data_8OSM # _model_server_result.job_id RSBtor1Y31SUUVg5T6bZWg _model_server_result.datetime_utc '2024-12-05 04:06:07' _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 8osm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 8OSM # _exptl.entry_id 8OSM _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 8OSM _cell.length_a 39.371 _cell.length_b 39.371 _cell.length_c 158.899 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8OSM _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_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _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 ? ? ? ? ? ? ? ? ? ? ? ? 1.99 ? metalc ? metalc2 A OG1 THR 35 A THR 35 1_555 C MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? metalc ? metalc3 B O2G GNP . A GNP 201 1_555 C MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.991 ? metalc ? metalc4 B O2B GNP . A GNP 201 1_555 C MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? metalc ? metalc5 C MG MG . A MG 202 1_555 E O HOH . A HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.192 ? metalc ? metalc6 C MG MG . A MG 202 1_555 E O HOH . A HOH 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.943 ? # _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 8OSM _atom_sites.fract_transf_matrix[1][1] 0.025399 _atom_sites.fract_transf_matrix[1][2] 0.014664 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.029329 _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] 0.006293 _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 1 203 203 PGE PGE . E 5 HOH A 1 301 301 HOH HOH . E 5 HOH A 2 302 302 HOH HOH . E 5 HOH A 3 303 353 HOH HOH . E 5 HOH A 4 304 362 HOH HOH . E 5 HOH A 5 305 308 HOH HOH . E 5 HOH A 6 306 330 HOH HOH . E 5 HOH A 7 307 361 HOH HOH . E 5 HOH A 8 308 326 HOH HOH . E 5 HOH A 9 309 328 HOH HOH . E 5 HOH A 10 310 348 HOH HOH . E 5 HOH A 11 311 358 HOH HOH . E 5 HOH A 12 312 312 HOH HOH . E 5 HOH A 13 313 313 HOH HOH . E 5 HOH A 14 314 304 HOH HOH . E 5 HOH A 15 315 319 HOH HOH . E 5 HOH A 16 316 357 HOH HOH . E 5 HOH A 17 317 306 HOH HOH . E 5 HOH A 18 318 340 HOH HOH . E 5 HOH A 19 319 337 HOH HOH . E 5 HOH A 20 320 311 HOH HOH . E 5 HOH A 21 321 307 HOH HOH . E 5 HOH A 22 322 335 HOH HOH . E 5 HOH A 23 323 320 HOH HOH . E 5 HOH A 24 324 339 HOH HOH . E 5 HOH A 25 325 303 HOH HOH . E 5 HOH A 26 326 325 HOH HOH . E 5 HOH A 27 327 342 HOH HOH . E 5 HOH A 28 328 324 HOH HOH . E 5 HOH A 29 329 332 HOH HOH . E 5 HOH A 30 330 327 HOH HOH . E 5 HOH A 31 331 309 HOH HOH . E 5 HOH A 32 332 317 HOH HOH . E 5 HOH A 33 333 305 HOH HOH . E 5 HOH A 34 334 315 HOH HOH . E 5 HOH A 35 335 321 HOH HOH . E 5 HOH A 36 336 316 HOH HOH . E 5 HOH A 37 337 344 HOH HOH . E 5 HOH A 38 338 322 HOH HOH . E 5 HOH A 39 339 345 HOH HOH . E 5 HOH A 40 340 351 HOH HOH . E 5 HOH A 41 341 323 HOH HOH . E 5 HOH A 42 342 343 HOH HOH . E 5 HOH A 43 343 336 HOH HOH . E 5 HOH A 44 344 318 HOH HOH . E 5 HOH A 45 345 354 HOH HOH . E 5 HOH A 46 346 334 HOH HOH . E 5 HOH A 47 347 338 HOH HOH . E 5 HOH A 48 348 349 HOH HOH . E 5 HOH A 49 349 310 HOH HOH . E 5 HOH A 50 350 314 HOH HOH . E 5 HOH A 51 351 360 HOH HOH . E 5 HOH A 52 352 331 HOH HOH . E 5 HOH A 53 353 359 HOH HOH . E 5 HOH A 54 354 346 HOH HOH . E 5 HOH A 55 355 347 HOH HOH . E 5 HOH A 56 356 356 HOH HOH . E 5 HOH A 57 357 355 HOH HOH . E 5 HOH A 58 358 333 HOH HOH . E 5 HOH A 59 359 352 HOH HOH . E 5 HOH A 60 360 350 HOH HOH . E 5 HOH A 61 361 341 HOH HOH . E 5 HOH A 62 362 329 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 15.321 2.989 21.681 1 28.55 ? PG GNP 201 A 1 HETATM 2 O O1G GNP . . . B 2 15.631 2.435 23.043 1 32.68 ? O1G GNP 201 A 1 HETATM 3 O O2G GNP . . . B 2 16.052 2.178 20.619 1 26.63 ? O2G GNP 201 A 1 HETATM 4 O O3G GNP . . . B 2 15.782 4.468 21.616 1 36.4 ? O3G GNP 201 A 1 HETATM 5 N N3B GNP . . . B 2 13.637 2.908 21.403 1 16.63 ? N3B GNP 201 A 1 HETATM 6 P PB GNP . . . B 2 13 3.11 19.904 1 23.75 ? PB GNP 201 A 1 HETATM 7 O O1B GNP . . . B 2 12.874 4.577 19.57 1 20.39 ? O1B GNP 201 A 1 HETATM 8 O O2B GNP . . . B 2 13.829 2.403 18.866 1 18.82 ? O2B GNP 201 A 1 HETATM 9 O O3A GNP . . . B 2 11.499 2.469 19.918 1 18.68 ? O3A GNP 201 A 1 HETATM 10 P PA GNP . . . B 2 11.141 0.978 19.505 1 25.07 ? PA GNP 201 A 1 HETATM 11 O O1A GNP . . . B 2 11.159 0.909 17.979 1 25.44 ? O1A GNP 201 A 1 HETATM 12 O O2A GNP . . . B 2 11.984 -0.021 20.2 1 23.21 ? O2A GNP 201 A 1 HETATM 13 O O5' GNP . . . B 2 9.662 0.887 20.003 1 20.41 ? O5' GNP 201 A 1 HETATM 14 C C5' GNP . . . B 2 9.316 1.15 21.379 1 21.46 ? C5' GNP 201 A 1 HETATM 15 C C4' GNP . . . B 2 7.938 0.594 21.628 1 27.32 ? C4' GNP 201 A 1 HETATM 16 O O4' GNP . . . B 2 6.965 1.353 20.873 1 28.83 ? O4' GNP 201 A 1 HETATM 17 C C3' GNP . . . B 2 7.745 -0.867 21.223 1 29.89 ? C3' GNP 201 A 1 HETATM 18 O O3' GNP . . . B 2 6.881 -1.536 22.134 1 30.52 ? O3' GNP 201 A 1 HETATM 19 C C2' GNP . . . B 2 7.125 -0.751 19.829 1 29.71 ? C2' GNP 201 A 1 HETATM 20 O O2' GNP . . . B 2 6.35 -1.897 19.49 1 29.75 ? O2' GNP 201 A 1 HETATM 21 C C1' GNP . . . B 2 6.257 0.496 20 1 25.11 ? C1' GNP 201 A 1 HETATM 22 N N9 GNP . . . B 2 6.003 1.216 18.742 1 20.9 ? N9 GNP 201 A 1 HETATM 23 C C8 GNP . . . B 2 6.927 1.675 17.84 1 25.73 ? C8 GNP 201 A 1 HETATM 24 N N7 GNP . . . B 2 6.386 2.273 16.804 1 25.73 ? N7 GNP 201 A 1 HETATM 25 C C5 GNP . . . B 2 5.024 2.206 17.044 1 24.1 ? C5 GNP 201 A 1 HETATM 26 C C6 GNP . . . B 2 3.899 2.687 16.278 1 21.77 ? C6 GNP 201 A 1 HETATM 27 O O6 GNP . . . B 2 3.929 3.281 15.204 1 29.38 ? O6 GNP 201 A 1 HETATM 28 N N1 GNP . . . B 2 2.696 2.402 16.895 1 24.1 ? N1 GNP 201 A 1 HETATM 29 C C2 GNP . . . B 2 2.558 1.743 18.088 1 26.74 ? C2 GNP 201 A 1 HETATM 30 N N2 GNP . . . B 2 1.315 1.551 18.535 1 25.1 ? N2 GNP 201 A 1 HETATM 31 N N3 GNP . . . B 2 3.587 1.299 18.805 1 25.65 ? N3 GNP 201 A 1 HETATM 32 C C4 GNP . . . B 2 4.777 1.557 18.231 1 26.01 ? C4 GNP 201 A 1 # _model_server_stats.io_time_ms 38 _model_server_stats.parse_time_ms 28 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 505 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 32 #