data_8PYL # _model_server_result.job_id xUjoo24SMdz7rZnFxLs7UA _model_server_result.datetime_utc '2024-10-19 07:36:35' _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 8pyl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1301}' # _entry.id 8PYL # _exptl.entry_id 8PYL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 420.408 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (5S)-5-methyl-1-(1H-pyrrolo[2,3-b]pyridin-4-ylmethyl)-3-[4-(trifluoromethylsulfanyl)phenyl]imidazolidine-2,4-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 8PYL _cell.length_a 68.502 _cell.length_b 68.502 _cell.length_c 140.07 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8PYL _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _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,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 B _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 SG CYS 87 AAA CYS 1059 1_555 D CD CD . AAA CD 1303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.185 ? metalc ? metalc2 A NE2 HIS 88 AAA HIS 1060 1_555 C NI NI . AAA NI 1302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? metalc ? metalc3 A NE2 HIS 89 AAA HIS 1061 1_555 C NI NI . AAA NI 1302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.135 ? metalc ? metalc4 A OD1 ASP 149 AAA ASP 1121 1_555 D CD CD . AAA CD 1303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.601 ? metalc ? metalc5 C NI NI . AAA NI 1302 1_555 E O HOH . AAA HOH 1407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.916 ? metalc ? metalc6 C NI NI . AAA NI 1302 1_555 E O HOH . AAA HOH 1409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.332 ? metalc ? metalc7 C NI NI . AAA NI 1302 1_555 E O HOH . AAA HOH 1418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.164 ? # _chem_comp.formula 'C19 H15 F3 N4 O2 S' _chem_comp.formula_weight 420.408 _chem_comp.id IE0 _chem_comp.mon_nstd_flag . _chem_comp.name (5S)-5-methyl-1-(1H-pyrrolo[2,3-b]pyridin-4-ylmethyl)-3-[4-(trifluoromethylsulfanyl)phenyl]imidazolidine-2,4-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 C29 C12 IE0 sing 152 n n C9 C8 IE0 doub 153 n y C9 C1 IE0 sing 154 n y C8 N7 IE0 sing 155 n y C10 N11 IE0 sing 156 n n C10 C2 IE0 sing 157 n n C12 N11 IE0 sing 158 n n C12 C13 IE0 sing 159 n n C1 C2 IE0 sing 160 n y C1 C6 IE0 doub 161 n y N11 C15 IE0 sing 162 n n N7 C6 IE0 sing 163 n y C2 C3 IE0 doub 164 n y C13 O27 IE0 doub 165 n n C13 N14 IE0 sing 166 n n C15 N14 IE0 sing 167 n n C15 O28 IE0 doub 168 n n C6 N5 IE0 sing 169 n y N14 C16 IE0 sing 170 n n C17 C16 IE0 doub 171 n y C17 C18 IE0 sing 172 n y C3 C4 IE0 sing 173 n y C16 C21 IE0 sing 174 n y N5 C4 IE0 doub 175 n y C18 C19 IE0 doub 176 n y F26 C23 IE0 sing 177 n n C21 C20 IE0 doub 178 n y C19 C20 IE0 sing 179 n y C19 S22 IE0 sing 180 n n C23 F24 IE0 sing 181 n n C23 S22 IE0 sing 182 n n C23 F25 IE0 sing 183 n n C3 H1 IE0 sing 184 n n C8 H2 IE0 sing 185 n n C9 H3 IE0 sing 186 n n C10 H4 IE0 sing 187 n n C10 H5 IE0 sing 188 n n C12 H6 IE0 sing 189 n n C20 H7 IE0 sing 190 n n C21 H8 IE0 sing 191 n n C18 H9 IE0 sing 192 n n C17 H10 IE0 sing 193 n n C29 H11 IE0 sing 194 n n C29 H12 IE0 sing 195 n n C29 H13 IE0 sing 196 n n C4 H14 IE0 sing 197 n n N7 H15 IE0 sing 198 n n # _atom_sites.entry_id 8PYL _atom_sites.fract_transf_matrix[1][1] 0.014598 _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] 0.014598 _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] 0.007139 _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 IE0 AAA 1 1301 3000 IE0 INH . C 3 NI AAA 1 1302 1 NI NI . D 4 CD AAA 1 1303 1 CD CD . E 5 HOH AAA 1 1401 5 HOH HOH . E 5 HOH AAA 2 1402 4 HOH HOH . E 5 HOH AAA 3 1403 14 HOH HOH . E 5 HOH AAA 4 1404 11 HOH HOH . E 5 HOH AAA 5 1405 1 HOH HOH . E 5 HOH AAA 6 1406 6 HOH HOH . E 5 HOH AAA 7 1407 17 HOH HOH . E 5 HOH AAA 8 1408 12 HOH HOH . E 5 HOH AAA 9 1409 16 HOH HOH . E 5 HOH AAA 10 1410 9 HOH HOH . E 5 HOH AAA 11 1411 10 HOH HOH . E 5 HOH AAA 12 1412 13 HOH HOH . E 5 HOH AAA 13 1413 19 HOH HOH . E 5 HOH AAA 14 1414 23 HOH HOH . E 5 HOH AAA 15 1415 22 HOH HOH . E 5 HOH AAA 16 1416 20 HOH HOH . E 5 HOH AAA 17 1417 7 HOH HOH . E 5 HOH AAA 18 1418 15 HOH HOH . E 5 HOH AAA 19 1419 21 HOH HOH . E 5 HOH AAA 20 1420 3 HOH HOH . E 5 HOH AAA 21 1421 8 HOH HOH . E 5 HOH AAA 22 1422 18 HOH HOH . E 5 HOH AAA 23 1423 2 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 IE0 . . . B 2 41.206 -1.971 -17.521 1 64.77 0 C1 IE0 1301 AAA 1 HETATM 2 C C2 IE0 . . . B 2 40.55 -0.809 -17.141 1 60.58 0 C2 IE0 1301 AAA 1 HETATM 3 C C3 IE0 . . . B 2 40.679 -0.413 -15.832 1 61.17 0 C3 IE0 1301 AAA 1 HETATM 4 C C8 IE0 . . . B 2 42.043 -3.709 -18.508 1 69.68 0 C8 IE0 1301 AAA 1 HETATM 5 C C9 IE0 . . . B 2 41.285 -2.624 -18.682 1 67.91 0 C9 IE0 1301 AAA 1 HETATM 6 C C10 IE0 . . . B 2 39.697 0.033 -18.092 1 65.67 0 C10 IE0 1301 AAA 1 HETATM 7 C C12 IE0 . . . B 2 39.742 2.556 -17.817 1 60.1 0 C12 IE0 1301 AAA 1 HETATM 8 C C13 IE0 . . . B 2 38.786 3.452 -17.052 1 62.82 0 C13 IE0 1301 AAA 1 HETATM 9 C C15 IE0 . . . B 2 38.058 1.405 -16.757 1 59.84 0 C15 IE0 1301 AAA 1 HETATM 10 C C16 IE0 . . . B 2 36.842 3.172 -15.639 1 52.47 0 C16 IE0 1301 AAA 1 HETATM 11 C C19 IE0 . . . B 2 34.896 4.137 -13.853 1 48.84 0 C19 IE0 1301 AAA 1 HETATM 12 C C20 IE0 . . . B 2 35.698 3.073 -13.48 1 47.25 0 C20 IE0 1301 AAA 1 HETATM 13 C C21 IE0 . . . B 2 36.661 2.606 -14.375 1 49.13 0 C21 IE0 1301 AAA 1 HETATM 14 O O28 IE0 . . . B 2 37.374 0.456 -16.372 1 57.91 0 O28 IE0 1301 AAA 1 HETATM 15 F F24 IE0 . . . B 2 32.622 2.237 -12.95 1 47.13 0 F24 IE0 1301 AAA 1 HETATM 16 C C23 IE0 . . . B 2 32.27 3.522 -13.103 1 50.14 0 C23 IE0 1301 AAA 1 HETATM 17 F F25 IE0 . . . B 2 31.268 3.779 -12.267 1 50.63 0 F25 IE0 1301 AAA 1 HETATM 18 F F26 IE0 . . . B 2 31.895 3.682 -14.375 1 44.71 0 F26 IE0 1301 AAA 1 HETATM 19 S S22 IE0 . . . B 2 33.667 4.686 -12.745 1 52.66 0 S22 IE0 1301 AAA 1 HETATM 20 C C18 IE0 . . . B 2 35.048 4.728 -15.105 1 47.74 0 C18 IE0 1301 AAA 1 HETATM 21 C C17 IE0 . . . B 2 36.026 4.26 -15.983 1 49.67 0 C17 IE0 1301 AAA 1 HETATM 22 N N14 IE0 . . . B 2 37.826 2.698 -16.457 1 59.14 0 N14 IE0 1301 AAA 1 HETATM 23 O O27 IE0 . . . B 2 38.905 4.687 -17.027 1 65.49 0 O27 IE0 1301 AAA 1 HETATM 24 C C29 IE0 . . . B 2 39.62 2.785 -19.318 1 62.38 0 C29 IE0 1301 AAA 1 HETATM 25 N N11 IE0 . . . B 2 39.156 1.272 -17.515 1 61.8 0 N11 IE0 1301 AAA 1 HETATM 26 C C4 IE0 . . . B 2 41.446 -1.169 -14.957 1 60.8 0 C4 IE0 1301 AAA 1 HETATM 27 N N5 IE0 . . . B 2 42.055 -2.274 -15.341 1 61.15 0 N5 IE0 1301 AAA 1 HETATM 28 C C6 IE0 . . . B 2 41.949 -2.695 -16.599 1 65.43 0 C6 IE0 1301 AAA 1 HETATM 29 N N7 IE0 . . . B 2 42.45 -3.751 -17.233 1 71.2 0 N7 IE0 1301 AAA 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 37 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 301 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 29 #