data_5SZJ # _model_server_result.job_id FlxrrPeBmKe50RHL3X5pSA _model_server_result.datetime_utc '2024-12-16 16:32:35' _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 5szj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":301}' # _entry.id 5SZJ # _exptl.entry_id 5SZJ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 522.196 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER' _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 5SZJ _cell.length_a 153.68 _cell.length_b 61.87 _cell.length_c 55.57 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5SZJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details software_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 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 metalc ? metalc1 A OG1 THR 25 A THR 23 1_555 D MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.977 ? metalc ? metalc2 A OG1 THR 43 A THR 41 1_555 D MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.97 ? metalc ? metalc3 C O3G GNP . A GNP 301 1_555 D MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? metalc ? metalc4 C O2B GNP . A GNP 301 1_555 D MG MG . A MG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.984 ? metalc ? metalc5 D MG MG . A MG 302 1_555 F O HOH . A HOH 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.119 ? metalc ? metalc6 D MG MG . A MG 302 1_555 F O HOH . A HOH 414 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.439 ? # _chem_comp.formula 'C10 H17 N6 O13 P3' _chem_comp.formula_weight 522.196 _chem_comp.id GNP _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER' _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 PG O1G GNP doub 129 n n PG O2G GNP sing 130 n n PG O3G GNP sing 131 n n PG N3B GNP sing 132 n n O2G HOG2 GNP sing 133 n n O3G HOG3 GNP sing 134 n n N3B PB GNP sing 135 n n N3B HNB3 GNP sing 136 n n PB O1B GNP doub 137 n n PB O2B GNP sing 138 n n PB O3A GNP sing 139 n n O2B HOB2 GNP sing 140 n n O3A PA GNP sing 141 n n PA O1A GNP doub 142 n n PA O2A GNP sing 143 n n PA O5' GNP sing 144 n n O2A HOA2 GNP sing 145 n n O5' C5' GNP sing 146 n n C5' C4' GNP sing 147 n n C5' "H5'2" GNP sing 148 n n C5' "H5'1" GNP sing 149 n n C4' O4' GNP sing 150 n n C4' C3' GNP sing 151 n n C4' H4' GNP sing 152 n n O4' C1' GNP sing 153 n n C3' O3' GNP sing 154 n n C3' C2' GNP sing 155 n n C3' H3' GNP sing 156 n n O3' HO3' GNP sing 157 n n C2' O2' GNP sing 158 n n C2' C1' GNP sing 159 n n C2' H2' GNP sing 160 n n O2' HO2' GNP sing 161 n n C1' N9 GNP sing 162 n n C1' H1' GNP sing 163 n n N9 C8 GNP sing 164 n y N9 C4 GNP sing 165 n y C8 N7 GNP doub 166 n y C8 H8 GNP sing 167 n n N7 C5 GNP sing 168 n y C5 C6 GNP sing 169 n y C5 C4 GNP doub 170 n y C6 O6 GNP doub 171 n n C6 N1 GNP sing 172 n y N1 C2 GNP sing 173 n y N1 HN1 GNP sing 174 n n C2 N2 GNP sing 175 n n C2 N3 GNP doub 176 n y N2 HN21 GNP sing 177 n n N2 HN22 GNP sing 178 n n N3 C4 GNP sing 179 n y # _atom_sites.entry_id 5SZJ _atom_sites.fract_transf_matrix[1][1] 0.006507 _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] 0.016163 _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] 0.017995 _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 3 GNP A 1 301 302 GNP GNP . D 4 MG A 1 302 1 MG MG . E 5 PEG B 1 701 1 PEG PEG . F 6 HOH A 1 401 28 HOH HOH . F 6 HOH A 2 402 35 HOH HOH . F 6 HOH A 3 403 27 HOH HOH . F 6 HOH A 4 404 23 HOH HOH . F 6 HOH A 5 405 3 HOH HOH . F 6 HOH A 6 406 11 HOH HOH . F 6 HOH A 7 407 37 HOH HOH . F 6 HOH A 8 408 16 HOH HOH . F 6 HOH A 9 409 6 HOH HOH . F 6 HOH A 10 410 8 HOH HOH . F 6 HOH A 11 411 21 HOH HOH . F 6 HOH A 12 412 14 HOH HOH . F 6 HOH A 13 413 4 HOH HOH . F 6 HOH A 14 414 2 HOH HOH . F 6 HOH A 15 415 20 HOH HOH . F 6 HOH A 16 416 18 HOH HOH . F 6 HOH A 17 417 26 HOH HOH . F 6 HOH A 18 418 7 HOH HOH . F 6 HOH A 19 419 36 HOH HOH . F 6 HOH A 20 420 19 HOH HOH . F 6 HOH A 21 421 9 HOH HOH . F 6 HOH A 22 422 13 HOH HOH . F 6 HOH A 23 423 22 HOH HOH . G 6 HOH B 1 801 17 HOH HOH . G 6 HOH B 2 802 30 HOH HOH . G 6 HOH B 3 803 29 HOH HOH . G 6 HOH B 4 804 1 HOH HOH . G 6 HOH B 5 805 33 HOH HOH . G 6 HOH B 6 806 12 HOH HOH . G 6 HOH B 7 807 24 HOH HOH . G 6 HOH B 8 808 25 HOH HOH . G 6 HOH B 9 809 39 HOH HOH . G 6 HOH B 10 810 31 HOH HOH . G 6 HOH B 11 811 32 HOH HOH . G 6 HOH B 12 812 15 HOH HOH . G 6 HOH B 13 813 10 HOH HOH . G 6 HOH B 14 814 5 HOH HOH . G 6 HOH B 15 815 38 HOH HOH . G 6 HOH B 16 816 34 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 PG GNP . . . C 3 35.812 19.907 -42.956 1 52.59 ? PG GNP 301 A 1 HETATM 2 O O1G GNP . . . C 3 37.235 19.469 -43.206 1 43.91 ? O1G GNP 301 A 1 HETATM 3 O O2G GNP . . . C 3 34.765 18.83 -43.11 1 50.75 ? O2G GNP 301 A 1 HETATM 4 O O3G GNP . . . C 3 35.872 20.579 -41.607 1 60.91 ? O3G GNP 301 A 1 HETATM 5 N N3B GNP . . . C 3 35.444 21.015 -44.033 1 69.87 ? N3B GNP 301 A 1 HETATM 6 P PB GNP . . . C 3 34.36 22.162 -43.847 1 51.22 ? PB GNP 301 A 1 HETATM 7 O O1B GNP . . . C 3 33.085 21.776 -44.494 1 50.71 ? O1B GNP 301 A 1 HETATM 8 O O2B GNP . . . C 3 34.307 22.546 -42.42 1 63.42 ? O2B GNP 301 A 1 HETATM 9 O O3A GNP . . . C 3 34.871 23.374 -44.613 1 67.24 ? O3A GNP 301 A 1 HETATM 10 P PA GNP . . . C 3 35.131 24.723 -43.955 1 68.1 ? PA GNP 301 A 1 HETATM 11 O O1A GNP . . . C 3 33.875 25.192 -43.33 1 66.84 -1 O1A GNP 301 A 1 HETATM 12 O O2A GNP . . . C 3 36.347 24.685 -43.114 1 77.41 ? O2A GNP 301 A 1 HETATM 13 O O5' GNP . . . C 3 35.451 25.693 -45.154 1 55.84 ? O5' GNP 301 A 1 HETATM 14 C C5' GNP . . . C 3 36.25 25.222 -46.243 1 58.31 ? C5' GNP 301 A 1 HETATM 15 C C4' GNP . . . C 3 36.86 26.376 -47.018 1 49.45 ? C4' GNP 301 A 1 HETATM 16 O O4' GNP . . . C 3 35.838 27.005 -47.831 1 55.2 ? O4' GNP 301 A 1 HETATM 17 C C3' GNP . . . C 3 37.464 27.487 -46.165 1 57.11 ? C3' GNP 301 A 1 HETATM 18 O O3' GNP . . . C 3 38.622 28.021 -46.8 1 60.38 ? O3' GNP 301 A 1 HETATM 19 C C2' GNP . . . C 3 36.342 28.52 -46.091 1 41.49 ? C2' GNP 301 A 1 HETATM 20 O O2' GNP . . . C 3 36.842 29.834 -45.944 1 58.07 ? O2' GNP 301 A 1 HETATM 21 C C1' GNP . . . C 3 35.671 28.358 -47.452 1 57.29 ? C1' GNP 301 A 1 HETATM 22 N N9 GNP . . . C 3 34.238 28.644 -47.452 1 57.74 ? N9 GNP 301 A 1 HETATM 23 C C8 GNP . . . C 3 33.274 28.063 -46.661 1 60.62 ? C8 GNP 301 A 1 HETATM 24 N N7 GNP . . . C 3 32.071 28.516 -46.891 1 57.83 ? N7 GNP 301 A 1 HETATM 25 C C5 GNP . . . C 3 32.245 29.453 -47.904 1 54.16 ? C5 GNP 301 A 1 HETATM 26 C C6 GNP . . . C 3 31.301 30.274 -48.573 1 43.08 ? C6 GNP 301 A 1 HETATM 27 O O6 GNP . . . C 3 30.076 30.349 -48.406 1 62.97 ? O6 GNP 301 A 1 HETATM 28 N N1 GNP . . . C 3 31.902 31.078 -49.532 1 46.29 ? N1 GNP 301 A 1 HETATM 29 C C2 GNP . . . C 3 33.246 31.093 -49.815 1 61.49 ? C2 GNP 301 A 1 HETATM 30 N N2 GNP . . . C 3 33.636 31.943 -50.778 1 63.16 ? N2 GNP 301 A 1 HETATM 31 N N3 GNP . . . C 3 34.143 30.331 -49.2 1 63.77 ? N3 GNP 301 A 1 HETATM 32 C C4 GNP . . . C 3 33.574 29.54 -48.26 1 54.74 ? C4 GNP 301 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 313 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 32 #