data_166D # _model_server_result.job_id o4Pxqe6SXSsB_UanlwxRRQ _model_server_result.datetime_utc '2025-03-03 00:38:48' _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 166d # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":25}' # _entry.id 166D # _exptl.entry_id 166D _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 342.392 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,5-DI(4-AMIDINOPHENOXY)-3-OXA-PENTANE _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 166D _cell.length_a 24.69 _cell.length_b 40.33 _cell.length_c 66.47 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 166D _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 ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_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 C _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 hydrog WATSON-CRICK hydrog1 A N3 DC 1 A DC 1 1_555 B N1 DG 12 B DG 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N4 DC 1 A DC 1 1_555 B O6 DG 12 B DG 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A O2 DC 1 A DC 1 1_555 B N2 DG 12 B DG 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N1 DG 2 A DG 2 1_555 B N3 DC 11 B DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A N2 DG 2 A DG 2 1_555 B O2 DC 11 B DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A O6 DG 2 A DG 2 1_555 B N4 DC 11 B DC 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 A N3 DC 3 A DC 3 1_555 B N1 DG 10 B DG 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A N4 DC 3 A DC 3 1_555 B O6 DG 10 B DG 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A O2 DC 3 A DC 3 1_555 B N2 DG 10 B DG 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A N1 DG 4 A DG 4 1_555 B N3 DC 9 B DC 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 A N2 DG 4 A DG 4 1_555 B O2 DC 9 B DC 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A O6 DG 4 A DG 4 1_555 B N4 DC 9 B DC 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A N1 DA 5 A DA 5 1_555 B N3 DT 8 B DT 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A N6 DA 5 A DA 5 1_555 B O4 DT 8 B DT 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 A N1 DA 6 A DA 6 1_555 B N3 DT 7 B DT 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 A N6 DA 6 A DA 6 1_555 B O4 DT 7 B DT 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 A N3 DT 7 A DT 7 1_555 B N1 DA 6 B DA 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A O4 DT 7 A DT 7 1_555 B N6 DA 6 B DA 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 A N3 DT 8 A DT 8 1_555 B N1 DA 5 B DA 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 A O4 DT 8 A DT 8 1_555 B N6 DA 5 B DA 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 A N3 DC 9 A DC 9 1_555 B N1 DG 4 B DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 A N4 DC 9 A DC 9 1_555 B O6 DG 4 B DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 A O2 DC 9 A DC 9 1_555 B N2 DG 4 B DG 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 A N1 DG 10 A DG 10 1_555 B N3 DC 3 B DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 A N2 DG 10 A DG 10 1_555 B O2 DC 3 B DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 A O6 DG 10 A DG 10 1_555 B N4 DC 3 B DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 A N3 DC 11 A DC 11 1_555 B N1 DG 2 B DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog28 A N4 DC 11 A DC 11 1_555 B O6 DG 2 B DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog29 A O2 DC 11 A DC 11 1_555 B N2 DG 2 B DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog30 A N1 DG 12 A DG 12 1_555 B N3 DC 1 B DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog31 A N2 DG 12 A DG 12 1_555 B O2 DC 1 B DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog32 A O6 DG 12 A DG 12 1_555 B N4 DC 1 B DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'C18 H22 N4 O3' _chem_comp.formula_weight 342.392 _chem_comp.id PET _chem_comp.mon_nstd_flag . _chem_comp.name 1,5-DI(4-AMIDINOPHENOXY)-3-OXA-PENTANE _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 PET doub 152 n y C1 C6 PET sing 153 n y C1 O1 PET sing 154 n n C2 C3 PET sing 155 n y C2 H2 PET sing 156 n n C3 C4 PET doub 157 n y C3 H3 PET sing 158 n n C4 C5 PET sing 159 n y C4 C7 PET sing 160 n n C5 C6 PET doub 161 n y C5 H5 PET sing 162 n n C6 H6 PET sing 163 n n C7 N1 PET doub 164 n n C7 N2 PET sing 165 n n CA CB PET sing 166 n n CA O1 PET sing 167 n n CA HA1 PET sing 168 n n CA HA2 PET sing 169 n n CB O2 PET sing 170 n n CB HB1 PET sing 171 n n CB HB2 PET sing 172 n n C1' C2' PET doub 173 n y C1' C6' PET sing 174 n y C1' O1' PET sing 175 n n C2' C3' PET sing 176 n y C2' H2' PET sing 177 n n C3' C4' PET doub 178 n y C3' H3' PET sing 179 n n C4' C5' PET sing 180 n y C4' C7' PET sing 181 n n C5' C6' PET doub 182 n y C5' H5' PET sing 183 n n C6' H6' PET sing 184 n n C7' N1' PET doub 185 e n C7' N2' PET sing 186 n n CA' CB' PET sing 187 n n CA' O1' PET sing 188 n n CA' "HA'1" PET sing 189 n n CA' "HA'2" PET sing 190 n n CB' O2 PET sing 191 n n CB' "HB'1" PET sing 192 n n CB' "HB'2" PET sing 193 n n N1 HN1 PET sing 194 n n N2 HN21 PET sing 195 n n N2 HN22 PET sing 196 n n N1' HN1' PET sing 197 n n N2' "HN'1" PET sing 198 n n N2' "HN'2" PET sing 199 n n # _atom_sites.entry_id 166D _atom_sites.fract_transf_matrix[1][1] 0.040502 _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] 0.024795 _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] 0.015044 _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 PET B 1 25 25 PET PET . D 3 HOH A 1 26 26 HOH HOH . D 3 HOH A 2 27 27 HOH HOH . D 3 HOH A 3 30 30 HOH HOH . D 3 HOH A 4 40 40 HOH HOH . D 3 HOH A 5 43 43 HOH HOH . D 3 HOH A 6 44 44 HOH HOH . D 3 HOH A 7 46 46 HOH HOH . D 3 HOH A 8 47 47 HOH HOH . D 3 HOH A 9 49 49 HOH HOH . D 3 HOH A 10 50 50 HOH HOH . D 3 HOH A 11 51 51 HOH HOH . D 3 HOH A 12 52 52 HOH HOH . D 3 HOH A 13 56 56 HOH HOH . D 3 HOH A 14 57 57 HOH HOH . D 3 HOH A 15 59 59 HOH HOH . D 3 HOH A 16 61 61 HOH HOH . D 3 HOH A 17 62 62 HOH HOH . D 3 HOH A 18 68 68 HOH HOH . D 3 HOH A 19 74 74 HOH HOH . D 3 HOH A 20 78 78 HOH HOH . D 3 HOH A 21 79 79 HOH HOH . D 3 HOH A 22 83 83 HOH HOH . D 3 HOH A 23 85 85 HOH HOH . D 3 HOH A 24 86 86 HOH HOH . D 3 HOH A 25 87 87 HOH HOH . D 3 HOH A 26 88 88 HOH HOH . D 3 HOH A 27 90 90 HOH HOH . D 3 HOH A 28 91 91 HOH HOH . D 3 HOH A 29 92 92 HOH HOH . D 3 HOH A 30 93 93 HOH HOH . D 3 HOH A 31 97 97 HOH HOH . D 3 HOH A 32 98 98 HOH HOH . E 3 HOH B 1 28 28 HOH HOH . E 3 HOH B 2 29 29 HOH HOH . E 3 HOH B 3 31 31 HOH HOH . E 3 HOH B 4 32 32 HOH HOH . E 3 HOH B 5 33 33 HOH HOH . E 3 HOH B 6 34 34 HOH HOH . E 3 HOH B 7 35 35 HOH HOH . E 3 HOH B 8 36 36 HOH HOH . E 3 HOH B 9 37 37 HOH HOH . E 3 HOH B 10 38 38 HOH HOH . E 3 HOH B 11 39 39 HOH HOH . E 3 HOH B 12 41 41 HOH HOH . E 3 HOH B 13 42 42 HOH HOH . E 3 HOH B 14 45 45 HOH HOH . E 3 HOH B 15 48 48 HOH HOH . E 3 HOH B 16 53 53 HOH HOH . E 3 HOH B 17 54 54 HOH HOH . E 3 HOH B 18 55 55 HOH HOH . E 3 HOH B 19 58 58 HOH HOH . E 3 HOH B 20 60 60 HOH HOH . E 3 HOH B 21 63 63 HOH HOH . E 3 HOH B 22 64 64 HOH HOH . E 3 HOH B 23 65 65 HOH HOH . E 3 HOH B 24 66 66 HOH HOH . E 3 HOH B 25 67 67 HOH HOH . E 3 HOH B 26 69 69 HOH HOH . E 3 HOH B 27 70 70 HOH HOH . E 3 HOH B 28 71 71 HOH HOH . E 3 HOH B 29 72 72 HOH HOH . E 3 HOH B 30 73 73 HOH HOH . E 3 HOH B 31 75 75 HOH HOH . E 3 HOH B 32 76 76 HOH HOH . E 3 HOH B 33 77 77 HOH HOH . E 3 HOH B 34 80 80 HOH HOH . E 3 HOH B 35 81 81 HOH HOH . E 3 HOH B 36 82 82 HOH HOH . E 3 HOH B 37 84 84 HOH HOH . E 3 HOH B 38 89 89 HOH HOH . E 3 HOH B 39 94 94 HOH HOH . E 3 HOH B 40 95 95 HOH HOH . E 3 HOH B 41 96 96 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 PET . . . C 2 9.877 24.853 5.862 1 49.24 ? C1 PET 25 B 1 HETATM 2 C C2 PET . . . C 2 10.943 24.016 5.43 1 49.77 ? C2 PET 25 B 1 HETATM 3 C C3 PET . . . C 2 11.81 24.433 4.38 1 49.7 ? C3 PET 25 B 1 HETATM 4 C C4 PET . . . C 2 11.627 25.677 3.735 1 49.61 ? C4 PET 25 B 1 HETATM 5 C C5 PET . . . C 2 10.577 26.5 4.173 1 49.99 ? C5 PET 25 B 1 HETATM 6 C C6 PET . . . C 2 9.712 26.091 5.223 1 50.13 ? C6 PET 25 B 1 HETATM 7 C C7 PET . . . C 2 12.397 26.051 2.628 1 49.48 ? C7 PET 25 B 1 HETATM 8 C CA PET . . . C 2 9.329 23.401 7.629 1 47.87 ? CA PET 25 B 1 HETATM 9 C CB PET . . . C 2 8.482 23.298 8.873 1 47.46 ? CB PET 25 B 1 HETATM 10 C C1' PET . . . C 2 8.951 19.6 13.598 1 50.56 ? C1' PET 25 B 1 HETATM 11 C C2' PET . . . C 2 10.329 19.417 13.796 1 50.8 ? C2' PET 25 B 1 HETATM 12 C C3' PET . . . C 2 10.8 18.667 14.902 1 51.03 ? C3' PET 25 B 1 HETATM 13 C C4' PET . . . C 2 9.9 18.083 15.8 1 51.99 ? C4' PET 25 B 1 HETATM 14 C C5' PET . . . C 2 8.514 18.259 15.603 1 51.43 ? C5' PET 25 B 1 HETATM 15 C C6' PET . . . C 2 8.051 19.015 14.505 1 50.82 ? C6' PET 25 B 1 HETATM 16 C C7' PET . . . C 2 10.341 17.304 16.861 1 52.59 ? C7' PET 25 B 1 HETATM 17 C CA' PET . . . C 2 9.196 20.855 11.59 1 47.88 ? CA' PET 25 B 1 HETATM 18 C CB' PET . . . C 2 8.289 21.736 10.729 1 47.23 ? CB' PET 25 B 1 HETATM 19 N N1 PET . . . C 2 12.267 27.267 2.127 1 48.86 ? N1 PET 25 B 1 HETATM 20 N N2 PET . . . C 2 13.158 25.164 2.002 1 49.41 ? N2 PET 25 B 1 HETATM 21 N N1' PET . . . C 2 9.604 17.133 17.958 1 53.59 ? N1' PET 25 B 1 HETATM 22 N N2' PET . . . C 2 11.532 16.683 16.799 1 52.98 ? N2' PET 25 B 1 HETATM 23 O O1 PET . . . C 2 8.97 24.538 6.86 1 47.55 ? O1 PET 25 B 1 HETATM 24 O O1' PET . . . C 2 8.362 20.315 12.586 1 49.89 ? O1' PET 25 B 1 HETATM 25 O O2 PET . . . C 2 9.013 22.203 9.599 1 47.62 ? O2 PET 25 B 1 # _model_server_stats.io_time_ms 5 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 293 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 25 #