data_4U5X # _model_server_result.job_id laxu3cGqUJWYLhNwVgmc5g _model_server_result.datetime_utc '2024-12-22 05:18:45' _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 4u5x # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 4U5X # _exptl.entry_id 4U5X _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 90 _cell.entry_id 4U5X _cell.length_a 36.755 _cell.length_b 59.087 _cell.length_c 64.393 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4U5X _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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,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 OG1 THR 19 A THR 24 1_555 C MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? metalc ? metalc2 A O THR 37 A THR 42 1_555 C MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.151 ? metalc ? metalc3 B O2G GNP . A GNP 201 1_555 C MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.969 ? metalc ? metalc4 B O2B GNP . A GNP 201 1_555 C MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2 ? metalc ? metalc5 C MG MG . A MG 202 1_555 G O HOH . A HOH 376 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? metalc ? metalc6 C MG MG . A MG 202 1_555 G O HOH . A HOH 378 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? # _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 4U5X _atom_sites.fract_transf_matrix[1][1] 0.027207 _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] 0.016924 _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] 0.01553 _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 1 201 200 GNP GNP . C 3 MG A 1 202 201 MG MG . D 4 GOL A 1 203 1 GOL GOL . E 4 GOL A 1 204 1 GOL GOL . F 4 GOL A 1 205 1 GOL GOL . G 5 HOH A 1 301 39 HOH HOH . G 5 HOH A 2 302 85 HOH HOH . G 5 HOH A 3 303 55 HOH HOH . G 5 HOH A 4 304 77 HOH HOH . G 5 HOH A 5 305 74 HOH HOH . G 5 HOH A 6 306 7 HOH HOH . G 5 HOH A 7 307 62 HOH HOH . G 5 HOH A 8 308 54 HOH HOH . G 5 HOH A 9 309 68 HOH HOH . G 5 HOH A 10 310 83 HOH HOH . G 5 HOH A 11 311 56 HOH HOH . G 5 HOH A 12 312 60 HOH HOH . G 5 HOH A 13 313 41 HOH HOH . G 5 HOH A 14 314 65 HOH HOH . G 5 HOH A 15 315 21 HOH HOH . G 5 HOH A 16 316 36 HOH HOH . G 5 HOH A 17 317 69 HOH HOH . G 5 HOH A 18 318 20 HOH HOH . G 5 HOH A 19 319 51 HOH HOH . G 5 HOH A 20 320 87 HOH HOH . G 5 HOH A 21 321 79 HOH HOH . G 5 HOH A 22 322 76 HOH HOH . G 5 HOH A 23 323 52 HOH HOH . G 5 HOH A 24 324 63 HOH HOH . G 5 HOH A 25 325 27 HOH HOH . G 5 HOH A 26 326 64 HOH HOH . G 5 HOH A 27 327 5 HOH HOH . G 5 HOH A 28 328 66 HOH HOH . G 5 HOH A 29 329 38 HOH HOH . G 5 HOH A 30 330 15 HOH HOH . G 5 HOH A 31 331 72 HOH HOH . G 5 HOH A 32 332 58 HOH HOH . G 5 HOH A 33 333 42 HOH HOH . G 5 HOH A 34 334 47 HOH HOH . G 5 HOH A 35 335 24 HOH HOH . G 5 HOH A 36 336 81 HOH HOH . G 5 HOH A 37 337 37 HOH HOH . G 5 HOH A 38 338 8 HOH HOH . G 5 HOH A 39 339 18 HOH HOH . G 5 HOH A 40 340 49 HOH HOH . G 5 HOH A 41 341 57 HOH HOH . G 5 HOH A 42 342 86 HOH HOH . G 5 HOH A 43 343 90 HOH HOH . G 5 HOH A 44 344 9 HOH HOH . G 5 HOH A 45 345 73 HOH HOH . G 5 HOH A 46 346 14 HOH HOH . G 5 HOH A 47 347 35 HOH HOH . G 5 HOH A 48 348 61 HOH HOH . G 5 HOH A 49 349 88 HOH HOH . G 5 HOH A 50 350 6 HOH HOH . G 5 HOH A 51 351 13 HOH HOH . G 5 HOH A 52 352 19 HOH HOH . G 5 HOH A 53 353 1 HOH HOH . G 5 HOH A 54 354 45 HOH HOH . G 5 HOH A 55 355 22 HOH HOH . G 5 HOH A 56 356 50 HOH HOH . G 5 HOH A 57 357 48 HOH HOH . G 5 HOH A 58 358 70 HOH HOH . G 5 HOH A 59 359 40 HOH HOH . G 5 HOH A 60 360 26 HOH HOH . G 5 HOH A 61 361 34 HOH HOH . G 5 HOH A 62 362 12 HOH HOH . G 5 HOH A 63 363 2 HOH HOH . G 5 HOH A 64 364 3 HOH HOH . G 5 HOH A 65 365 89 HOH HOH . G 5 HOH A 66 366 10 HOH HOH . G 5 HOH A 67 367 53 HOH HOH . G 5 HOH A 68 368 4 HOH HOH . G 5 HOH A 69 369 11 HOH HOH . G 5 HOH A 70 370 16 HOH HOH . G 5 HOH A 71 371 17 HOH HOH . G 5 HOH A 72 372 23 HOH HOH . G 5 HOH A 73 373 25 HOH HOH . G 5 HOH A 74 374 28 HOH HOH . G 5 HOH A 75 375 29 HOH HOH . G 5 HOH A 76 376 30 HOH HOH . G 5 HOH A 77 377 31 HOH HOH . G 5 HOH A 78 378 32 HOH HOH . G 5 HOH A 79 379 33 HOH HOH . G 5 HOH A 80 380 43 HOH HOH . G 5 HOH A 81 381 44 HOH HOH . G 5 HOH A 82 382 46 HOH HOH . G 5 HOH A 83 383 59 HOH HOH . G 5 HOH A 84 384 67 HOH HOH . G 5 HOH A 85 385 71 HOH HOH . G 5 HOH A 86 386 75 HOH HOH . G 5 HOH A 87 387 78 HOH HOH . G 5 HOH A 88 388 80 HOH HOH . G 5 HOH A 89 389 82 HOH HOH . G 5 HOH A 90 390 84 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 12.463 -4.32 10.962 1 10.2 ? PG GNP 201 A 1 HETATM 2 O O1G GNP . . . B 2 13.327 -3.523 10.042 1 11.77 ? O1G GNP 201 A 1 HETATM 3 O O2G GNP . . . B 2 11.847 -5.619 10.389 1 9.99 ? O2G GNP 201 A 1 HETATM 4 O O3G GNP . . . B 2 13.226 -4.553 12.341 1 11.37 ? O3G GNP 201 A 1 HETATM 5 N N3B GNP . . . B 2 11.199 -3.274 11.496 1 8.35 ? N3B GNP 201 A 1 HETATM 6 P PB GNP . . . B 2 9.938 -2.909 10.463 1 7.4 ? PB GNP 201 A 1 HETATM 7 O O1B GNP . . . B 2 10.245 -1.768 9.512 1 7.21 ? O1B GNP 201 A 1 HETATM 8 O O2B GNP . . . B 2 9.333 -4.213 9.796 1 7.12 ? O2B GNP 201 A 1 HETATM 9 O O3A GNP . . . B 2 8.871 -2.336 11.489 1 8.02 ? O3A GNP 201 A 1 HETATM 10 P PA GNP . . . B 2 7.584 -3.043 12.101 1 9.46 ? PA GNP 201 A 1 HETATM 11 O O1A GNP . . . B 2 6.513 -3.28 11.071 1 9.18 ? O1A GNP 201 A 1 HETATM 12 O O2A GNP . . . B 2 8.006 -4.247 12.919 1 9.45 ? O2A GNP 201 A 1 HETATM 13 O O5' GNP . . . B 2 6.981 -1.909 13.094 1 8.66 ? O5' GNP 201 A 1 HETATM 14 C C5' GNP . . . B 2 7.956 -1.305 14.008 1 9.21 ? C5' GNP 201 A 1 HETATM 15 C C4' GNP . . . B 2 7.186 -0.569 15.127 1 8.83 ? C4' GNP 201 A 1 HETATM 16 O O4' GNP . . . B 2 6.358 0.448 14.492 1 8.38 ? O4' GNP 201 A 1 HETATM 17 C C3' GNP . . . B 2 6.191 -1.388 15.918 1 9.1 ? C3' GNP 201 A 1 HETATM 18 O O3' GNP . . . B 2 6.257 -0.883 17.268 1 9.45 ? O3' GNP 201 A 1 HETATM 19 C C2' GNP . . . B 2 4.875 -1.039 15.274 1 8.8 ? C2' GNP 201 A 1 HETATM 20 O O2' GNP . . . B 2 3.697 -1.126 16.07 1 8.31 ? O2' GNP 201 A 1 HETATM 21 C C1' GNP . . . B 2 5.048 0.413 14.899 1 8.18 ? C1' GNP 201 A 1 HETATM 22 N N9 GNP . . . B 2 4.281 0.723 13.678 1 8.27 ? N9 GNP 201 A 1 HETATM 23 C C8 GNP . . . B 2 4.337 0.168 12.44 1 8.07 ? C8 GNP 201 A 1 HETATM 24 N N7 GNP . . . B 2 3.489 0.809 11.606 1 7.57 ? N7 GNP 201 A 1 HETATM 25 C C5 GNP . . . B 2 2.953 1.849 12.275 1 7.77 ? C5 GNP 201 A 1 HETATM 26 C C6 GNP . . . B 2 1.974 2.933 12.015 1 7.71 ? C6 GNP 201 A 1 HETATM 27 O O6 GNP . . . B 2 1.42 3.108 10.914 1 7.66 ? O6 GNP 201 A 1 HETATM 28 N N1 GNP . . . B 2 1.694 3.788 13.029 1 7.92 ? N1 GNP 201 A 1 HETATM 29 C C2 GNP . . . B 2 2.224 3.651 14.276 1 8.19 ? C2 GNP 201 A 1 HETATM 30 N N2 GNP . . . B 2 1.835 4.567 15.221 1 7.97 ? N2 GNP 201 A 1 HETATM 31 N N3 GNP . . . B 2 3.132 2.664 14.587 1 8.01 ? N3 GNP 201 A 1 HETATM 32 C C4 GNP . . . B 2 3.502 1.79 13.645 1 8.01 ? C4 GNP 201 A 1 # _model_server_stats.io_time_ms 68 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 301 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 32 #