data_9EIY # _model_server_result.job_id AQ3Hp1YlxLhl3xc-2c7I4w _model_server_result.datetime_utc '2025-07-06 21:14:14' _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 9eiy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":704}' # _entry.id 9EIY # _exptl.entry_id 9EIY _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 110.19 _cell.angle_gamma 90 _cell.entry_id 9EIY _cell.length_a 45.892 _cell.length_b 120.165 _cell.length_c 61.407 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9EIY _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 OE1 GLU 63 A GLU 63 1_555 D MN MN . A MN 703 2_545 ? ? ? ? ? ? ? ? ? ? ? ? 2.54 ? metalc ? metalc2 A NZ LYS 244 A LYS 244 1_555 B MN MN . A MN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? metalc ? metalc3 A NE2 HIS 264 A HIS 264 1_555 B MN MN . A MN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.441 ? metalc ? metalc4 A OG1 THR 291 A THR 291 1_555 C MN MN . A MN 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.344 ? metalc ? metalc5 A OD1 ASP 311 A ASP 311 1_555 B MN MN . A MN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.992 ? metalc ? metalc6 A NE2 HIS 502 A HIS 502 1_555 D MN MN . A MN 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.631 ? metalc ? metalc7 A OE2 GLU 607 A GLU 607 1_555 D MN MN . A MN 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? metalc ? metalc8 B MN MN . A MN 701 1_555 E O1P PGA . A PGA 704 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.128 ? metalc ? metalc9 B MN MN . A MN 701 1_555 E O3P PGA . A PGA 704 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.609 ? metalc ? metalc10 B MN MN . A MN 701 1_555 E O4P PGA . A PGA 704 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.488 ? metalc ? metalc11 B MN MN . A MN 701 1_555 E O4P PGA . A PGA 704 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.78 ? metalc ? metalc12 B MN MN . A MN 701 1_555 G O HOH . A HOH 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.417 ? metalc ? metalc13 B MN MN . A MN 701 1_555 G O HOH . A HOH 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.641 ? metalc ? metalc14 B MN MN . A MN 701 1_555 G O HOH . A HOH 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? metalc ? metalc15 C MN MN . A MN 702 1_555 E O3P PGA . A PGA 704 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.791 ? metalc ? metalc16 C MN MN . A MN 702 1_555 E O4P PGA . A PGA 704 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.475 ? metalc ? metalc17 C MN MN . A MN 702 1_555 F O3B GDP . A GDP 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.221 ? metalc ? metalc18 C MN MN . A MN 702 1_555 G O HOH . A HOH 806 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.105 ? metalc ? metalc19 C MN MN . A MN 702 1_555 G O HOH . A HOH 808 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.284 ? # _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 9EIY _atom_sites.fract_transf_matrix[1][1] 0.02179 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.008012 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008322 _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] 0.017351 _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 1 801 802 HOH HOH . G 5 HOH A 2 802 803 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 13 HOH HOH . G 5 HOH A 6 806 3 HOH HOH . G 5 HOH A 7 807 6 HOH HOH . G 5 HOH A 8 808 2 HOH HOH . G 5 HOH A 9 809 11 HOH HOH . G 5 HOH A 10 810 4 HOH HOH . G 5 HOH A 11 811 15 HOH HOH . G 5 HOH A 12 812 12 HOH HOH . G 5 HOH A 13 813 9 HOH HOH . G 5 HOH A 14 814 7 HOH HOH . G 5 HOH A 15 815 14 HOH HOH . G 5 HOH A 16 816 1 HOH HOH . G 5 HOH A 17 817 10 HOH HOH . G 5 HOH A 18 818 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 -2.663 -1.747 11.602 0.44 45.01 ? P PGA 704 A 1 HETATM 2 P P PGA . B . E 3 -0.526 -2.707 10.016 0.3 52.25 ? P PGA 704 A 1 HETATM 3 P P PGA . C . E 3 0.834 -2.927 10.139 0.26 54.69 ? P PGA 704 A 1 HETATM 4 O O1P PGA . A . E 3 -1.665 -1.988 10.364 0.44 47.82 ? O1P PGA 704 A 1 HETATM 5 O O1P PGA . B . E 3 0.483 -3.652 9.187 0.3 53.12 ? O1P PGA 704 A 1 HETATM 6 O O1P PGA . C . E 3 1.331 -4.407 9.745 0.26 54.01 ? O1P PGA 704 A 1 HETATM 7 O O2P PGA . A . E 3 -2.066 -0.658 12.459 0.44 48.96 ? O2P PGA 704 A 1 HETATM 8 O O2P PGA . B . E 3 -0.557 -3.17 11.454 0.3 51.25 ? O2P PGA 704 A 1 HETATM 9 O O2P PGA . C . E 3 -0.664 -2.85 9.952 0.26 51.85 ? O2P PGA 704 A 1 HETATM 10 O O3P PGA . A . E 3 -2.794 -3.016 12.408 0.44 47.64 ? O3P PGA 704 A 1 HETATM 11 O O3P PGA . B . E 3 -1.912 -2.8 9.424 0.3 48.73 ? O3P PGA 704 A 1 HETATM 12 O O3P PGA . C . E 3 1.519 -1.899 9.269 0.26 51.54 ? O3P PGA 704 A 1 HETATM 13 O O4P PGA . A . E 3 -4.024 -1.32 11.107 0.44 42.34 ? O4P PGA 704 A 1 HETATM 14 O O4P PGA . B . E 3 -0.042 -1.277 9.952 0.3 50.35 ? O4P PGA 704 A 1 HETATM 15 O O4P PGA . C . E 3 1.177 -2.67 11.587 0.26 55.62 ? O4P PGA 704 A 1 HETATM 16 C C2 PGA . A . E 3 -0.592 -2.893 10.498 0.44 51.61 ? C2 PGA 704 A 1 HETATM 17 C C2 PGA . B . E 3 0.043 -4.844 8.574 0.3 51.42 ? C2 PGA 704 A 1 HETATM 18 C C2 PGA . C . E 3 1.973 -4.667 8.518 0.26 53.78 ? C2 PGA 704 A 1 HETATM 19 C C1 PGA . A . E 3 0.56 -2.469 9.615 0.44 53.4 ? C1 PGA 704 A 1 HETATM 20 C C1 PGA . B . E 3 1.197 -5.474 7.829 0.3 52.24 ? C1 PGA 704 A 1 HETATM 21 C C1 PGA . C . E 3 2.302 -6.139 8.446 0.26 53.89 ? C1 PGA 704 A 1 HETATM 22 O O1 PGA . A . E 3 0.603 -1.314 9.138 0.44 48.68 ? O1 PGA 704 A 1 HETATM 23 O O1 PGA . B . E 3 1.42 -6.701 7.912 0.3 54.83 ? O1 PGA 704 A 1 HETATM 24 O O1 PGA . C . E 3 3.303 -6.596 9.039 0.26 55.43 ? O1 PGA 704 A 1 HETATM 25 O O2 PGA . A . E 3 1.488 -3.268 9.357 0.44 55.72 ? O2 PGA 704 A 1 HETATM 26 O O2 PGA . B . E 3 1.946 -4.771 7.119 0.3 50.92 ? O2 PGA 704 A 1 HETATM 27 O O2 PGA . C . E 3 1.577 -6.919 7.792 0.26 54.86 ? O2 PGA 704 A 1 HETATM 28 H H21 PGA . A . E 3 -0.919 -3.895 10.22 0.44 61.93 ? H21 PGA 704 A 1 HETATM 29 H H21 PGA . B . E 3 -0.772 -4.629 7.884 0.3 61.71 ? H21 PGA 704 A 1 HETATM 30 H H21 PGA . C . E 3 2.886 -4.076 8.441 0.26 64.53 ? H21 PGA 704 A 1 HETATM 31 H H22 PGA . A . E 3 -0.265 -2.924 11.538 0.44 61.93 ? H22 PGA 704 A 1 HETATM 32 H H22 PGA . B . E 3 -0.332 -5.534 9.33 0.3 61.71 ? H22 PGA 704 A 1 HETATM 33 H H22 PGA . C . E 3 1.323 -4.388 7.689 0.26 64.53 ? H22 PGA 704 A 1 # _model_server_stats.io_time_ms 29 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 324 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 33 #