data_8KGW # _model_server_result.job_id geUwIjj2oObLK_yDE7Nvwg _model_server_result.datetime_utc '2024-10-18 05:16:06' _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 8kgw # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":701}' # _entry.id 8KGW # _exptl.entry_id 8KGW _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 352.465 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(Z)-7-[(1R,2R,3R)-3-hydroxy-2-[(E,3S)-3-hydroxyoct-1-enyl]-5-oxo-cyclopentyl]hept-5-enoic acid' _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 8KGW _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8KGW _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _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 _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 ? _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 disulf ? disulf1 A SG CYS 420 A CYS 420 1_555 A SG CYS 511 A CYS 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf2 A SG CYS 444 A CYS 444 1_555 A SG CYS 494 A CYS 494 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 A SG CYS 450 A CYS 450 1_555 A SG CYS 470 A CYS 470 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 A SG CYS 459 A CYS 459 1_555 A SG CYS 507 A CYS 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf5 A SG CYS 474 A CYS 474 1_555 A SG CYS 492 A CYS 492 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf6 A SG CYS 580 A CYS 580 1_555 A SG CYS 594 A CYS 594 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? # _chem_comp.formula 'C20 H32 O5' _chem_comp.formula_weight 352.465 _chem_comp.id P2E _chem_comp.mon_nstd_flag . _chem_comp.name '(Z)-7-[(1R,2R,3R)-3-hydroxy-2-[(E,3S)-3-hydroxyoct-1-enyl]-5-oxo-cyclopentyl]hept-5-enoic acid' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'Prostaglandin E2' # 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 C2 C3 P2E sing 235 n n C2 C1 P2E sing 236 n n C3 C4 P2E sing 237 n n C4 C5 P2E sing 238 n n C5 C6 P2E doub 239 n n C6 C7 P2E sing 240 n n C7 C8 P2E sing 241 n n C8 C9 P2E sing 242 n n C8 C12 P2E sing 243 n n C9 O3 P2E doub 244 n n C9 C10 P2E sing 245 z n C12 C11 P2E sing 246 n n C12 C13 P2E sing 247 n n C11 O4 P2E sing 248 n n C11 C10 P2E sing 249 n n C13 C14 P2E doub 250 n n C14 C15 P2E sing 251 n n C15 O5 P2E sing 252 n n C15 C16 P2E sing 253 n n C16 C17 P2E sing 254 n n C17 C18 P2E sing 255 n n C18 C19 P2E sing 256 n n C19 C20 P2E sing 257 n n O1 C1 P2E doub 258 n n C1 O2 P2E sing 259 n n C2 H2 P2E sing 260 n n C2 H2A P2E sing 261 n n C3 H3 P2E sing 262 n n C3 H3A P2E sing 263 n n C4 H4 P2E sing 264 n n C4 H4A P2E sing 265 n n C5 H5 P2E sing 266 e n C6 H6 P2E sing 267 n n C7 H7 P2E sing 268 n n C7 H7A P2E sing 269 n n C8 H8 P2E sing 270 n n C12 H12 P2E sing 271 n n C11 H11 P2E sing 272 n n O4 HO4 P2E sing 273 n n C10 H10 P2E sing 274 n n C10 H10A P2E sing 275 n n C13 H13 P2E sing 276 n n C14 H14 P2E sing 277 n n C15 H15 P2E sing 278 n n O5 HO5 P2E sing 279 n n C16 H16 P2E sing 280 n n C16 H16A P2E sing 281 n n C17 H17 P2E sing 282 n n C17 H17A P2E sing 283 n n C18 H18 P2E sing 284 n n C18 H18A P2E sing 285 n n C19 H19 P2E sing 286 n n C19 H19A P2E sing 287 n n C20 H20 P2E sing 288 n n C20 H20A P2E sing 289 n n C20 H20B P2E sing 290 n n O2 HO2 P2E sing 291 n n # _atom_sites.entry_id 8KGW _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # _pdbx_nonpoly_scheme.asym_id B _pdbx_nonpoly_scheme.entity_id 2 _pdbx_nonpoly_scheme.mon_id P2E _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 701 _pdbx_nonpoly_scheme.auth_seq_num 706 _pdbx_nonpoly_scheme.pdb_mon_id P2E _pdbx_nonpoly_scheme.auth_mon_id P2E _pdbx_nonpoly_scheme.pdb_ins_code . # 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 C2 P2E . . . B 2 107.69 109.581 110.843 1 54.56 ? C2 P2E 701 A 1 HETATM 2 C C3 P2E . . . B 2 107.707 111.126 110.857 1 54.56 ? C3 P2E 701 A 1 HETATM 3 C C4 P2E . . . B 2 109.028 111.686 111.45 1 54.56 ? C4 P2E 701 A 1 HETATM 4 C C5 P2E . . . B 2 109.586 110.724 112.533 1 54.56 ? C5 P2E 701 A 1 HETATM 5 C C6 P2E . . . B 2 110.843 110.291 112.293 1 54.56 ? C6 P2E 701 A 1 HETATM 6 C C7 P2E . . . B 2 111.581 110.76 111.008 1 54.56 ? C7 P2E 701 A 1 HETATM 7 C C8 P2E . . . B 2 113.063 110.309 111.024 1 54.56 ? C8 P2E 701 A 1 HETATM 8 C C9 P2E . . . B 2 113.928 111.241 112.004 1 54.56 ? C9 P2E 701 A 1 HETATM 9 O O3 P2E . . . B 2 113.658 112.361 112.298 1 54.56 ? O3 P2E 701 A 1 HETATM 10 C C12 P2E . . . B 2 113.232 109.032 111.561 1 54.56 ? C12 P2E 701 A 1 HETATM 11 C C11 P2E . . . B 2 114.807 109.06 111.969 1 54.56 ? C11 P2E 701 A 1 HETATM 12 O O4 P2E . . . B 2 115.057 108.234 112.925 1 54.56 ? O4 P2E 701 A 1 HETATM 13 C C10 P2E . . . B 2 115.024 110.548 112.456 1 54.56 ? C10 P2E 701 A 1 HETATM 14 C C13 P2E . . . B 2 112.97 107.958 110.507 1 54.56 ? C13 P2E 701 A 1 HETATM 15 C C14 P2E . . . B 2 113.07 106.714 110.999 1 54.56 ? C14 P2E 701 A 1 HETATM 16 C C15 P2E . . . B 2 112.809 105.639 109.932 1 54.56 ? C15 P2E 701 A 1 HETATM 17 O O5 P2E . . . B 2 113.529 104.491 110.233 1 54.56 ? O5 P2E 701 A 1 HETATM 18 C C16 P2E . . . B 2 111.315 105.298 109.93 1 54.56 ? C16 P2E 701 A 1 HETATM 19 C C17 P2E . . . B 2 111.01 104.042 110.788 1 54.56 ? C17 P2E 701 A 1 HETATM 20 C C18 P2E . . . B 2 109.529 103.943 111.234 1 54.56 ? C18 P2E 701 A 1 HETATM 21 C C19 P2E . . . B 2 108.58 104.838 110.409 1 54.56 ? C19 P2E 701 A 1 HETATM 22 C C20 P2E . . . B 2 108.076 106.037 111.233 1 54.56 ? C20 P2E 701 A 1 HETATM 23 O O1 P2E . . . B 2 108.957 109.055 108.835 1 54.56 ? O1 P2E 701 A 1 HETATM 24 C C1 P2E . . . B 2 107.846 108.987 109.431 1 54.56 ? C1 P2E 701 A 1 HETATM 25 O O2 P2E . . . B 2 106.866 108.421 108.873 1 54.56 ? O2 P2E 701 A 1 # _model_server_stats.io_time_ms 106 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 254 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 25 #