data_7DPJ # _model_server_result.job_id wbLgjUHHL9sDS1tVs7ccbw _model_server_result.datetime_utc '2024-11-15 10:02:28' _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 7dpj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":206}' # _entry.id 7DPJ # _exptl.entry_id 7DPJ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 522.196 _entity.id 4 _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 7DPJ _cell.length_a 91.844 _cell.length_b 91.844 _cell.length_c 121.413 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7DPJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3 2' # _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,F,G,H _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 4 _struct_asym.id G _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 22 A SER 17 1_555 B MG MG . A MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.232 ? metalc ? metalc2 A O ASN 31 A ASN 26 1_555 E CA CA . A CA 204 18_444 ? ? ? ? ? ? ? ? ? ? ? ? 2.269 ? metalc ? metalc3 A OD1 ASP 35 A ASP 30 1_555 D CA CA . A CA 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.349 ? metalc ? metalc4 A OD1 ASP 35 A ASP 30 1_555 D CA CA . A CA 203 18_444 ? ? ? ? ? ? ? ? ? ? ? ? 2.35 ? metalc ? metalc5 A OE2 GLU 36 A GLU 31 1_555 D CA CA . A CA 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.651 ? metalc ? metalc6 A OE2 GLU 36 A GLU 31 1_555 D CA CA . A CA 203 18_444 ? ? ? ? ? ? ? ? ? ? ? ? 2.651 ? metalc ? metalc7 A OD1 ASP 38 A ASP 33 1_555 E CA CA . A CA 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.74 ? metalc ? metalc8 A OD2 ASP 38 A ASP 33 1_555 E CA CA . A CA 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.76 ? metalc ? metalc9 A O THR 40 A THR 35 1_555 E CA CA . A CA 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? metalc ? metalc10 A OG1 THR 40 A THR 35 1_555 E CA CA . A CA 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.494 ? metalc ? metalc11 A O ARG 107 A ARG 102 1_555 F CA CA . A CA 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.346 ? metalc ? metalc12 A O ARG 107 A ARG 102 1_555 F CA CA . A CA 205 16_544 ? ? ? ? ? ? ? ? ? ? ? ? 2.346 ? metalc ? metalc13 A OD1 ASP 110 A ASP 105 1_555 F CA CA . A CA 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? metalc ? metalc14 A OD2 ASP 110 A ASP 105 1_555 F CA CA . A CA 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.564 ? metalc ? metalc15 A OD1 ASP 110 A ASP 105 1_555 F CA CA . A CA 205 16_544 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? metalc ? metalc16 A OD2 ASP 110 A ASP 105 1_555 F CA CA . A CA 205 16_544 ? ? ? ? ? ? ? ? ? ? ? ? 2.564 ? metalc ? metalc17 B MG MG . A MG 201 1_555 G O2G GNP . A GNP 206 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? metalc ? metalc18 B MG MG . A MG 201 1_555 G O2B GNP . A GNP 206 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.243 ? metalc ? metalc19 B MG MG . A MG 201 1_555 H O HOH . A HOH 313 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.207 ? metalc ? metalc20 B MG MG . A MG 201 1_555 H O HOH . A HOH 318 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.111 ? metalc ? metalc21 B MG MG . A MG 201 1_555 H O HOH . A HOH 357 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.285 ? metalc ? metalc22 C MG MG . A MG 202 1_555 H O HOH . A HOH 335 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.192 ? metalc ? metalc23 C MG MG . A MG 202 1_555 H O HOH . A HOH 335 2_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.192 ? metalc ? metalc24 C MG MG . A MG 202 1_555 H O HOH . A HOH 345 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.37 ? metalc ? metalc25 C MG MG . A MG 202 1_555 H O HOH . A HOH 345 3_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.37 ? metalc ? metalc26 D CA CA . A CA 203 1_555 H O HOH . A HOH 314 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.158 ? metalc ? metalc27 D CA CA . A CA 203 1_555 H O HOH . A HOH 314 18_444 ? ? ? ? ? ? ? ? ? ? ? ? 2.157 ? metalc ? metalc28 D CA CA . A CA 203 1_555 H O HOH . A HOH 330 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.365 ? metalc ? metalc29 D CA CA . A CA 203 1_555 H O HOH . A HOH 330 18_444 ? ? ? ? ? ? ? ? ? ? ? ? 2.365 ? metalc ? metalc30 E CA CA . A CA 204 1_555 H O HOH . A HOH 332 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.904 ? metalc ? metalc31 F CA CA . A CA 205 1_555 H O HOH . A HOH 353 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.271 ? metalc ? metalc32 F CA CA . A CA 205 1_555 H O HOH . A HOH 353 16_544 ? ? ? ? ? ? ? ? ? ? ? ? 2.271 ? # _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 7DPJ _atom_sites.fract_transf_matrix[1][1] 0.010888 _atom_sites.fract_transf_matrix[1][2] 0.006286 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012572 _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] 0.008236 _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 1 201 201 MG MG . C 2 MG A 1 202 202 MG MG . D 3 CA A 1 203 301 CA CA . E 3 CA A 1 204 302 CA CA . F 3 CA A 1 205 303 CA CA . G 4 GNP A 1 206 528 GNP GNP . H 5 HOH A 1 301 2 HOH HOH . H 5 HOH A 2 302 47 HOH HOH . H 5 HOH A 3 303 46 HOH HOH . H 5 HOH A 4 304 1 HOH HOH . H 5 HOH A 5 305 66 HOH HOH . H 5 HOH A 6 306 62 HOH HOH . H 5 HOH A 7 307 32 HOH HOH . H 5 HOH A 8 308 19 HOH HOH . H 5 HOH A 9 309 45 HOH HOH . H 5 HOH A 10 310 48 HOH HOH . H 5 HOH A 11 311 68 HOH HOH . H 5 HOH A 12 312 41 HOH HOH . H 5 HOH A 13 313 15 HOH HOH . H 5 HOH A 14 314 60 HOH HOH . H 5 HOH A 15 315 16 HOH HOH . H 5 HOH A 16 316 12 HOH HOH . H 5 HOH A 17 317 4 HOH HOH . H 5 HOH A 18 318 24 HOH HOH . H 5 HOH A 19 319 40 HOH HOH . H 5 HOH A 20 320 25 HOH HOH . H 5 HOH A 21 321 3 HOH HOH . H 5 HOH A 22 322 10 HOH HOH . H 5 HOH A 23 323 26 HOH HOH . H 5 HOH A 24 324 27 HOH HOH . H 5 HOH A 25 325 9 HOH HOH . H 5 HOH A 26 326 20 HOH HOH . H 5 HOH A 27 327 35 HOH HOH . H 5 HOH A 28 328 51 HOH HOH . H 5 HOH A 29 329 38 HOH HOH . H 5 HOH A 30 330 59 HOH HOH . H 5 HOH A 31 331 7 HOH HOH . H 5 HOH A 32 332 53 HOH HOH . H 5 HOH A 33 333 39 HOH HOH . H 5 HOH A 34 334 30 HOH HOH . H 5 HOH A 35 335 6 HOH HOH . H 5 HOH A 36 336 71 HOH HOH . H 5 HOH A 37 337 14 HOH HOH . H 5 HOH A 38 338 5 HOH HOH . H 5 HOH A 39 339 50 HOH HOH . H 5 HOH A 40 340 21 HOH HOH . H 5 HOH A 41 341 34 HOH HOH . H 5 HOH A 42 342 36 HOH HOH . H 5 HOH A 43 343 64 HOH HOH . H 5 HOH A 44 344 61 HOH HOH . H 5 HOH A 45 345 28 HOH HOH . H 5 HOH A 46 346 22 HOH HOH . H 5 HOH A 47 347 42 HOH HOH . H 5 HOH A 48 348 44 HOH HOH . H 5 HOH A 49 349 33 HOH HOH . H 5 HOH A 50 350 8 HOH HOH . H 5 HOH A 51 351 56 HOH HOH . H 5 HOH A 52 352 13 HOH HOH . H 5 HOH A 53 353 37 HOH HOH . H 5 HOH A 54 354 67 HOH HOH . H 5 HOH A 55 355 49 HOH HOH . H 5 HOH A 56 356 69 HOH HOH . H 5 HOH A 57 357 18 HOH HOH . H 5 HOH A 58 358 63 HOH HOH . H 5 HOH A 59 359 52 HOH HOH . H 5 HOH A 60 360 70 HOH HOH . H 5 HOH A 61 361 43 HOH HOH . H 5 HOH A 62 362 55 HOH HOH . H 5 HOH A 63 363 65 HOH HOH . H 5 HOH A 64 364 54 HOH HOH . H 5 HOH A 65 365 17 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 . . . G 4 -5.897 -14.112 -18.633 1 22.21 ? PG GNP 206 A 1 HETATM 2 O O1G GNP . . . G 4 -6.113 -13.044 -17.582 1 21.19 ? O1G GNP 206 A 1 HETATM 3 O O2G GNP . . . G 4 -6.307 -15.463 -18.125 1 22.57 ? O2G GNP 206 A 1 HETATM 4 O O3G GNP . . . G 4 -4.486 -14.149 -19.114 1 22.28 ? O3G GNP 206 A 1 HETATM 5 N N3B GNP . . . G 4 -7 -13.606 -19.871 1 20 ? N3B GNP 206 A 1 HETATM 6 P PB GNP . . . G 4 -7.261 -14.72 -21.185 1 19.92 ? PB GNP 206 A 1 HETATM 7 O O1B GNP . . . G 4 -6.14 -14.572 -22.174 1 18.93 ? O1B GNP 206 A 1 HETATM 8 O O2B GNP . . . G 4 -7.466 -16.166 -20.769 1 18.86 ? O2B GNP 206 A 1 HETATM 9 O O3A GNP . . . G 4 -8.539 -14.072 -21.889 1 18.91 ? O3A GNP 206 A 1 HETATM 10 P PA GNP . . . G 4 -10.083 -14.519 -21.725 1 20.95 ? PA GNP 206 A 1 HETATM 11 O O1A GNP . . . G 4 -10.27 -15.84 -22.417 1 18.09 ? O1A GNP 206 A 1 HETATM 12 O O2A GNP . . . G 4 -10.434 -14.563 -20.244 1 19.39 ? O2A GNP 206 A 1 HETATM 13 O O5' GNP . . . G 4 -10.912 -13.425 -22.486 1 19.08 ? O5' GNP 206 A 1 HETATM 14 C C5' GNP . . . G 4 -10.741 -12.049 -22.166 1 19.22 ? C5' GNP 206 A 1 HETATM 15 C C4' GNP . . . G 4 -11.909 -11.298 -22.764 1 18.73 ? C4' GNP 206 A 1 HETATM 16 O O4' GNP . . . G 4 -11.843 -11.281 -24.185 1 18.58 ? O4' GNP 206 A 1 HETATM 17 C C3' GNP . . . G 4 -13.232 -11.964 -22.425 1 19.19 ? C3' GNP 206 A 1 HETATM 18 O O3' GNP . . . G 4 -14.177 -10.926 -22.169 1 18.98 ? O3' GNP 206 A 1 HETATM 19 C C2' GNP . . . G 4 -13.617 -12.751 -23.669 1 18.08 ? C2' GNP 206 A 1 HETATM 20 O O2' GNP . . . G 4 -15.033 -12.902 -23.853 1 18.03 ? O2' GNP 206 A 1 HETATM 21 C C1' GNP . . . G 4 -13.01 -11.895 -24.762 1 17.52 ? C1' GNP 206 A 1 HETATM 22 N N9 GNP . . . G 4 -12.625 -12.705 -25.941 1 16.33 ? N9 GNP 206 A 1 HETATM 23 C C8 GNP . . . G 4 -11.789 -13.761 -25.959 1 16.13 ? C8 GNP 206 A 1 HETATM 24 N N7 GNP . . . G 4 -11.684 -14.21 -27.232 1 15.94 ? N7 GNP 206 A 1 HETATM 25 C C5 GNP . . . G 4 -12.461 -13.437 -28.02 1 15.71 ? C5 GNP 206 A 1 HETATM 26 C C6 GNP . . . G 4 -12.764 -13.422 -29.385 1 15.2 ? C6 GNP 206 A 1 HETATM 27 O O6 GNP . . . G 4 -12.259 -14.256 -30.185 1 16.13 ? O6 GNP 206 A 1 HETATM 28 N N1 GNP . . . G 4 -13.595 -12.457 -29.844 1 15.19 ? N1 GNP 206 A 1 HETATM 29 C C2 GNP . . . G 4 -14.153 -11.535 -29.004 1 14.74 ? C2 GNP 206 A 1 HETATM 30 N N2 GNP . . . G 4 -14.994 -10.594 -29.458 1 14.46 ? N2 GNP 206 A 1 HETATM 31 N N3 GNP . . . G 4 -13.883 -11.553 -27.692 1 14.99 ? N3 GNP 206 A 1 HETATM 32 C C4 GNP . . . G 4 -13.044 -12.481 -27.184 1 15.66 ? C4 GNP 206 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 342 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 32 #