 -8.007 1.687 1 35.6 ? S1 YDJ 901 A 1 HETATM 13 C C11 YDJ . . . B 2 -4.663 -6.608 -0.783 1 32.11 ? C11 YDJ 901 A 1 HETATM 14 O O1 YDJ . . . B 2 -4.121 -5.796 -1.479 1 32.87 ? O1 YDJ 901 A 1 HETATM 15 N N1 YDJ . . . B 2 -5.849 -7.23 -1.222 1 34.57 ? N1 YDJ 901 A 1 HETATM 16 C C12 YDJ . . . B 2 -6.441 -6.906 -2.502 1 38.69 ? C12 YDJ 901 A 1 HETATM 17 C C13 YDJ . . . B 2 -7.533 -7.976 -2.696 1 37.52 ? C13 YDJ 901 A 1 HETATM 18 C C14 YDJ . . . B 2 -8.836 -7.507 -3.333 1 35.61 ? C14 YDJ 901 A 1 HETATM 19 C C15 YDJ . . . B 2 -8.931 -6.06 -3.776 1 35.79 ? C15 YDJ 901 A 1 HETATM 20 N N2 YDJ . . . B 2 -7.663 -5.407 -3.858 1 42.63 ? N2 YDJ 901 A 1 HETATM 21 C C16 YDJ . . . B 2 -7.042 -5.52 -2.574 1 42.85 ? C16 YDJ 901 A 1 HETATM 22 N N3 YDJ . . . B 2 -1.999 -5.762 -0.024 1 28.63 ? N3 YDJ 901 A 1 HETATM 23 C C17 YDJ . . . B 2 -0.688 -5.278 0.328 1 29.26 ? C17 YDJ 901 A 1 HETATM 24 O O2 YDJ . . . B 2 -0.162 -5.596 1.345 1 30.3 ? O2 YDJ 901 A 1 HETATM 25 N N4 YDJ . . . B 2 -0.048 -4.405 -0.629 1 30.14 ? N4 YDJ 901 A 1 HETATM 26 H H1 YDJ . . . B 2 -1.326 -8.9 6.656 1 39.94 ? H1 YDJ 901 A 1 HETATM 27 H H2 YDJ . . . B 2 -1.626 -7.695 4.703 1 39.8 ? H2 YDJ 901 A 1 HETATM 28 H H6 YDJ . . . B 2 -2.691 -10.709 7.114 1 42.68 ? H6 YDJ 901 A 1 HETATM 29 H H4 YDJ . . . B 2 -4.655 -10.107 3.669 1 46.22 ? H4 YDJ 901 A 1 HETATM 30 H H8 YDJ . . . B 2 -1.473 -7.093 2.638 1 33.33 ? H8 YDJ 901 A 1 HETATM 31 H H3 YDJ . . . B 2 -2.352 -5.515 -0.768 1 33.95 ? H3 YDJ 901 A 1 HETATM 32 H HA YDJ . . . B 2 -6.212 -7.837 -0.732 1 41.08 ? HA YDJ 901 A 1 HETATM 33 H H12 YDJ . . . B 2 -5.775 -7.001 -3.201 1 46.03 ? H12 YDJ 901 A 1 HETATM 34 H H131 YDJ . . . B 2 -7.166 -8.681 -3.252 1 44.62 ? H131 YDJ 901 A 1 HETATM 35 H H132 YDJ . . . B 2 -7.744 -8.349 -1.826 1 44.62 ? H132 YDJ 901 A 1 HETATM 36 H H161 YDJ . . . B 2 -6.344 -4.852 -2.484 1 51.02 ? H161 YDJ 901 A 1 HETATM 37 H H162 YDJ . . . B 2 -7.706 -5.411 -1.875 1 51.02 ? H162 YDJ 901 A 1 HETATM 38 H H141 YDJ . . . B 2 -9.548 -7.666 -2.694 1 42.33 ? H141 YDJ 901 A 1 HETATM 39 H H142 YDJ . . . B 2 -8.998 -8.063 -4.111 1 42.33 ? H142 YDJ 901 A 1 HETATM 40 H H151 YDJ . . . B 2 -9.486 -5.579 -3.142 1 42.55 ? H151 YDJ 901 A 1 HETATM 41 H H152 YDJ . . . B 2 -9.352 -6.031 -4.649 1 42.55 ? H152 YDJ 901 A 1 HETATM 42 H HB YDJ . . . B 2 -7.783 -4.548 -4.056 1 50.75 ? HB YDJ 901 A 1 HETATM 43 H H41N YDJ . . . B 2 0.736 -4.091 -0.468 1 35.77 ? H41N YDJ 901 A 1 HETATM 44 H H42N YDJ . . . B 2 -0.453 -4.196 -1.359 1 35.77 ? H42N YDJ 901 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 236 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 44 #