data_9EIX # _model_server_result.job_id DovQs81St5OmX49TdKpKUA _model_server_result.datetime_utc '2025-07-05 09:48:46' _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 9eix # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":704}' # _entry.id 9EIX # _exptl.entry_id 9EIX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 156.031 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '2-PHOSPHOGLYCOLIC 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 111.52 _cell.angle_gamma 90 _cell.entry_id 9EIX _cell.length_a 45.416 _cell.length_b 120.893 _cell.length_c 60.826 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9EIX _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 ? _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,C,D,E,F,G _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 3 _struct_asym.id E _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 NZ LYS 244 A LYS 244 1_555 B MN MN . A MN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.658 ? metalc ? metalc2 A NE2 HIS 264 A HIS 264 1_555 B MN MN . A MN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? metalc ? metalc3 A OG1 THR 291 A THR 291 1_555 C MN MN . A MN 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.532 ? metalc ? metalc4 A OD1 ASP 311 A ASP 311 1_555 B MN MN . A MN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.079 ? metalc ? metalc5 A NE2 HIS 502 A HIS 502 1_555 D MN MN . A MN 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? metalc ? metalc6 B MN MN . A MN 701 1_555 E O4P PGA . A PGA 704 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.58 ? metalc ? metalc7 B MN MN . A MN 701 1_555 E O1P PGA . A PGA 704 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.092 ? metalc ? metalc8 B MN MN . A MN 701 1_555 E O3P PGA . A PGA 704 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.757 ? metalc ? metalc9 B MN MN . A MN 701 1_555 E P PGA . A PGA 704 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.521 ? metalc ? metalc10 B MN MN . A MN 701 1_555 E O4P PGA . A PGA 704 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.495 ? metalc ? metalc11 B MN MN . A MN 701 1_555 G O HOH . A HOH 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.162 ? metalc ? metalc12 B MN MN . A MN 701 1_555 G O HOH . A HOH 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.203 ? metalc ? metalc13 C MN MN . A MN 702 1_555 E O3P PGA . A PGA 704 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.552 ? metalc ? metalc14 C MN MN . A MN 702 1_555 E O4P PGA . A PGA 704 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.707 ? metalc ? metalc15 C MN MN . A MN 702 1_555 F O3B GDP . A GDP 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.434 ? metalc ? metalc16 C MN MN . A MN 702 1_555 G O HOH . A HOH 807 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.492 ? # _chem_comp.formula 'C2 H5 O6 P' _chem_comp.formula_weight 156.031 _chem_comp.id PGA _chem_comp.mon_nstd_flag . _chem_comp.name '2-PHOSPHOGLYCOLIC ACID' _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 P O1P PGA sing 282 n n P O2P PGA doub 283 n n P O3P PGA sing 284 n n P O4P PGA sing 285 n n O1P C2 PGA sing 286 n n O3P HOP3 PGA sing 287 n n O4P HOP4 PGA sing 288 n n C2 C1 PGA sing 289 n n C2 H21 PGA sing 290 n n C2 H22 PGA sing 291 n n C1 O1 PGA doub 292 n n C1 O2 PGA sing 293 n n O2 HO2 PGA sing 294 n n # _atom_sites.entry_id 9EIX _atom_sites.fract_transf_matrix[1][1] 0.022018 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.008681 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008272 _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] 0.017672 _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 MN A 1 701 700 MN MN . C 2 MN A 1 702 701 MN MN . D 2 MN A 1 703 702 MN MN . E 3 PGA A 1 704 800 PGA PGA . F 4 GDP A 1 705 900 GDP GDP . G 5 HOH A 1 801 803 HOH HOH . G 5 HOH A 2 802 802 HOH HOH . G 5 HOH A 3 803 801 HOH HOH . G 5 HOH A 4 804 5 HOH HOH . G 5 HOH A 5 805 3 HOH HOH . G 5 HOH A 6 806 12 HOH HOH . G 5 HOH A 7 807 10 HOH HOH . G 5 HOH A 8 808 1 HOH HOH . G 5 HOH A 9 809 2 HOH HOH . G 5 HOH A 10 810 4 HOH HOH . G 5 HOH A 11 811 6 HOH HOH . G 5 HOH A 12 812 9 HOH HOH . G 5 HOH A 13 813 11 HOH HOH . G 5 HOH A 14 814 7 HOH HOH . G 5 HOH A 15 815 8 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 P P PGA . A . E 3 2.913 1.684 11.527 0.29 55.89 ? P PGA 704 A 1 HETATM 2 P P PGA . B . E 3 0.745 2.829 9.979 0.37 66.56 ? P PGA 704 A 1 HETATM 3 P P PGA . C . E 3 -0.469 2.979 10.107 0.34 73.2 ? P PGA 704 A 1 HETATM 4 O O1P PGA . A . E 3 1.97 2.074 10.284 0.29 63.06 ? O1P PGA 704 A 1 HETATM 5 O O1P PGA . B . E 3 -0.262 3.799 9.181 0.37 70.12 ? O1P PGA 704 A 1 HETATM 6 O O1P PGA . C . E 3 -0.97 4.47 9.762 0.34 70.42 ? O1P PGA 704 A 1 HETATM 7 O O2P PGA . A . E 3 2.201 0.617 12.324 0.29 60.15 ? O2P PGA 704 A 1 HETATM 8 O O2P PGA . B . E 3 0.805 3.269 11.422 0.37 66.8 ? O2P PGA 704 A 1 HETATM 9 O O2P PGA . C . E 3 1.032 2.916 9.956 0.34 66.14 ? O2P PGA 704 A 1 HETATM 10 O O3P PGA . A . E 3 3.143 2.904 12.387 0.29 60.29 ? O3P PGA 704 A 1 HETATM 11 O O3P PGA . B . E 3 2.12 2.91 9.36 0.37 64.7 ? O3P PGA 704 A 1 HETATM 12 O O3P PGA . C . E 3 -1.129 1.994 9.172 0.34 67.66 ? O3P PGA 704 A 1 HETATM 13 O O4P PGA . A . E 3 4.236 1.15 11.034 0.29 56.78 ? O4P PGA 704 A 1 HETATM 14 O O4P PGA . B . E 3 0.238 1.409 9.902 0.37 62.81 ? O4P PGA 704 A 1 HETATM 15 O O4P PGA . C . E 3 -0.851 2.651 11.531 0.34 69.23 ? O4P PGA 704 A 1 HETATM 16 C C2 PGA . A . E 3 0.93 3.009 10.46 0.29 65.85 ? C2 PGA 704 A 1 HETATM 17 C C2 PGA . B . E 3 0.216 4.946 8.513 0.37 67.25 ? C2 PGA 704 A 1 HETATM 18 C C2 PGA . C . E 3 -1.79 4.71 8.64 0.34 72.13 ? C2 PGA 704 A 1 HETATM 19 C C1 PGA . A . E 3 -0.266 2.589 9.641 0.29 68.7 ? C1 PGA 704 A 1 HETATM 20 C C1 PGA . B . E 3 -0.915 5.586 7.743 0.37 72.92 ? C1 PGA 704 A 1 HETATM 21 C C1 PGA . C . E 3 -2.023 6.194 8.492 0.34 77.94 ? C1 PGA 704 A 1 HETATM 22 O O1 PGA . A . E 3 -0.319 1.444 9.142 0.29 64.4 ? O1 PGA 704 A 1 HETATM 23 O O1 PGA . B . E 3 -1.095 6.822 7.788 0.37 81.85 ? O1 PGA 704 A 1 HETATM 24 O O1 PGA . C . E 3 -2.975 6.75 9.083 0.34 78.74 ? O1 PGA 704 A 1 HETATM 25 O O2 PGA . A . E 3 -1.221 3.375 9.458 0.29 71.61 ? O2 PGA 704 A 1 HETATM 26 O O2 PGA . B . E 3 -1.684 4.886 7.051 0.37 72.76 ? O2 PGA 704 A 1 HETATM 27 O O2 PGA . C . E 3 -1.269 6.886 7.773 0.34 81.83 ? O2 PGA 704 A 1 HETATM 28 H H21 PGA . A . E 3 1.264 3.998 10.148 0.29 79.23 ? H21 PGA 704 A 1 HETATM 29 H H21 PGA . B . E 3 1.02 4.669 7.83 0.37 80.91 ? H21 PGA 704 A 1 HETATM 30 H H21 PGA . C . E 3 -2.744 4.196 8.762 0.34 86.76 ? H21 PGA 704 A 1 HETATM 31 H H22 PGA . A . E 3 0.657 3.065 11.514 0.29 79.23 ? H22 PGA 704 A 1 HETATM 32 H H22 PGA . B . E 3 0.621 5.654 9.236 0.37 80.91 ? H22 PGA 704 A 1 HETATM 33 H H22 PGA . C . E 3 -1.312 4.319 7.742 0.34 86.76 ? H22 PGA 704 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 240 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 33 #