data_8OSO # _model_server_result.job_id gVWBq8tnTdgLgJESo1BplA _model_server_result.datetime_utc '2024-12-04 21:45:28' _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 8oso # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 8OSO # _exptl.entry_id 8OSO _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 522.196 _entity.id 2 _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 120 _cell.entry_id 8OSO _cell.length_a 38.612 _cell.length_b 38.612 _cell.length_c 159.814 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8OSO _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall 'P 32 2"' _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 2 _struct_asym.id B _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 OG SER 17 A SER 17 1_555 C MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.236 ? metalc ? metalc2 B O2G GNP . A GNP 201 1_555 C MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.968 ? metalc ? metalc3 B O2B GNP . A GNP 201 1_555 C MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.228 ? metalc ? metalc4 B O1G GNP . A GNP 201 1_555 F ZN ZN . A ZN 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.895 ? metalc ? metalc5 C MG MG . A MG 202 1_555 G O HOH . A HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.534 ? metalc ? metalc6 C MG MG . A MG 202 1_555 G O HOH . A HOH 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.345 ? metalc ? metalc7 E N1 YCN . A YCN 204 1_555 F ZN ZN . A ZN 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.248 ? metalc ? metalc8 E N2 YCN . A YCN 204 1_555 F ZN ZN . A ZN 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.187 ? metalc ? metalc9 E N3 YCN . A YCN 204 1_555 F ZN ZN . A ZN 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? metalc ? metalc10 E N4 YCN . A YCN 204 1_555 F ZN ZN . A ZN 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? # _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 8OSO _atom_sites.fract_transf_matrix[1][1] 0.025899 _atom_sites.fract_transf_matrix[1][2] 0.014953 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.029905 _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] 0.006257 _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 GNP A 1 201 201 GNP GNP . C 3 MG A 1 202 202 MG MG . D 4 PGE A 1 203 204 PGE PGE . E 5 YCN A 1 204 205 YCN YCN . F 6 ZN A 1 205 206 ZN ZN . G 7 HOH A 1 301 301 HOH HOH . G 7 HOH A 2 302 302 HOH HOH . G 7 HOH A 3 303 301 HOH HOH . G 7 HOH A 4 304 328 HOH HOH . G 7 HOH A 5 305 325 HOH HOH . G 7 HOH A 6 306 308 HOH HOH . G 7 HOH A 7 307 310 HOH HOH . G 7 HOH A 8 308 314 HOH HOH . G 7 HOH A 9 309 318 HOH HOH . G 7 HOH A 10 310 327 HOH HOH . G 7 HOH A 11 311 309 HOH HOH . G 7 HOH A 12 312 303 HOH HOH . G 7 HOH A 13 313 315 HOH HOH . G 7 HOH A 14 314 337 HOH HOH . G 7 HOH A 15 315 324 HOH HOH . G 7 HOH A 16 316 320 HOH HOH . G 7 HOH A 17 317 304 HOH HOH . G 7 HOH A 18 318 312 HOH HOH . G 7 HOH A 19 319 313 HOH HOH . G 7 HOH A 20 320 321 HOH HOH . G 7 HOH A 21 321 334 HOH HOH . G 7 HOH A 22 322 326 HOH HOH . G 7 HOH A 23 323 317 HOH HOH . G 7 HOH A 24 324 332 HOH HOH . G 7 HOH A 25 325 330 HOH HOH . G 7 HOH A 26 326 306 HOH HOH . G 7 HOH A 27 327 336 HOH HOH . G 7 HOH A 28 328 311 HOH HOH . G 7 HOH A 29 329 335 HOH HOH . G 7 HOH A 30 330 307 HOH HOH . G 7 HOH A 31 331 331 HOH HOH . G 7 HOH A 32 332 319 HOH HOH . G 7 HOH A 33 333 323 HOH HOH . G 7 HOH A 34 334 305 HOH HOH . G 7 HOH A 35 335 339 HOH HOH . G 7 HOH A 36 336 340 HOH HOH . G 7 HOH A 37 337 329 HOH HOH . G 7 HOH A 38 338 338 HOH HOH . G 7 HOH A 39 339 322 HOH HOH . G 7 HOH A 40 340 333 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 . . . B 2 -15.597 -3.615 22.644 1 19.3 ? PG GNP 201 A 1 HETATM 2 O O1G GNP . . . B 2 -16.046 -3.105 23.98 1 19.73 ? O1G GNP 201 A 1 HETATM 3 O O2G GNP . . . B 2 -16.336 -2.879 21.526 1 18.53 ? O2G GNP 201 A 1 HETATM 4 O O3G GNP . . . B 2 -15.913 -5.13 22.56 1 18.98 ? O3G GNP 201 A 1 HETATM 5 N N3B GNP . . . B 2 -13.912 -3.375 22.486 1 17.01 ? N3B GNP 201 A 1 HETATM 6 P PB GNP . . . B 2 -13.176 -3.67 21.053 1 14.28 ? PB GNP 201 A 1 HETATM 7 O O1B GNP . . . B 2 -13.06 -5.157 20.845 1 14.19 ? O1B GNP 201 A 1 HETATM 8 O O2B GNP . . . B 2 -13.964 -3.051 19.93 1 14.72 ? O2B GNP 201 A 1 HETATM 9 O O3A GNP . . . B 2 -11.674 -3.011 21.069 1 15.4 ? O3A GNP 201 A 1 HETATM 10 P PA GNP . . . B 2 -11.378 -1.492 20.704 1 14.04 ? PA GNP 201 A 1 HETATM 11 O O1A GNP . . . B 2 -11.188 -1.419 19.192 1 15.02 ? O1A GNP 201 A 1 HETATM 12 O O2A GNP . . . B 2 -12.399 -0.581 21.266 1 13.52 ? O2A GNP 201 A 1 HETATM 13 O O5' GNP . . . B 2 -9.997 -1.255 21.408 1 14.71 ? O5' GNP 201 A 1 HETATM 14 C C5' GNP . . . B 2 -9.749 -1.731 22.747 1 15.94 ? C5' GNP 201 A 1 HETATM 15 C C4' GNP . . . B 2 -8.372 -1.295 23.179 1 18.28 ? C4' GNP 201 A 1 HETATM 16 O O4' GNP . . . B 2 -7.374 -2.073 22.48 1 19.67 ? O4' GNP 201 A 1 HETATM 17 C C3' GNP . . . B 2 -8.029 0.172 22.919 1 19.25 ? C3' GNP 201 A 1 HETATM 18 O O3' GNP . . . B 2 -7.245 0.708 23.978 1 24.26 ? O3' GNP 201 A 1 HETATM 19 C C2' GNP . . . B 2 -7.246 0.112 21.605 1 18.91 ? C2' GNP 201 A 1 HETATM 20 O O2' GNP . . . B 2 -6.309 1.175 21.482 1 20.97 ? O2' GNP 201 A 1 HETATM 21 C C1' GNP . . . B 2 -6.511 -1.218 21.755 1 19.4 ? C1' GNP 201 A 1 HETATM 22 N N9 GNP . . . B 2 -6.2 -1.856 20.467 1 20.81 ? N9 GNP 201 A 1 HETATM 23 C C8 GNP . . . B 2 -7.09 -2.27 19.511 1 21.33 ? C8 GNP 201 A 1 HETATM 24 N N7 GNP . . . B 2 -6.511 -2.804 18.461 1 20.31 ? N7 GNP 201 A 1 HETATM 25 C C5 GNP . . . B 2 -5.157 -2.734 18.746 1 21.71 ? C5 GNP 201 A 1 HETATM 26 C C6 GNP . . . B 2 -4.003 -3.157 17.987 1 23.1 ? C6 GNP 201 A 1 HETATM 27 O O6 GNP . . . B 2 -3.99 -3.692 16.882 1 27.46 ? O6 GNP 201 A 1 HETATM 28 N N1 GNP . . . B 2 -2.824 -2.898 18.655 1 23.51 ? N1 GNP 201 A 1 HETATM 29 C C2 GNP . . . B 2 -2.728 -2.31 19.889 1 22.31 ? C2 GNP 201 A 1 HETATM 30 N N2 GNP . . . B 2 -1.501 -2.136 20.38 1 21.89 ? N2 GNP 201 A 1 HETATM 31 N N3 GNP . . . B 2 -3.783 -1.914 20.598 1 21.64 ? N3 GNP 201 A 1 HETATM 32 C C4 GNP . . . B 2 -4.952 -2.153 19.977 1 21.04 ? C4 GNP 201 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 258 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 32 #