data_6GOD # _model_server_result.job_id 3TRqpjRFh2j8C7qOaIoX-g _model_server_result.datetime_utc '2024-11-02 12:17:36' _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 6god # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":202}' # _entry.id 6GOD # _exptl.entry_id 6GOD _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 120 _cell.entry_id 6GOD _cell.length_a 78.76 _cell.length_b 78.76 _cell.length_c 77.18 _cell.Z_PDB 9 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6GOD _symmetry.cell_setting ? _symmetry.Int_Tables_number 146 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3' # _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,F _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 O GLY 10 A GLY 10 1_555 E MG MG . A MG 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.506 ? metalc ? metalc2 A OG SER 17 A SER 17 1_555 B MG MG . A MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? metalc ? metalc3 A OG1 THR 35 A THR 35 1_555 B MG MG . A MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? metalc ? metalc4 A O ALA 59 A ALA 59 1_555 E MG MG . A MG 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.391 ? metalc ? metalc5 A O GLY 60 A GLY 60 1_555 E MG MG . A MG 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.459 ? metalc ? metalc6 A OH TYR 96 A TYR 96 1_555 E MG MG . A MG 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.356 ? metalc ? metalc7 B MG MG . A MG 201 1_555 C O2G GNP . A GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? metalc ? metalc8 B MG MG . A MG 201 1_555 C O1B GNP . A GNP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? metalc ? metalc9 B MG MG . A MG 201 1_555 F O HOH . A HOH 326 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.165 ? metalc ? metalc10 B MG MG . A MG 201 1_555 F O HOH . A HOH 332 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.942 ? metalc ? metalc11 E MG MG . A MG 204 1_555 F O HOH . A HOH 319 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? metalc ? metalc12 E MG MG . A MG 204 1_555 F O HOH . A HOH 341 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.373 ? # _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 6GOD _atom_sites.fract_transf_matrix[1][1] 0.012697 _atom_sites.fract_transf_matrix[1][2] 0.007331 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014661 _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] 0.012957 _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 MG A 1 201 202 MG MG . C 3 GNP A 1 202 201 GNP GNP . D 4 GOL A 1 203 203 GOL GOL . E 2 MG A 1 204 97 MG MG . F 5 HOH A 1 301 82 HOH HOH . F 5 HOH A 2 302 1 HOH HOH . F 5 HOH A 3 303 10 HOH HOH . F 5 HOH A 4 304 74 HOH HOH . F 5 HOH A 5 305 70 HOH HOH . F 5 HOH A 6 306 40 HOH HOH . F 5 HOH A 7 307 48 HOH HOH . F 5 HOH A 8 308 19 HOH HOH . F 5 HOH A 9 309 2 HOH HOH . F 5 HOH A 10 310 11 HOH HOH . F 5 HOH A 11 311 18 HOH HOH . F 5 HOH A 12 312 30 HOH HOH . F 5 HOH A 13 313 35 HOH HOH . F 5 HOH A 14 314 7 HOH HOH . F 5 HOH A 15 315 17 HOH HOH . F 5 HOH A 16 316 36 HOH HOH . F 5 HOH A 17 317 15 HOH HOH . F 5 HOH A 18 318 53 HOH HOH . F 5 HOH A 19 319 95 HOH HOH . F 5 HOH A 20 320 5 HOH HOH . F 5 HOH A 21 321 64 HOH HOH . F 5 HOH A 22 322 12 HOH HOH . F 5 HOH A 23 323 71 HOH HOH . F 5 HOH A 24 324 43 HOH HOH . F 5 HOH A 25 325 27 HOH HOH . F 5 HOH A 26 326 8 HOH HOH . F 5 HOH A 27 327 22 HOH HOH . F 5 HOH A 28 328 32 HOH HOH . F 5 HOH A 29 329 76 HOH HOH . F 5 HOH A 30 330 6 HOH HOH . F 5 HOH A 31 331 54 HOH HOH . F 5 HOH A 32 332 3 HOH HOH . F 5 HOH A 33 333 23 HOH HOH . F 5 HOH A 34 334 1 HOH HOH . F 5 HOH A 35 335 24 HOH HOH . F 5 HOH A 36 336 25 HOH HOH . F 5 HOH A 37 337 45 HOH HOH . F 5 HOH A 38 338 52 HOH HOH . F 5 HOH A 39 339 44 HOH HOH . F 5 HOH A 40 340 20 HOH HOH . F 5 HOH A 41 341 2 HOH HOH . F 5 HOH A 42 342 9 HOH HOH . F 5 HOH A 43 343 5 HOH HOH . F 5 HOH A 44 344 56 HOH HOH . F 5 HOH A 45 345 57 HOH HOH . F 5 HOH A 46 346 4 HOH HOH . F 5 HOH A 47 347 33 HOH HOH . F 5 HOH A 48 348 68 HOH HOH . F 5 HOH A 49 349 83 HOH HOH . F 5 HOH A 50 350 72 HOH HOH . F 5 HOH A 51 351 92 HOH HOH . F 5 HOH A 52 352 65 HOH HOH . F 5 HOH A 53 353 14 HOH HOH . F 5 HOH A 54 354 31 HOH HOH . F 5 HOH A 55 355 37 HOH HOH . F 5 HOH A 56 356 90 HOH HOH . F 5 HOH A 57 357 21 HOH HOH . F 5 HOH A 58 358 42 HOH HOH . F 5 HOH A 59 359 86 HOH HOH . F 5 HOH A 60 360 63 HOH HOH . F 5 HOH A 61 361 91 HOH HOH . F 5 HOH A 62 362 4 HOH HOH . F 5 HOH A 63 363 16 HOH HOH . F 5 HOH A 64 364 84 HOH HOH . F 5 HOH A 65 365 39 HOH HOH . F 5 HOH A 66 366 26 HOH HOH . F 5 HOH A 67 367 73 HOH HOH . F 5 HOH A 68 368 96 HOH HOH . F 5 HOH A 69 369 75 HOH HOH . F 5 HOH A 70 370 29 HOH HOH . F 5 HOH A 71 371 38 HOH HOH . F 5 HOH A 72 372 51 HOH HOH . F 5 HOH A 73 373 50 HOH HOH . F 5 HOH A 74 374 13 HOH HOH . F 5 HOH A 75 375 85 HOH HOH . F 5 HOH A 76 376 41 HOH HOH . F 5 HOH A 77 377 3 HOH HOH . F 5 HOH A 78 378 69 HOH HOH . F 5 HOH A 79 379 78 HOH HOH . F 5 HOH A 80 380 81 HOH HOH . F 5 HOH A 81 381 79 HOH HOH . F 5 HOH A 82 382 58 HOH HOH . F 5 HOH A 83 383 61 HOH HOH . F 5 HOH A 84 384 49 HOH HOH . F 5 HOH A 85 385 28 HOH HOH . F 5 HOH A 86 386 80 HOH HOH . F 5 HOH A 87 387 47 HOH HOH . F 5 HOH A 88 388 55 HOH HOH . F 5 HOH A 89 389 94 HOH HOH . F 5 HOH A 90 390 34 HOH HOH . F 5 HOH A 91 391 87 HOH HOH . F 5 HOH A 92 392 88 HOH HOH . F 5 HOH A 93 393 93 HOH HOH . F 5 HOH A 94 394 62 HOH HOH . F 5 HOH A 95 395 89 HOH HOH . F 5 HOH A 96 396 60 HOH HOH . F 5 HOH A 97 397 59 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 -8.273 -12.569 17.554 1 22.13 ? PG GNP 202 A 1 HETATM 2 O O1G GNP . . . C 3 -7.14 -12.16 16.564 1 22.28 ? O1G GNP 202 A 1 HETATM 3 O O2G GNP . . . C 3 -9.119 -13.613 16.926 1 22.68 ? O2G GNP 202 A 1 HETATM 4 O O3G GNP . . . C 3 -8.989 -11.328 18.045 1 22.12 ? O3G GNP 202 A 1 HETATM 5 N N3B GNP . . . C 3 -7.504 -13.275 18.808 1 19.99 ? N3B GNP 202 A 1 HETATM 6 P PB GNP . . . C 3 -8.347 -13.992 20.052 1 19.21 ? PB GNP 202 A 1 HETATM 7 O O1B GNP . . . C 3 -9.392 -14.943 19.576 1 19.3 ? O1B GNP 202 A 1 HETATM 8 O O2B GNP . . . C 3 -8.743 -12.969 21.116 1 18.19 ? O2B GNP 202 A 1 HETATM 9 O O3A GNP . . . C 3 -7.211 -14.834 20.792 1 18.98 ? O3A GNP 202 A 1 HETATM 10 P PA GNP . . . C 3 -6.958 -16.449 20.691 1 20.78 ? PA GNP 202 A 1 HETATM 11 O O1A GNP . . . C 3 -6.655 -16.808 19.25 1 23.28 ? O1A GNP 202 A 1 HETATM 12 O O2A GNP . . . C 3 -8.056 -17.201 21.347 1 20.26 ? O2A GNP 202 A 1 HETATM 13 O O5' GNP . . . C 3 -5.655 -16.596 21.557 1 20.96 ? O5' GNP 202 A 1 HETATM 14 C C5' GNP . . . C 3 -4.426 -15.885 21.238 1 22.05 ? C5' GNP 202 A 1 HETATM 15 C C4' GNP . . . C 3 -3.251 -16.603 21.852 1 22.15 ? C4' GNP 202 A 1 HETATM 16 O O4' GNP . . . C 3 -3.355 -16.558 23.305 1 23.73 ? O4' GNP 202 A 1 HETATM 17 C C3' GNP . . . C 3 -3.136 -18.091 21.48 1 22.29 ? C3' GNP 202 A 1 HETATM 18 O O3' GNP . . . C 3 -1.762 -18.44 21.378 1 28.84 ? O3' GNP 202 A 1 HETATM 19 C C2' GNP . . . C 3 -3.798 -18.791 22.671 1 23.34 ? C2' GNP 202 A 1 HETATM 20 O O2' GNP . . . C 3 -3.323 -20.093 22.935 1 26.01 ? O2' GNP 202 A 1 HETATM 21 C C1' GNP . . . C 3 -3.413 -17.875 23.829 1 22.09 ? C1' GNP 202 A 1 HETATM 22 N N9 GNP . . . C 3 -4.36 -17.935 24.935 1 20.9 ? N9 GNP 202 A 1 HETATM 23 C C8 GNP . . . C 3 -5.729 -17.711 24.893 1 21.05 ? C8 GNP 202 A 1 HETATM 24 N N7 GNP . . . C 3 -6.297 -17.817 26.063 1 20.45 ? N7 GNP 202 A 1 HETATM 25 C C5 GNP . . . C 3 -5.264 -18.094 26.943 1 18.58 ? C5 GNP 202 A 1 HETATM 26 C C6 GNP . . . C 3 -5.251 -18.301 28.347 1 21.31 ? C6 GNP 202 A 1 HETATM 27 O O6 GNP . . . C 3 -6.202 -18.233 29.127 1 23.75 ? O6 GNP 202 A 1 HETATM 28 N N1 GNP . . . C 3 -3.96 -18.516 28.839 1 21.49 ? N1 GNP 202 A 1 HETATM 29 C C2 GNP . . . C 3 -2.833 -18.596 28.062 1 21.46 ? C2 GNP 202 A 1 HETATM 30 N N2 GNP . . . C 3 -1.659 -18.839 28.662 1 24.46 ? N2 GNP 202 A 1 HETATM 31 N N3 GNP . . . C 3 -2.848 -18.383 26.752 1 21.01 ? N3 GNP 202 A 1 HETATM 32 C C4 GNP . . . C 3 -4.075 -18.16 26.252 1 20.04 ? C4 GNP 202 A 1 # _model_server_stats.io_time_ms 56 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 282 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 32 #