data_3WGN # _model_server_result.job_id 9EqecTQ8OHK9szyFv8va5A _model_server_result.datetime_utc '2025-03-21 09:40:31' _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 3wgn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":401}' # _entry.id 3WGN # _exptl.entry_id 3WGN _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 539.246 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "5'-GUANOSINE-DIPHOSPHATE-MONOTHIOPHOSPHATE" _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 82.84 _cell.angle_beta 82.81 _cell.angle_gamma 82.34 _cell.entry_id 3WGN _cell.length_a 44.27 _cell.length_b 44.17 _cell.length_c 73.28 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3WGN _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C 1 1 B,D 2 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 D N N # _chem_comp.formula 'C10 H16 N5 O13 P3 S' _chem_comp.formula_weight 539.246 _chem_comp.id GSP _chem_comp.mon_nstd_flag . _chem_comp.name "5'-GUANOSINE-DIPHOSPHATE-MONOTHIOPHOSPHATE" _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 O3B GSP sing 116 n n PG S1G GSP doub 117 n n PG O2G GSP sing 118 n n PG O3G GSP sing 119 n n O3B PB GSP sing 120 n n O2G HOG2 GSP sing 121 n n O3G HOG3 GSP sing 122 n n PB O1B GSP doub 123 n n PB O2B GSP sing 124 n n PB O3A GSP sing 125 n n O2B HOB2 GSP sing 126 n n PA O1A GSP doub 127 n n PA O2A GSP sing 128 n n PA O3A GSP sing 129 n n PA O5' GSP sing 130 n n O2A HOA2 GSP sing 131 n n O5' C5' GSP sing 132 n n C5' C4' GSP sing 133 n n C5' "H5'1" GSP sing 134 n n C5' "H5'2" GSP sing 135 n n C4' O4' GSP sing 136 n n C4' C3' GSP sing 137 n n C4' H4' GSP sing 138 n n O4' C1' GSP sing 139 n n C3' O3' GSP sing 140 n n C3' C2' GSP sing 141 n n C3' H3' GSP sing 142 n n O3' HO3' GSP sing 143 n n C2' O2' GSP sing 144 n n C2' C1' GSP sing 145 n n C2' H2' GSP sing 146 n n O2' HO2' GSP sing 147 n n C1' N9 GSP sing 148 n n C1' H1' GSP sing 149 n n N9 C8 GSP sing 150 n y N9 C4 GSP sing 151 n y C8 N7 GSP doub 152 n y C8 H8 GSP sing 153 n n N7 C5 GSP sing 154 n y C5 C6 GSP sing 155 n n C5 C4 GSP doub 156 n y C6 O6 GSP doub 157 n n C6 N1 GSP sing 158 n n N1 C2 GSP sing 159 n n N1 HN1 GSP sing 160 n n C2 N2 GSP sing 161 n n C2 N3 GSP doub 162 n n N2 HN21 GSP sing 163 n n N2 HN22 GSP sing 164 n n N3 C4 GSP sing 165 n n # _atom_sites.entry_id 3WGN _atom_sites.fract_transf_matrix[1][1] 0.022589 _atom_sites.fract_transf_matrix[1][2] -0.003038 _atom_sites.fract_transf_matrix[1][3] -0.002531 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.022844 _atom_sites.fract_transf_matrix[2][3] -0.002523 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.013838 _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 2 GSP A 1 401 2 GSP GSP . D 2 GSP B 1 401 1 GSP GSP . # 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 GSP . . . C 2 2.537 20.312 -5.313 1 46.75 ? PG GSP 401 A 1 HETATM 2 O O3B GSP . . . C 2 1.675 19.239 -4.48 1 40.83 ? O3B GSP 401 A 1 HETATM 3 S S1G GSP . . . C 2 1.855 21.786 -4.786 1 41.23 ? S1G GSP 401 A 1 HETATM 4 O O2G GSP . . . C 2 4.048 20.103 -5.032 1 33.72 ? O2G GSP 401 A 1 HETATM 5 O O3G GSP . . . C 2 2.319 20.213 -6.832 1 40.97 ? O3G GSP 401 A 1 HETATM 6 P PB GSP . . . C 2 2.186 17.775 -4.081 1 37.19 ? PB GSP 401 A 1 HETATM 7 O O1B GSP . . . C 2 1.44 16.806 -4.931 1 37.25 ? O1B GSP 401 A 1 HETATM 8 O O2B GSP . . . C 2 3.651 17.607 -4.09 1 26.01 ? O2B GSP 401 A 1 HETATM 9 P PA GSP . . . C 2 2.554 17.277 -1.28 1 29.83 ? PA GSP 401 A 1 HETATM 10 O O1A GSP . . . C 2 3.651 16.328 -1.587 1 34.72 ? O1A GSP 401 A 1 HETATM 11 O O2A GSP . . . C 2 3.065 18.513 -0.658 1 34.09 ? O2A GSP 401 A 1 HETATM 12 O O3A GSP . . . C 2 1.643 17.607 -2.569 1 45.53 ? O3A GSP 401 A 1 HETATM 13 O O5' GSP . . . C 2 1.497 16.503 -0.362 1 30.63 ? O5' GSP 401 A 1 HETATM 14 C C5' GSP . . . C 2 0.126 16.619 -0.639 1 34.45 ? C5' GSP 401 A 1 HETATM 15 C C4' GSP . . . C 2 -0.645 16.422 0.651 1 33.88 ? C4' GSP 401 A 1 HETATM 16 O O4' GSP . . . C 2 -0.112 15.346 1.401 1 30.19 ? O4' GSP 401 A 1 HETATM 17 C C3' GSP . . . C 2 -0.533 17.672 1.484 1 28.64 ? C3' GSP 401 A 1 HETATM 18 O O3' GSP . . . C 2 -1.807 18.222 1.561 1 34.03 ? O3' GSP 401 A 1 HETATM 19 C C2' GSP . . . C 2 -0.1 17.218 2.853 1 30.79 ? C2' GSP 401 A 1 HETATM 20 O O2' GSP . . . C 2 -1.207 17.305 3.711 1 31.77 ? O2' GSP 401 A 1 HETATM 21 C C1' GSP . . . C 2 0.208 15.751 2.715 1 25.95 ? C1' GSP 401 A 1 HETATM 22 N N9 GSP . . . C 2 1.623 15.447 2.875 1 26.17 ? N9 GSP 401 A 1 HETATM 23 C C8 GSP . . . C 2 2.729 15.968 2.257 1 31.65 ? C8 GSP 401 A 1 HETATM 24 N N7 GSP . . . C 2 3.84 15.302 2.716 1 32.39 ? N7 GSP 401 A 1 HETATM 25 C C5 GSP . . . C 2 3.446 14.358 3.592 1 26.48 ? C5 GSP 401 A 1 HETATM 26 C C6 GSP . . . C 2 4.106 13.413 4.347 1 25.12 ? C6 GSP 401 A 1 HETATM 27 O O6 GSP . . . C 2 5.324 13.313 4.284 1 27.53 ? O6 GSP 401 A 1 HETATM 28 N N1 GSP . . . C 2 3.376 12.586 5.175 1 26.36 ? N1 GSP 401 A 1 HETATM 29 C C2 GSP . . . C 2 1.994 12.698 5.238 1 28.06 ? C2 GSP 401 A 1 HETATM 30 N N2 GSP . . . C 2 1.224 11.941 6.016 1 27.63 ? N2 GSP 401 A 1 HETATM 31 N N3 GSP . . . C 2 1.353 13.635 4.485 1 35.11 ? N3 GSP 401 A 1 HETATM 32 C C4 GSP . . . C 2 2.063 14.449 3.686 1 33.98 ? C4 GSP 401 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 308 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 32 #