data_8QZ8 # _model_server_result.job_id jn3aKoDcOiEdblCm4Ghlrg _model_server_result.datetime_utc '2024-11-22 23:51:52' _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 8qz8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":601}' # _entry.id 8QZ8 # _exptl.entry_id 8QZ8 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 521.208 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOMETHYLPHOSPHONIC 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 8QZ8 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8QZ8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details pentameric _pdbx_struct_assembly.oligomeric_count 5 _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,H,I,J _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 7 _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 SG CYS 161 A CYS 161 1_555 F ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.304 ? metalc ? metalc2 A SG CYS 282 A CYS 282 1_555 F ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.305 ? metalc ? metalc3 A ND1 HIS 284 A HIS 284 1_555 F ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? metalc ? metalc4 A NE2 HIS 296 A HIS 296 1_555 F ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? metalc ? metalc5 B OD1 ASP 213 B ASP 213 1_555 H MG MG . B MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.221 ? metalc ? metalc6 B OD1 ASP 290 B ASP 290 1_555 H MG MG . B MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.497 ? metalc ? metalc7 C SG CYS 146 C CYS 146 1_555 J ZN ZN . C ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.376 ? metalc ? metalc8 C SG CYS 159 C CYS 159 1_555 J ZN ZN . C ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.328 ? metalc ? metalc9 C SG CYS 163 C CYS 163 1_555 J ZN ZN . C ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc10 C SG CYS 164 C CYS 164 1_555 J ZN ZN . C ZN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.345 ? metalc ? metalc11 C ND1 HIS 184 C HIS 184 1_555 I ZN ZN . C ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? metalc ? metalc12 C NE2 HIS 191 C HIS 191 1_555 I ZN ZN . C ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? metalc ? metalc13 C SG CYS 233 C CYS 233 1_555 I ZN ZN . C ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.306 ? metalc ? metalc14 C SG CYS 235 C CYS 235 1_555 I ZN ZN . C ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.305 ? hydrog 'A-U PAIR' hydrog1 D N1 A 3 V A 3 1_555 D N3 U 9 V U 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 D N1 A 4 V A 4 1_555 D N3 U 8 V U 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 D N6 A 4 V A 4 1_555 D O4 U 8 V U 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 D N3 U 20 V U 20 1_555 E N1 A 32 P A 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 D O4 U 20 V U 20 1_555 E N6 A 32 P A 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 D N1 G 21 V G 21 1_555 E N3 C 31 P C 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 D N2 G 21 V G 21 1_555 E O2 C 31 P C 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 D O6 G 21 V G 21 1_555 E N4 C 31 P C 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 D N1 A 22 V A 22 1_555 E N3 U 30 P U 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 D N6 A 22 V A 22 1_555 E O4 U 30 P U 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 D N3 U 23 V U 23 1_555 E N1 A 29 P A 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 D O4 U 23 V U 23 1_555 E N6 A 29 P A 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 D N3 U 24 V U 24 1_555 E N1 A 28 P A 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 D O4 U 24 V U 24 1_555 E N6 A 28 P A 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 D N3 U 25 V U 25 1_555 E N1 A 27 P A 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 D O4 U 25 V U 25 1_555 E N6 A 27 P A 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 D N1 G 26 V G 26 1_555 E N3 C 26 P C 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 D N2 G 26 V G 26 1_555 E O2 C 26 P C 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 D O6 G 26 V G 26 1_555 E N4 C 26 P C 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 D N3 U 27 V U 27 1_555 E N1 A 25 P A 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 D O4 U 27 V U 27 1_555 E N6 A 25 P A 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 D N1 G 28 V G 28 1_555 E N3 C 24 P C 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 D N2 G 28 V G 28 1_555 E O2 C 24 P C 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 D O6 G 28 V G 28 1_555 E N4 C 24 P C 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'C11 H18 N5 O13 P3' _chem_comp.formula_weight 521.208 _chem_comp.id G2P _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOMETHYLPHOSPHONIC 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 G2P sing 198 n n PG O2G G2P doub 199 n n PG O3G G2P sing 200 n n PG O3B G2P sing 201 n n O3B PB G2P sing 202 n n PB O1B G2P sing 203 n n PB O2B G2P doub 204 n n PB C3A G2P sing 205 n n C3A PA G2P sing 206 n n C3A H3A1 G2P sing 207 n n C3A H3A2 G2P sing 208 n n PA O1A G2P sing 209 n n PA O2A G2P doub 210 n n PA O5' G2P sing 211 n n O5' C5' G2P sing 212 n n C5' C4' G2P sing 213 n n C5' "H5'1" G2P sing 214 n n C5' "H5'2" G2P sing 215 n n C4' O4' G2P sing 216 n n C4' C3' G2P sing 217 n n C4' H4' G2P sing 218 n n O4' C1' G2P sing 219 n n C3' O3' G2P sing 220 n n C3' C2' G2P sing 221 n n C3' H3' G2P sing 222 n n O3' HA G2P sing 223 n n C2' O2' G2P sing 224 n n C2' C1' G2P sing 225 n n C2' H2' G2P sing 226 n n O2' HB G2P sing 227 n n C1' N9 G2P sing 228 n n C1' H1' G2P sing 229 n n N9 C8 G2P sing 230 n y N9 C4 G2P sing 231 n y C8 N7 G2P doub 232 n y C8 H8 G2P sing 233 n n N7 C5 G2P sing 234 n y C5 C6 G2P sing 235 n y C5 C4 G2P doub 236 n y C6 O6 G2P doub 237 n n C6 N1 G2P sing 238 n y N1 C2 G2P sing 239 n y N1 H1 G2P sing 240 n n C2 N2 G2P sing 241 n n C2 N3 G2P doub 242 n y N2 H2N1 G2P sing 243 n n N2 H2N2 G2P sing 244 n n N3 C4 G2P sing 245 n y HO1 O1G G2P sing 246 n n HO2 O3G G2P sing 247 n n HO3 O1A G2P sing 248 n n HO4 O1B G2P sing 249 n n # _atom_sites.entry_id 8QZ8 _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 F 6 ZN A 1 501 1 ZN ZN . G 7 G2P B 1 601 1 G2P G2P . H 8 MG B 1 602 1 MG MG . I 6 ZN C 1 501 2 ZN ZN . J 6 ZN C 1 502 3 ZN ZN . # 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 G2P . . . G 7 163.554 157.449 141.605 1 113.02 ? PG G2P 601 B 1 HETATM 2 O O1G G2P . . . G 7 163.207 158.682 140.782 1 100.81 ? O1G G2P 601 B 1 HETATM 3 O O2G G2P . . . G 7 164.203 157.779 142.949 1 105.82 ? O2G G2P 601 B 1 HETATM 4 O O3G G2P . . . G 7 164.246 156.325 140.849 1 103.97 ? O3G G2P 601 B 1 HETATM 5 O O3B G2P . . . G 7 162.023 156.831 142.072 1 105.12 ? O3B G2P 601 B 1 HETATM 6 P PB G2P . . . G 7 160.65 156.931 141.235 1 116.2 ? PB G2P 601 B 1 HETATM 7 O O1B G2P . . . G 7 159.952 158.256 141.431 1 107.4 ? O1B G2P 601 B 1 HETATM 8 O O2B G2P . . . G 7 160.84 156.444 139.812 1 101.93 ? O2B G2P 601 B 1 HETATM 9 C C3A G2P . . . G 7 159.674 155.608 142.082 1 101.82 ? C3A G2P 601 B 1 HETATM 10 P PA G2P . . . G 7 158.647 155.982 143.535 1 112.31 ? PA G2P 601 B 1 HETATM 11 O O1A G2P . . . G 7 158.543 157.459 143.806 1 107.54 ? O1A G2P 601 B 1 HETATM 12 O O2A G2P . . . G 7 157.354 155.203 143.442 1 102.47 ? O2A G2P 601 B 1 HETATM 13 O O5' G2P . . . G 7 159.576 155.275 144.709 1 104.71 ? O5' G2P 601 B 1 HETATM 14 C C5' G2P . . . G 7 160.028 156.068 145.768 1 104.65 ? C5' G2P 601 B 1 HETATM 15 C C4' G2P . . . G 7 160.26 155.175 146.972 1 100.29 ? C4' G2P 601 B 1 HETATM 16 O O4' G2P . . . G 7 159.032 154.769 147.575 1 102.81 ? O4' G2P 601 B 1 HETATM 17 C C3' G2P . . . G 7 160.97 153.873 146.625 1 101.07 ? C3' G2P 601 B 1 HETATM 18 O O3' G2P . . . G 7 162.367 154.004 146.621 1 104.89 ? O3' G2P 601 B 1 HETATM 19 C C2' G2P . . . G 7 160.571 153.055 147.847 1 102.64 ? C2' G2P 601 B 1 HETATM 20 O O2' G2P . . . G 7 161.241 153.358 149.029 1 93.35 ? O2' G2P 601 B 1 HETATM 21 C C1' G2P . . . G 7 159.091 153.439 147.968 1 105.62 ? C1' G2P 601 B 1 HETATM 22 N N9 G2P . . . G 7 158.232 152.639 147.119 1 105.27 ? N9 G2P 601 B 1 HETATM 23 C C8 G2P . . . G 7 157.289 153.09 146.229 1 98.29 ? C8 G2P 601 B 1 HETATM 24 N N7 G2P . . . G 7 156.684 152.121 145.616 1 101.83 ? N7 G2P 601 B 1 HETATM 25 C C5 G2P . . . G 7 157.244 150.98 146.117 1 104.23 ? C5 G2P 601 B 1 HETATM 26 C C6 G2P . . . G 7 156.981 149.618 145.82 1 102.25 ? C6 G2P 601 B 1 HETATM 27 O O6 G2P . . . G 7 156.175 149.143 145.033 1 97.34 ? O6 G2P 601 B 1 HETATM 28 N N1 G2P . . . G 7 157.801 148.774 146.58 1 102.84 ? N1 G2P 601 B 1 HETATM 29 C C2 G2P . . . G 7 158.736 149.173 147.489 1 100.36 ? C2 G2P 601 B 1 HETATM 30 N N2 G2P . . . G 7 159.423 148.194 148.116 1 96.13 ? N2 G2P 601 B 1 HETATM 31 N N3 G2P . . . G 7 158.976 150.427 147.761 1 101.72 ? N3 G2P 601 B 1 HETATM 32 C C4 G2P . . . G 7 158.213 151.283 147.057 1 104.18 ? C4 G2P 601 B 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 24 _model_server_stats.query_time_ms 276 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 32 #