data_5NEK # _model_server_result.job_id HAN40Rx3mx4n9GOr8Rc1kQ _model_server_result.datetime_utc '2024-11-28 20:58:24' _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 5nek # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":303}' # _entry.id 5NEK # _exptl.entry_id 5NEK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 150.173 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'TRIETHYLENE GLYCOL' _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 102.09 _cell.angle_gamma 90 _cell.entry_id 5NEK _cell.length_a 49.388 _cell.length_b 118.211 _cell.length_c 98.265 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5NEK _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,I,J,K,L,M,N,O,P,Q _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 5 _struct_asym.id M _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 covale ? covale1 D NE2 HIS 204 D HIS 230 1_555 L O2 AZM . D AZM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.313 ? metalc ? metalc1 A OD1 ASP 51 A ASP 77 1_555 E ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? metalc ? metalc2 A NE2 HIS 100 A HIS 126 1_555 E ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.161 ? metalc ? metalc3 A NE2 HIS 104 A HIS 130 1_555 E ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.12 ? metalc ? metalc4 E ZN ZN . A ZN 301 1_555 F O ACT . A ACT 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.616 ? metalc ? metalc5 E ZN ZN . A ZN 301 1_555 F OXT ACT . A ACT 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.627 ? metalc ? metalc6 B OD1 ASP 51 B ASP 77 1_555 G ZN ZN . B ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.083 ? metalc ? metalc7 B NE2 HIS 100 B HIS 126 1_555 G ZN ZN . B ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.202 ? metalc ? metalc8 B NE2 HIS 104 B HIS 130 1_555 G ZN ZN . B ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.829 ? metalc ? metalc9 G ZN ZN . B ZN 301 1_555 H O1 AZM . B AZM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.95 ? metalc ? metalc10 G ZN ZN . B ZN 301 1_555 H S1 AZM . B AZM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.135 ? metalc ? metalc11 C OD1 ASP 51 C ASP 77 1_555 I ZN ZN . C ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.988 ? metalc ? metalc12 C NE2 HIS 100 C HIS 126 1_555 I ZN ZN . C ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.243 ? metalc ? metalc13 C NE2 HIS 104 C HIS 130 1_555 I ZN ZN . C ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.987 ? metalc ? metalc14 I ZN ZN . C ZN 301 1_555 J O ACT . C ACT 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.482 ? metalc ? metalc15 I ZN ZN . C ZN 301 1_555 J OXT ACT . C ACT 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.458 ? metalc ? metalc16 D OD1 ASP 51 D ASP 77 1_555 K ZN ZN . D ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? metalc ? metalc17 D OD2 ASP 51 D ASP 77 1_555 K ZN ZN . D ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.168 ? metalc ? metalc18 D NE2 HIS 100 D HIS 126 1_555 K ZN ZN . D ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.132 ? metalc ? metalc19 D NE2 HIS 104 D HIS 130 1_555 K ZN ZN . D ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? metalc ? metalc20 K ZN ZN . D ZN 301 1_555 L N1 AZM . D AZM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.795 ? metalc ? metalc21 K ZN ZN . D ZN 301 1_555 L S1 AZM . D AZM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.269 ? metalc ? metalc22 K ZN ZN . D ZN 301 1_555 L O1 AZM . D AZM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.168 ? # _chem_comp.formula 'C6 H14 O4' _chem_comp.formula_weight 150.173 _chem_comp.id PGE _chem_comp.mon_nstd_flag . _chem_comp.name 'TRIETHYLENE GLYCOL' _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 O1 PGE sing 249 n n C1 C2 PGE sing 250 n n C1 H1 PGE sing 251 n n C1 H12 PGE sing 252 n n O1 HO1 PGE sing 253 n n C2 O2 PGE sing 254 n n C2 H2 PGE sing 255 n n C2 H22 PGE sing 256 n n O2 C3 PGE sing 257 n n C3 C4 PGE sing 258 n n C3 H3 PGE sing 259 n n C3 H32 PGE sing 260 n n C4 O3 PGE sing 261 n n C4 H4 PGE sing 262 n n C4 H42 PGE sing 263 n n O4 C6 PGE sing 264 n n O4 HO4 PGE sing 265 n n C6 C5 PGE sing 266 n n C6 H6 PGE sing 267 n n C6 H62 PGE sing 268 n n C5 O3 PGE sing 269 n n C5 H5 PGE sing 270 n n C5 H52 PGE sing 271 n n # _atom_sites.entry_id 5NEK _atom_sites.fract_transf_matrix[1][1] 0.020248 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004337 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008459 _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] 0.010407 _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 E 2 ZN A 1 301 280 ZN ZN . F 3 ACT A 1 302 300 ACT ACT . G 2 ZN B 1 301 280 ZN ZN . H 4 AZM B 1 302 300 AZM AZM . I 2 ZN C 1 301 280 ZN ZN . J 3 ACT C 1 302 300 ACT ACT . K 2 ZN D 1 301 280 ZN ZN . L 4 AZM D 1 302 300 AZM AZM . M 5 PGE D 1 303 1 PGE PGE . N 6 HOH A 1 401 11 HOH HOH . N 6 HOH A 2 402 17 HOH HOH . N 6 HOH A 3 403 20 HOH HOH . N 6 HOH A 4 404 12 HOH HOH . N 6 HOH A 5 405 25 HOH HOH . O 6 HOH B 1 401 21 HOH HOH . O 6 HOH B 2 402 18 HOH HOH . O 6 HOH B 3 403 4 HOH HOH . O 6 HOH B 4 404 13 HOH HOH . O 6 HOH B 5 405 3 HOH HOH . O 6 HOH B 6 406 14 HOH HOH . O 6 HOH B 7 407 26 HOH HOH . O 6 HOH B 8 408 2 HOH HOH . O 6 HOH B 9 409 8 HOH HOH . P 6 HOH C 1 401 10 HOH HOH . P 6 HOH C 2 402 24 HOH HOH . P 6 HOH C 3 403 23 HOH HOH . P 6 HOH C 4 404 6 HOH HOH . P 6 HOH C 5 405 9 HOH HOH . Q 6 HOH D 1 401 22 HOH HOH . Q 6 HOH D 2 402 15 HOH HOH . Q 6 HOH D 3 403 1 HOH HOH . Q 6 HOH D 4 404 5 HOH HOH . Q 6 HOH D 5 405 7 HOH HOH . Q 6 HOH D 6 406 19 HOH HOH . Q 6 HOH D 7 407 16 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 PGE . . . M 5 23.89 17.147 113.407 0.86 74.33 ? C1 PGE 303 D 1 HETATM 2 O O1 PGE . . . M 5 23.023 16.042 113.648 0.86 65.93 ? O1 PGE 303 D 1 HETATM 3 C C2 PGE . . . M 5 23.469 18.383 114.188 0.86 79.69 ? C2 PGE 303 D 1 HETATM 4 O O2 PGE . . . M 5 24.492 18.704 115.114 0.86 71.37 ? O2 PGE 303 D 1 HETATM 5 C C3 PGE . . . M 5 24.446 20.026 115.598 0.86 63.41 ? C3 PGE 303 D 1 HETATM 6 C C4 PGE . . . M 5 24.889 19.978 117.04 0.86 60.2 ? C4 PGE 303 D 1 HETATM 7 O O4 PGE . . . M 5 25.067 24.016 119.287 0.86 60.51 ? O4 PGE 303 D 1 HETATM 8 C C6 PGE . . . M 5 25.741 22.758 119.211 0.86 71.72 ? C6 PGE 303 D 1 HETATM 9 C C5 PGE . . . M 5 24.869 21.642 118.654 0.86 67.99 ? C5 PGE 303 D 1 HETATM 10 O O3 PGE . . . M 5 25.363 21.247 117.392 0.86 58.62 ? O3 PGE 303 D 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 31 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 297 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 10 #