data_3BH6 # _model_server_result.job_id uC4gMOwI_CKibuq_y434vw _model_server_result.datetime_utc '2025-04-09 18:35:32' _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 3bh6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1}' # _entry.id 3BH6 # _exptl.entry_id 3BH6 _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 90 _cell.entry_id 3BH6 _cell.length_a 73.86 _cell.length_b 78.49 _cell.length_c 98.38 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3BH6 _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 4 _struct_asym.id D _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 D O3G GNP . A GNP 1 1_555 C MG MG . A MG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.84 ? metalc ? metalc2 D O2B GNP . A GNP 1 1_555 C MG MG . A MG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.997 ? metalc ? metalc3 C MG MG . A MG 2 1_555 A OG1 THR 18 A THR 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.131 ? metalc ? metalc4 C MG MG . A MG 2 1_555 A OG1 THR 35 A THR 48 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? metalc ? metalc5 C MG MG . A MG 2 1_555 E O HOH . A HOH 178 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.098 ? metalc ? metalc6 C MG MG . A MG 2 1_555 E O HOH . A HOH 180 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.24 ? # _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 3BH6 _atom_sites.fract_transf_matrix[1][1] 0.013539 _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] 0.01274 _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] 0.010165 _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 C 3 MG A 1 2 2 MG MG . D 4 GNP A 1 1 1 GNP GNP . E 5 HOH A 1 178 178 HOH HOH . E 5 HOH A 2 179 179 HOH HOH . E 5 HOH A 3 180 180 HOH HOH . E 5 HOH A 4 181 181 HOH HOH . E 5 HOH A 5 182 182 HOH HOH . E 5 HOH A 6 183 183 HOH HOH . E 5 HOH A 7 184 184 HOH HOH . E 5 HOH A 8 185 185 HOH HOH . E 5 HOH A 9 186 186 HOH HOH . E 5 HOH A 10 187 187 HOH HOH . E 5 HOH A 11 189 189 HOH HOH . F 5 HOH B 1 351 351 HOH HOH . F 5 HOH B 2 352 352 HOH HOH . F 5 HOH B 3 353 353 HOH HOH . F 5 HOH B 4 354 354 HOH HOH . F 5 HOH B 5 355 355 HOH HOH . F 5 HOH B 6 356 356 HOH HOH . F 5 HOH B 7 357 357 HOH HOH . F 5 HOH B 8 358 358 HOH HOH . F 5 HOH B 9 359 359 HOH HOH . F 5 HOH B 10 360 360 HOH HOH . F 5 HOH B 11 361 361 HOH HOH . F 5 HOH B 12 362 362 HOH HOH . F 5 HOH B 13 363 363 HOH HOH . F 5 HOH B 14 364 364 HOH HOH . F 5 HOH B 15 365 365 HOH HOH . F 5 HOH B 16 366 366 HOH HOH . F 5 HOH B 17 367 367 HOH HOH . F 5 HOH B 18 368 368 HOH HOH . F 5 HOH B 19 369 369 HOH HOH . F 5 HOH B 20 370 370 HOH HOH . F 5 HOH B 21 371 371 HOH HOH . F 5 HOH B 22 372 372 HOH HOH . F 5 HOH B 23 373 373 HOH HOH . F 5 HOH B 24 374 374 HOH HOH . F 5 HOH B 25 375 375 HOH HOH . F 5 HOH B 26 376 376 HOH HOH . F 5 HOH B 27 377 377 HOH HOH . F 5 HOH B 28 378 378 HOH HOH . F 5 HOH B 29 379 379 HOH HOH . F 5 HOH B 30 380 380 HOH HOH . F 5 HOH B 31 382 382 HOH HOH . F 5 HOH B 32 383 383 HOH HOH . F 5 HOH B 33 384 384 HOH HOH . F 5 HOH B 34 385 385 HOH HOH . F 5 HOH B 35 386 386 HOH HOH . F 5 HOH B 36 387 387 HOH HOH . F 5 HOH B 37 388 388 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 . . . D 4 -3.79 11.432 -27.866 1 26.3 ? PG GNP 1 A 1 HETATM 2 O O1G GNP . . . D 4 -4.662 10.566 -28.756 1 23.94 ? O1G GNP 1 A 1 HETATM 3 O O2G GNP . . . D 4 -2.895 10.642 -26.953 1 26.72 ? O2G GNP 1 A 1 HETATM 4 O O3G GNP . . . D 4 -3.053 12.418 -28.737 1 26.11 ? O3G GNP 1 A 1 HETATM 5 N N3B GNP . . . D 4 -4.775 12.302 -26.974 1 26.37 ? N3B GNP 1 A 1 HETATM 6 P PB GNP . . . D 4 -4.363 13.609 -26.189 1 26.86 ? PB GNP 1 A 1 HETATM 7 O O1B GNP . . . D 4 -3.841 13.279 -24.852 1 28.98 ? O1B GNP 1 A 1 HETATM 8 O O2B GNP . . . D 4 -3.458 14.399 -27.045 1 27.73 ? O2B GNP 1 A 1 HETATM 9 O O3A GNP . . . D 4 -5.669 14.344 -25.899 1 27.27 ? O3A GNP 1 A 1 HETATM 10 P PA GNP . . . D 4 -6.312 15.441 -26.752 1 27.47 ? PA GNP 1 A 1 HETATM 11 O O1A GNP . . . D 4 -6.445 14.962 -28.142 1 26.94 ? O1A GNP 1 A 1 HETATM 12 O O2A GNP . . . D 4 -5.606 16.726 -26.534 1 28.33 ? O2A GNP 1 A 1 HETATM 13 O O5' GNP . . . D 4 -7.756 15.674 -26.184 1 27.59 ? O5' GNP 1 A 1 HETATM 14 C C5' GNP . . . D 4 -8.723 14.635 -26.16 1 29.8 ? C5' GNP 1 A 1 HETATM 15 C C4' GNP . . . D 4 -10.144 15.181 -26.016 1 30.83 ? C4' GNP 1 A 1 HETATM 16 O O4' GNP . . . D 4 -10.402 15.733 -24.693 1 31.18 ? O4' GNP 1 A 1 HETATM 17 C C3' GNP . . . D 4 -10.536 16.292 -26.978 1 30.75 ? C3' GNP 1 A 1 HETATM 18 O O3' GNP . . . D 4 -11.922 16.139 -27.248 1 31.27 ? O3' GNP 1 A 1 HETATM 19 C C2' GNP . . . D 4 -10.257 17.554 -26.168 1 30.76 ? C2' GNP 1 A 1 HETATM 20 O O2' GNP . . . D 4 -10.989 18.647 -26.668 1 30.31 ? O2' GNP 1 A 1 HETATM 21 C C1' GNP . . . D 4 -10.772 17.101 -24.805 1 31.73 ? C1' GNP 1 A 1 HETATM 22 N N9 GNP . . . D 4 -10.218 17.739 -23.625 1 31.94 ? N9 GNP 1 A 1 HETATM 23 C C8 GNP . . . D 4 -8.893 17.835 -23.269 1 32.28 ? C8 GNP 1 A 1 HETATM 24 N N7 GNP . . . D 4 -8.698 18.442 -22.126 1 32.55 ? N7 GNP 1 A 1 HETATM 25 C C5 GNP . . . D 4 -9.982 18.759 -21.688 1 32.84 ? C5 GNP 1 A 1 HETATM 26 C C6 GNP . . . D 4 -10.415 19.428 -20.507 1 32.57 ? C6 GNP 1 A 1 HETATM 27 O O6 GNP . . . D 4 -9.728 19.882 -19.574 1 32.46 ? O6 GNP 1 A 1 HETATM 28 N N1 GNP . . . D 4 -11.807 19.537 -20.455 1 32.31 ? N1 GNP 1 A 1 HETATM 29 C C2 GNP . . . D 4 -12.664 19.067 -21.421 1 31.98 ? C2 GNP 1 A 1 HETATM 30 N N2 GNP . . . D 4 -13.96 19.265 -21.19 1 31.87 ? N2 GNP 1 A 1 HETATM 31 N N3 GNP . . . D 4 -12.277 18.442 -22.532 1 32.57 ? N3 GNP 1 A 1 HETATM 32 C C4 GNP . . . D 4 -10.927 18.32 -22.6 1 32.55 ? C4 GNP 1 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 321 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 32 #