data_7OGA # _model_server_result.job_id OtxEnXFmFMD42ePjrpRzbQ _model_server_result.datetime_utc '2025-01-12 14:52:51' _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 7oga # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 7OGA # _exptl.entry_id 7OGA _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 7OGA _cell.length_a 39.482 _cell.length_b 39.482 _cell.length_c 160.805 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7OGA _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details PISA _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 _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 ? ? ? ? ? ? ? ? ? ? ? ? 2.128 ? metalc ? metalc2 A OG1 THR 35 A THR 35 1_555 C MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.167 ? metalc ? metalc3 B O2G GNP . A GNP 201 1_555 C MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.119 ? metalc ? metalc4 B O2B GNP . A GNP 201 1_555 C MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.088 ? metalc ? metalc5 C MG MG . A MG 202 1_555 E O HOH . A HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.171 ? metalc ? metalc6 C MG MG . A MG 202 1_555 E O HOH . A HOH 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.135 ? # _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 7OGA _atom_sites.fract_transf_matrix[1][1] 0.025328 _atom_sites.fract_transf_matrix[1][2] 0.014623 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.029246 _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] 0.006219 _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 3 304 304 HOH HOH . E 5 HOH A 4 305 305 HOH HOH . E 5 HOH A 5 306 306 HOH HOH . E 5 HOH A 6 307 307 HOH HOH . E 5 HOH A 7 308 308 HOH HOH . E 5 HOH A 8 309 309 HOH HOH . E 5 HOH A 9 310 310 HOH HOH . E 5 HOH A 10 311 311 HOH HOH . E 5 HOH A 11 312 312 HOH HOH . E 5 HOH A 12 313 313 HOH HOH . E 5 HOH A 13 314 314 HOH HOH . E 5 HOH A 14 315 315 HOH HOH . E 5 HOH A 15 316 316 HOH HOH . E 5 HOH A 16 317 317 HOH HOH . E 5 HOH A 17 318 318 HOH HOH . E 5 HOH A 18 319 319 HOH HOH . E 5 HOH A 19 320 320 HOH HOH . E 5 HOH A 20 321 321 HOH HOH . E 5 HOH A 21 322 322 HOH HOH . E 5 HOH A 22 323 323 HOH HOH . E 5 HOH A 23 324 324 HOH HOH . E 5 HOH A 24 325 325 HOH HOH . E 5 HOH A 25 326 326 HOH HOH . E 5 HOH A 26 327 327 HOH HOH . E 5 HOH A 27 328 328 HOH HOH . E 5 HOH A 28 329 329 HOH HOH . E 5 HOH A 29 330 330 HOH HOH . E 5 HOH A 30 331 331 HOH HOH . E 5 HOH A 31 332 332 HOH HOH . E 5 HOH A 32 333 333 HOH HOH . E 5 HOH A 33 334 334 HOH HOH . E 5 HOH A 34 335 335 HOH HOH . E 5 HOH A 35 336 336 HOH HOH . E 5 HOH A 36 337 337 HOH HOH . E 5 HOH A 37 338 338 HOH HOH . E 5 HOH A 38 339 339 HOH HOH . E 5 HOH A 39 340 340 HOH HOH . E 5 HOH A 40 341 341 HOH HOH . E 5 HOH A 41 342 342 HOH HOH . E 5 HOH A 42 343 343 HOH HOH . E 5 HOH A 43 344 344 HOH HOH . E 5 HOH A 44 345 345 HOH HOH . E 5 HOH A 45 346 346 HOH HOH . E 5 HOH A 46 347 347 HOH HOH . E 5 HOH A 47 348 348 HOH HOH . E 5 HOH A 48 349 349 HOH HOH . E 5 HOH A 49 350 350 HOH HOH . E 5 HOH A 50 351 351 HOH HOH . E 5 HOH A 51 352 352 HOH HOH . E 5 HOH A 52 353 353 HOH HOH . E 5 HOH A 53 354 354 HOH HOH . E 5 HOH A 54 355 355 HOH HOH . E 5 HOH A 55 356 356 HOH HOH . E 5 HOH A 56 357 357 HOH HOH . E 5 HOH A 57 358 358 HOH HOH . E 5 HOH A 58 359 359 HOH HOH . E 5 HOH A 59 360 360 HOH HOH . E 5 HOH A 60 361 361 HOH HOH . E 5 HOH A 61 362 362 HOH HOH . E 5 HOH A 62 363 363 HOH HOH . E 5 HOH A 63 364 364 HOH HOH . E 5 HOH A 64 365 365 HOH HOH . E 5 HOH A 65 366 366 HOH HOH . E 5 HOH A 66 367 367 HOH HOH . E 5 HOH A 67 368 368 HOH HOH . E 5 HOH A 68 369 369 HOH HOH . E 5 HOH A 69 370 370 HOH HOH . E 5 HOH A 70 371 371 HOH HOH . E 5 HOH A 71 372 372 HOH HOH . E 5 HOH A 72 373 373 HOH HOH . E 5 HOH A 73 374 374 HOH HOH . E 5 HOH A 74 375 375 HOH HOH . E 5 HOH A 75 376 376 HOH HOH . E 5 HOH A 76 377 377 HOH HOH . E 5 HOH A 77 378 378 HOH HOH . E 5 HOH A 78 379 379 HOH HOH . E 5 HOH A 79 380 380 HOH HOH . E 5 HOH A 80 381 381 HOH HOH . E 5 HOH A 81 382 382 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 15.404 2.953 21.911 1 24.65 ? PG GNP 201 A 1 HETATM 2 O O1G GNP . . . B 2 15.66 2.261 23.217 1 26.22 ? O1G GNP 201 A 1 HETATM 3 O O2G GNP . . . B 2 16.218 2.096 20.947 1 24.99 ? O2G GNP 201 A 1 HETATM 4 O O3G GNP . . . B 2 15.868 4.412 21.883 1 26.18 ? O3G GNP 201 A 1 HETATM 5 N N3B GNP . . . B 2 13.726 2.65 21.612 1 24.52 ? N3B GNP 201 A 1 HETATM 6 P PB GNP . . . B 2 13.072 2.987 20.062 1 22.8 ? PB GNP 201 A 1 HETATM 7 O O1B GNP . . . B 2 12.918 4.417 19.714 1 21.2 ? O1B GNP 201 A 1 HETATM 8 O O2B GNP . . . B 2 13.875 2.292 18.951 1 22.08 ? O2B GNP 201 A 1 HETATM 9 O O3A GNP . . . B 2 11.695 2.233 20.111 1 19.54 ? O3A GNP 201 A 1 HETATM 10 P PA GNP . . . B 2 11.209 0.76 19.697 1 23.73 ? PA GNP 201 A 1 HETATM 11 O O1A GNP . . . B 2 11.152 0.705 18.184 1 20.72 ? O1A GNP 201 A 1 HETATM 12 O O2A GNP . . . B 2 11.956 -0.229 20.533 1 22.62 ? O2A GNP 201 A 1 HETATM 13 O O5' GNP . . . B 2 9.709 0.926 20.168 1 23.16 ? O5' GNP 201 A 1 HETATM 14 C C5' GNP . . . B 2 9.404 0.99 21.572 1 23.85 ? C5' GNP 201 A 1 HETATM 15 C C4' GNP . . . B 2 8.037 0.386 21.856 1 23.87 ? C4' GNP 201 A 1 HETATM 16 O O4' GNP . . . B 2 7.037 1.085 21.131 1 23.56 ? O4' GNP 201 A 1 HETATM 17 C C3' GNP . . . B 2 7.881 -1.046 21.387 1 28.71 ? C3' GNP 201 A 1 HETATM 18 O O3' GNP . . . B 2 7.047 -1.724 22.35 1 27.3 ? O3' GNP 201 A 1 HETATM 19 C C2' GNP . . . B 2 7.13 -0.898 20.09 1 28.72 ? C2' GNP 201 A 1 HETATM 20 O O2' GNP . . . B 2 6.318 -1.977 19.639 1 32.79 ? O2' GNP 201 A 1 HETATM 21 C C1' GNP . . . B 2 6.222 0.332 20.294 1 25.11 ? C1' GNP 201 A 1 HETATM 22 N N9 GNP . . . B 2 6.018 1.084 19.012 1 24.41 ? N9 GNP 201 A 1 HETATM 23 C C8 GNP . . . B 2 6.943 1.514 18.122 1 24.57 ? C8 GNP 201 A 1 HETATM 24 N N7 GNP . . . B 2 6.367 2.116 17.08 1 24.15 ? N7 GNP 201 A 1 HETATM 25 C C5 GNP . . . B 2 5.067 2.067 17.298 1 24.92 ? C5 GNP 201 A 1 HETATM 26 C C6 GNP . . . B 2 3.93 2.544 16.574 1 24.88 ? C6 GNP 201 A 1 HETATM 27 O O6 GNP . . . B 2 4.101 3.144 15.493 1 24.53 ? O6 GNP 201 A 1 HETATM 28 N N1 GNP . . . B 2 2.74 2.309 17.142 1 26.56 ? N1 GNP 201 A 1 HETATM 29 C C2 GNP . . . B 2 2.588 1.648 18.329 1 25.59 ? C2 GNP 201 A 1 HETATM 30 N N2 GNP . . . B 2 1.354 1.45 18.788 1 26.89 ? N2 GNP 201 A 1 HETATM 31 N N3 GNP . . . B 2 3.592 1.204 19.089 1 23.44 ? N3 GNP 201 A 1 HETATM 32 C C4 GNP . . . B 2 4.833 1.378 18.564 1 25.38 ? C4 GNP 201 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 309 _model_server_stats.encode_time_ms 16 _model_server_stats.element_count 32 #