data_5YWG # _model_server_result.job_id rIVSEdMp0EPDnaRwcLFTqQ _model_server_result.datetime_utc '2024-10-22 05:37:33' _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 5ywg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":502}' # _entry.id 5YWG # _exptl.entry_id 5YWG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 339.321 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-[(4-methylsulfonyl-2-nitro-phenyl)-oxidanyl-methylidene]cyclohexane-1,3-dione _entity.pdbx_number_of_molecules 2 _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 5YWG _cell.length_a 95.719 _cell.length_b 95.719 _cell.length_c 195.17 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5YWG _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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,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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 F N 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 401 A CYS 401 1_555 A SG CYS 416 A CYS 416 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf2 B SG CYS 401 B CYS 401 1_555 B SG CYS 416 B CYS 416 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? metalc ? metalc1 A NE2 HIS 226 A HIS 226 1_555 C CO CO . A CO 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.504 ? metalc ? metalc2 A NE2 HIS 308 A HIS 308 1_555 C CO CO . A CO 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.37 ? metalc ? metalc3 A OE1 GLU 394 A GLU 394 1_555 C CO CO . A CO 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? metalc ? metalc4 C CO CO . A CO 501 1_555 D O15 92L . A 92L 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? metalc ? metalc5 C CO CO . A CO 501 1_555 D O16 92L . A 92L 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.279 ? metalc ? metalc6 B NE2 HIS 226 B HIS 226 1_555 E CO CO . B CO 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.245 ? metalc ? metalc7 B NE2 HIS 308 B HIS 308 1_555 E CO CO . B CO 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.455 ? metalc ? metalc8 B OE1 GLU 394 B GLU 394 1_555 E CO CO . B CO 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? metalc ? metalc9 E CO CO . B CO 501 1_555 F O16 92L . B 92L 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.132 ? metalc ? metalc10 E CO CO . B CO 501 1_555 F O15 92L . B 92L 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.293 ? # _chem_comp.formula 'C14 H13 N O7 S' _chem_comp.formula_weight 339.321 _chem_comp.id 92L _chem_comp.mon_nstd_flag . _chem_comp.name 2-[(4-methylsulfonyl-2-nitro-phenyl)-oxidanyl-methylidene]cyclohexane-1,3-dione _chem_comp.type non-polymer _chem_comp.pdbx_synonyms Mesotrione # 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 C23 S20 92L sing 1 n n O21 S20 92L doub 2 n n S20 O22 92L doub 3 n n S20 C11 92L sing 4 n n C10 C11 92L doub 5 n y C10 C9 92L sing 6 n y C11 C12 92L sing 7 n y C9 C8 92L doub 8 n y C12 C13 92L doub 9 n y O16 C7 92L sing 10 n n C8 C13 92L sing 11 n y C8 C7 92L sing 12 n n C13 N17 92L sing 13 n n C7 C5 92L doub 14 n n N17 O19 92L sing 15 n n N17 O18 92L doub 16 n n O15 C4 92L doub 17 n n C5 C4 92L sing 18 n n C5 C6 92L sing 19 n n O14 C6 92L doub 20 n n C4 C3 92L sing 21 n n C6 C1 92L sing 22 n n C3 C2 92L sing 23 n n C2 C1 92L sing 24 n n C10 H1 92L sing 25 n n C1 H2 92L sing 26 n n C1 H3 92L sing 27 n n C2 H4 92L sing 28 n n C2 H5 92L sing 29 n n C3 H6 92L sing 30 n n C3 H7 92L sing 31 n n C9 H10 92L sing 32 n n C12 H11 92L sing 33 n n O16 H12 92L sing 34 n n C23 H13 92L sing 35 n n C23 H14 92L sing 36 n n C23 H15 92L sing 37 n n # _atom_sites.entry_id 5YWG _atom_sites.fract_transf_matrix[1][1] 0.010447 _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] 0.010447 _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] 0.005124 _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 C 2 CO A 1 501 499 CO CO . D 3 92L A 1 502 500 92L LIG . E 2 CO B 1 501 499 CO CO . F 3 92L B 1 502 500 92L LIG . G 4 HOH A 1 601 2 HOH HOH . G 4 HOH A 2 602 1 HOH HOH . G 4 HOH A 3 603 5 HOH HOH . G 4 HOH A 4 604 4 HOH HOH . G 4 HOH A 5 605 3 HOH HOH . G 4 HOH A 6 606 6 HOH HOH . H 4 HOH B 1 601 10 HOH HOH . H 4 HOH B 2 602 9 HOH HOH . H 4 HOH B 3 603 8 HOH HOH . H 4 HOH B 4 604 7 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 C10 92L . . . D 3 24.791 -5.007 -31.299 1 50.7 ? C10 92L 502 A 1 HETATM 2 C C13 92L . . . D 3 22.85 -4.719 -29.367 1 50.7 ? C13 92L 502 A 1 HETATM 3 C C1 92L . . . D 3 25.184 -8.113 -26.028 1 50.7 ? C1 92L 502 A 1 HETATM 4 C C2 92L . . . D 3 25.026 -9.63 -26.204 1 50.7 ? C2 92L 502 A 1 HETATM 5 C C3 92L . . . D 3 23.622 -10.014 -26.571 1 50.7 ? C3 92L 502 A 1 HETATM 6 C C4 92L . . . D 3 23.132 -9.276 -27.785 1 50.7 ? C4 92L 502 A 1 HETATM 7 C C5 92L . . . D 3 23.246 -7.741 -27.692 1 50.7 ? C5 92L 502 A 1 HETATM 8 C C6 92L . . . D 3 24.649 -7.262 -27.23 1 50.7 ? C6 92L 502 A 1 HETATM 9 C C7 92L . . . D 3 22.871 -7.28 -29.083 1 50.7 ? C7 92L 502 A 1 HETATM 10 C C8 92L . . . D 3 23.374 -5.998 -29.698 1 50.7 ? C8 92L 502 A 1 HETATM 11 C C9 92L . . . D 3 24.337 -6.149 -30.674 1 50.7 ? C9 92L 502 A 1 HETATM 12 C C11 92L . . . D 3 24.279 -3.761 -30.942 1 50.7 ? C11 92L 502 A 1 HETATM 13 C C12 92L . . . D 3 23.303 -3.609 -29.993 1 50.7 ? C12 92L 502 A 1 HETATM 14 O O14 92L . . . D 3 25.228 -6.353 -27.69 1 50.7 ? O14 92L 502 A 1 HETATM 15 O O15 92L . . . D 3 21.76 -9.627 -28.051 1 50.7 ? O15 92L 502 A 1 HETATM 16 O O16 92L . . . D 3 21.464 -7.217 -29.119 1 50.7 ? O16 92L 502 A 1 HETATM 17 N N17 92L . . . D 3 21.911 -4.614 -28.442 1 50.7 1 N17 92L 502 A 1 HETATM 18 O O18 92L . . . D 3 22.189 -4.009 -27.259 1 50.7 ? O18 92L 502 A 1 HETATM 19 O O19 92L . . . D 3 20.667 -5.111 -28.677 1 50.7 1 O19 92L 502 A 1 HETATM 20 S S20 92L . . . D 3 24.894 -2.313 -31.806 1 50.7 ? S20 92L 502 A 1 HETATM 21 O O21 92L . . . D 3 23.803 -1.532 -32.395 1 50.7 ? O21 92L 502 A 1 HETATM 22 O O22 92L . . . D 3 25.543 -2.889 -32.969 1 50.7 ? O22 92L 502 A 1 HETATM 23 C C23 92L . . . D 3 26.052 -1.311 -30.87 1 50.7 ? C23 92L 502 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 30 _model_server_stats.query_time_ms 381 _model_server_stats.encode_time_ms 14 _model_server_stats.element_count 23 #