data_9EIW # _model_server_result.job_id IyU5xdqloO8lhIYb0_6Frg _model_server_result.datetime_utc '2025-07-07 17:46:40' _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 9eiw # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":704}' # _entry.id 9EIW # _exptl.entry_id 9EIW _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 111.39 _cell.angle_gamma 90 _cell.entry_id 9EIW _cell.length_a 45.128 _cell.length_b 120.194 _cell.length_c 60.551 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9EIW _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 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? metalc ? metalc2 A NE2 HIS 264 A HIS 264 1_555 B MN MN . A MN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.41 ? metalc ? metalc3 A OG1 THR 291 A THR 291 1_555 C MN MN . A MN 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.591 ? metalc ? metalc4 A OD1 ASP 311 A ASP 311 1_555 B MN MN . A MN 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? metalc ? metalc5 A OE1 GLU 607 A GLU 607 1_555 D MN MN . A MN 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.63 ? metalc ? metalc6 A OE2 GLU 607 A GLU 607 1_555 D MN MN . A MN 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.339 ? metalc ? metalc7 B MN MN . A MN 701 1_555 E O4P PGA . A PGA 704 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.702 ? metalc ? metalc8 B MN MN . A MN 701 1_555 E O1P PGA . A PGA 704 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.244 ? metalc ? metalc9 B MN MN . A MN 701 1_555 E O4P PGA . A PGA 704 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.777 ? metalc ? metalc10 B MN MN . A MN 701 1_555 G O HOH . A HOH 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.387 ? metalc ? metalc11 B MN MN . A MN 701 1_555 G O HOH . A HOH 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.118 ? metalc ? metalc12 C MN MN . A MN 702 1_555 E O3P PGA . A PGA 704 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.476 ? metalc ? metalc13 C MN MN . A MN 702 1_555 F O3B GDP . A GDP 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.511 ? metalc ? metalc14 C MN MN . A MN 702 1_555 G O HOH . A HOH 811 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2 ? metalc ? metalc15 C MN MN . A MN 702 1_555 G O HOH . A HOH 834 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.28 ? # _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 9EIW _atom_sites.fract_transf_matrix[1][1] 0.022159 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.008678 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00832 _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] 0.017736 _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 45 HOH HOH . G 5 HOH A 5 805 32 HOH HOH . G 5 HOH A 6 806 54 HOH HOH . G 5 HOH A 7 807 7 HOH HOH . G 5 HOH A 8 808 18 HOH HOH . G 5 HOH A 9 809 53 HOH HOH . G 5 HOH A 10 810 75 HOH HOH . G 5 HOH A 11 811 9 HOH HOH . G 5 HOH A 12 812 40 HOH HOH . G 5 HOH A 13 813 12 HOH HOH . G 5 HOH A 14 814 28 HOH HOH . G 5 HOH A 15 815 52 HOH HOH . G 5 HOH A 16 816 14 HOH HOH . G 5 HOH A 17 817 38 HOH HOH . G 5 HOH A 18 818 34 HOH HOH . G 5 HOH A 19 819 20 HOH HOH . G 5 HOH A 20 820 25 HOH HOH . G 5 HOH A 21 821 21 HOH HOH . G 5 HOH A 22 822 8 HOH HOH . G 5 HOH A 23 823 19 HOH HOH . G 5 HOH A 24 824 55 HOH HOH . G 5 HOH A 25 825 6 HOH HOH . G 5 HOH A 26 826 57 HOH HOH . G 5 HOH A 27 827 24 HOH HOH . G 5 HOH A 28 828 29 HOH HOH . G 5 HOH A 29 829 74 HOH HOH . G 5 HOH A 30 830 56 HOH HOH . G 5 HOH A 31 831 30 HOH HOH . G 5 HOH A 32 832 62 HOH HOH . G 5 HOH A 33 833 16 HOH HOH . G 5 HOH A 34 834 43 HOH HOH . G 5 HOH A 35 835 76 HOH HOH . G 5 HOH A 36 836 59 HOH HOH . G 5 HOH A 37 837 11 HOH HOH . G 5 HOH A 38 838 68 HOH HOH . G 5 HOH A 39 839 1 HOH HOH . G 5 HOH A 40 840 4 HOH HOH . G 5 HOH A 41 841 17 HOH HOH . G 5 HOH A 42 842 66 HOH HOH . G 5 HOH A 43 843 63 HOH HOH . G 5 HOH A 44 844 26 HOH HOH . G 5 HOH A 45 845 46 HOH HOH . G 5 HOH A 46 846 73 HOH HOH . G 5 HOH A 47 847 3 HOH HOH . G 5 HOH A 48 848 47 HOH HOH . G 5 HOH A 49 849 33 HOH HOH . G 5 HOH A 50 850 15 HOH HOH . G 5 HOH A 51 851 48 HOH HOH . G 5 HOH A 52 852 77 HOH HOH . G 5 HOH A 53 853 2 HOH HOH . G 5 HOH A 54 854 71 HOH HOH . G 5 HOH A 55 855 42 HOH HOH . G 5 HOH A 56 856 36 HOH HOH . G 5 HOH A 57 857 50 HOH HOH . G 5 HOH A 58 858 65 HOH HOH . G 5 HOH A 59 859 10 HOH HOH . G 5 HOH A 60 860 13 HOH HOH . G 5 HOH A 61 861 22 HOH HOH . G 5 HOH A 62 862 37 HOH HOH . G 5 HOH A 63 863 5 HOH HOH . G 5 HOH A 64 864 27 HOH HOH . G 5 HOH A 65 865 72 HOH HOH . G 5 HOH A 66 866 64 HOH HOH . G 5 HOH A 67 867 51 HOH HOH . G 5 HOH A 68 868 39 HOH HOH . G 5 HOH A 69 869 49 HOH HOH . G 5 HOH A 70 870 35 HOH HOH . G 5 HOH A 71 871 44 HOH HOH . G 5 HOH A 72 872 61 HOH HOH . G 5 HOH A 73 873 31 HOH HOH . G 5 HOH A 74 874 58 HOH HOH . G 5 HOH A 75 875 41 HOH HOH . G 5 HOH A 76 876 70 HOH HOH . G 5 HOH A 77 877 60 HOH HOH . G 5 HOH A 78 878 67 HOH HOH . G 5 HOH A 79 879 23 HOH HOH . G 5 HOH A 80 880 69 HOH HOH . G 5 HOH A 81 881 78 HOH HOH . G 5 HOH A 82 882 79 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 -2.69 -1.623 11.67 0.16 57.69 ? P PGA 704 A 1 HETATM 2 P P PGA . B . E 3 -0.473 -2.842 10.119 0.55 61.12 ? P PGA 704 A 1 HETATM 3 P P PGA . C . E 3 0.637 -2.985 10.238 0.29 61.92 ? P PGA 704 A 1 HETATM 4 O O1P PGA . A . E 3 -1.79 -2.021 10.398 0.16 59.58 ? O1P PGA 704 A 1 HETATM 5 O O1P PGA . B . E 3 0.513 -3.935 9.47 0.55 61.97 ? O1P PGA 704 A 1 HETATM 6 O O1P PGA . C . E 3 1.011 -4.464 9.729 0.29 62.38 ? O1P PGA 704 A 1 HETATM 7 O O2P PGA . A . E 3 -1.905 -0.623 12.486 0.16 57.23 ? O2P PGA 704 A 1 HETATM 8 O O2P PGA . B . E 3 -0.568 -3.077 11.609 0.55 59.72 ? O2P PGA 704 A 1 HETATM 9 O O2P PGA . C . E 3 -0.866 -2.86 10.333 0.29 58.97 ? O2P PGA 704 A 1 HETATM 10 O O3P PGA . A . E 3 -2.966 -2.858 12.493 0.16 59.07 ? O3P PGA 704 A 1 HETATM 11 O O3P PGA . B . E 3 -1.837 -2.952 9.48 0.55 57.37 ? O3P PGA 704 A 1 HETATM 12 O O3P PGA . C . E 3 1.192 -1.954 9.285 0.29 62.24 ? O3P PGA 704 A 1 HETATM 13 O O4P PGA . A . E 3 -3.993 -1.001 11.23 0.16 55.7 ? O4P PGA 704 A 1 HETATM 14 O O4P PGA . B . E 3 0.094 -1.466 9.857 0.55 61.62 ? O4P PGA 704 A 1 HETATM 15 O O4P PGA . C . E 3 1.253 -2.786 11.602 0.29 61.54 ? O4P PGA 704 A 1 HETATM 16 C C2 PGA . A . E 3 -0.76 -2.973 10.552 0.16 62.24 ? C2 PGA 704 A 1 HETATM 17 C C2 PGA . B . E 3 0.022 -4.943 8.615 0.55 59.67 ? C2 PGA 704 A 1 HETATM 18 C C2 PGA . C . E 3 2.014 -4.673 8.76 0.29 63.38 ? C2 PGA 704 A 1 HETATM 19 C C1 PGA . A . E 3 0.476 -2.514 9.815 0.16 61.85 ? C1 PGA 704 A 1 HETATM 20 C C1 PGA . B . E 3 1.188 -5.555 7.876 0.55 61.57 ? C1 PGA 704 A 1 HETATM 21 C C1 PGA . C . E 3 2.259 -6.158 8.637 0.29 64.05 ? C1 PGA 704 A 1 HETATM 22 O O1 PGA . A . E 3 0.516 -1.379 9.292 0.16 60.65 ? O1 PGA 704 A 1 HETATM 23 O O1 PGA . B . E 3 1.497 -6.755 8.051 0.55 64.93 ? O1 PGA 704 A 1 HETATM 24 O O1 PGA . C . E 3 3.168 -6.709 9.296 0.29 64.07 ? O1 PGA 704 A 1 HETATM 25 O O2 PGA . A . E 3 1.476 -3.26 9.733 0.16 63.33 ? O2 PGA 704 A 1 HETATM 26 O O2 PGA . B . E 3 1.854 -4.859 7.08 0.55 61.7 ? O2 PGA 704 A 1 HETATM 27 O O2 PGA . C . E 3 1.551 -6.854 7.878 0.29 64.91 ? O2 PGA 704 A 1 HETATM 28 H H21 PGA . A . E 3 -1.087 -3.936 10.16 0.16 74.81 ? H21 PGA 704 A 1 HETATM 29 H H21 PGA . B . E 3 -0.689 -4.519 7.906 0.55 71.73 ? H21 PGA 704 A 1 HETATM 30 H H21 PGA . C . E 3 2.932 -4.165 9.055 0.29 76.18 ? H21 PGA 704 A 1 HETATM 31 H H22 PGA . A . E 3 -0.532 -3.101 11.61 0.16 74.81 ? H22 PGA 704 A 1 HETATM 32 H H22 PGA . B . E 3 -0.497 -5.706 9.194 0.55 71.73 ? H22 PGA 704 A 1 HETATM 33 H H22 PGA . C . E 3 1.698 -4.265 7.8 0.29 76.18 ? H22 PGA 704 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 262 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 33 #