data_8G4C # _model_server_result.job_id 8ZXcf8am1ozNbzmvmWKYXw _model_server_result.datetime_utc '2025-07-05 16:26:56' _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 8g4c # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":301}' # _entry.id 8G4C # _exptl.entry_id 8G4C _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 523.247 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER' _entity.pdbx_number_of_molecules 2 _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 8G4C _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8G4C _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_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 ? _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 G N N ? 5 H N N # _chem_comp.formula 'C10 H16 N5 O12 P3 S' _chem_comp.formula_weight 523.247 _chem_comp.id AGS _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "ATP-GAMMA-S;ADENOSINE 5'-(3-THIOTRIPHOSPHATE);ADENOSINE 5'-(GAMMA-THIOTRIPHOSPHATE);ADENOSINE-5'-DIPHOSPHATE MONOTHIOPHOSPHATE" # 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 S1G AGS doub 125 n n PG O2G AGS sing 126 n n PG O3G AGS sing 127 n n PG O3B AGS sing 128 n n PB O1B AGS doub 129 n n PB O2B AGS sing 130 n n PB O3B AGS sing 131 n n PB O3A AGS sing 132 n n PA O1A AGS doub 133 n n PA O2A AGS sing 134 n n PA O3A AGS sing 135 n n PA O5' AGS sing 136 n n O5' C5' AGS sing 137 n n C5' C4' AGS sing 138 n n C4' O4' AGS sing 139 n n C4' C3' AGS sing 140 n n O4' C1' AGS sing 141 n n C3' O3' AGS sing 142 n n C3' C2' AGS sing 143 n n C2' O2' AGS sing 144 n n C2' C1' AGS sing 145 n n C1' N9 AGS sing 146 n n N9 C8 AGS sing 147 n y N9 C4 AGS sing 148 n y C8 N7 AGS doub 149 n y N7 C5 AGS sing 150 n y C5 C6 AGS sing 151 n y C5 C4 AGS doub 152 n y C6 N6 AGS sing 153 n n C6 N1 AGS doub 154 n y N1 C2 AGS sing 155 n y C2 N3 AGS doub 156 n y N3 C4 AGS sing 157 n y O2G HOG2 AGS sing 158 n n O3G H21 AGS sing 159 n n O2B HOB2 AGS sing 160 n n O2A HOA2 AGS sing 161 n n C5' "H5'1" AGS sing 162 n n C5' "H5'2" AGS sing 163 n n C4' H4' AGS sing 164 n n C3' H3' AGS sing 165 n n O3' HO3' AGS sing 166 n n C2' H2' AGS sing 167 n n O2' HO2' AGS sing 168 n n C1' H1' AGS sing 169 n n C8 H8 AGS sing 170 n n N6 HN61 AGS sing 171 n n N6 HN62 AGS sing 172 n n C2 H2 AGS sing 173 n n # _atom_sites.entry_id 8G4C _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 4 6OU A 1 701 3 6OU 6OU . G 5 AGS B 1 301 1 AGS AGS . H 5 AGS C 1 301 2 AGS AGS . # 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 AGS . . . H 5 161.544 138.106 126.321 1 29.88 ? PG AGS 301 C 1 HETATM 2 S S1G AGS . . . H 5 163.018 138.856 125.292 1 29.88 ? S1G AGS 301 C 1 HETATM 3 O O2G AGS . . . H 5 160.194 138.551 125.691 1 29.88 ? O2G AGS 301 C 1 HETATM 4 O O3G AGS . . . H 5 161.629 138.649 127.777 1 29.88 ? O3G AGS 301 C 1 HETATM 5 P PB AGS . . . H 5 160.525 135.651 125.641 1 29.88 ? PB AGS 301 C 1 HETATM 6 O O1B AGS . . . H 5 159.225 136.352 125.569 1 29.88 ? O1B AGS 301 C 1 HETATM 7 O O2B AGS . . . H 5 161.072 135.318 124.254 1 29.88 ? O2B AGS 301 C 1 HETATM 8 O O3B AGS . . . H 5 161.623 136.548 126.349 1 29.88 ? O3B AGS 301 C 1 HETATM 9 P PA AGS . . . H 5 160.244 134.196 127.987 1 29.88 ? PA AGS 301 C 1 HETATM 10 O O1A AGS . . . H 5 161.153 133.184 128.553 1 29.88 ? O1A AGS 301 C 1 HETATM 11 O O2A AGS . . . H 5 160.462 135.616 128.512 1 29.88 ? O2A AGS 301 C 1 HETATM 12 O O3A AGS . . . H 5 160.377 134.263 126.404 1 29.88 ? O3A AGS 301 C 1 HETATM 13 O O5' AGS . . . H 5 158.773 133.706 128.28 1 29.88 ? O5' AGS 301 C 1 HETATM 14 C C5' AGS . . . H 5 158.31 132.423 127.821 1 29.88 ? C5' AGS 301 C 1 HETATM 15 C C4' AGS . . . H 5 157.262 131.889 128.767 1 29.88 ? C4' AGS 301 C 1 HETATM 16 O O4' AGS . . . H 5 157.857 131.637 130.059 1 29.88 ? O4' AGS 301 C 1 HETATM 17 C C3' AGS . . . H 5 156.06 132.802 129.008 1 29.88 ? C3' AGS 301 C 1 HETATM 18 O O3' AGS . . . H 5 154.847 132.061 128.984 1 29.88 ? O3' AGS 301 C 1 HETATM 19 C C2' AGS . . . H 5 156.338 133.397 130.392 1 29.88 ? C2' AGS 301 C 1 HETATM 20 O O2' AGS . . . H 5 155.137 133.687 131.096 1 29.88 ? O2' AGS 301 C 1 HETATM 21 C C1' AGS . . . H 5 157.098 132.262 131.072 1 29.88 ? C1' AGS 301 C 1 HETATM 22 N N9 AGS . . . H 5 158.013 132.71 132.115 1 29.88 ? N9 AGS 301 C 1 HETATM 23 C C8 AGS . . . H 5 159.153 133.451 131.948 1 29.88 ? C8 AGS 301 C 1 HETATM 24 N N7 AGS . . . H 5 159.787 133.716 133.064 1 29.88 ? N7 AGS 301 C 1 HETATM 25 C C5 AGS . . . H 5 159.009 133.104 134.035 1 29.88 ? C5 AGS 301 C 1 HETATM 26 C C6 AGS . . . H 5 159.138 133.014 135.435 1 29.88 ? C6 AGS 301 C 1 HETATM 27 N N6 AGS . . . H 5 160.141 133.562 136.125 1 29.88 ? N6 AGS 301 C 1 HETATM 28 N N1 AGS . . . H 5 158.187 132.329 136.109 1 29.88 ? N1 AGS 301 C 1 HETATM 29 C C2 AGS . . . H 5 157.182 131.778 135.422 1 29.88 ? C2 AGS 301 C 1 HETATM 30 N N3 AGS . . . H 5 156.957 131.797 134.106 1 29.88 ? N3 AGS 301 C 1 HETATM 31 C C4 AGS . . . H 5 157.913 132.481 133.465 1 29.88 ? C4 AGS 301 C 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 539 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 31 #