data_3JAW # _model_server_result.job_id l1QM0gghL75Q9ZvCVFqeqw _model_server_result.datetime_utc '2025-01-31 10:50:28' _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 3jaw # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":501}' # _entry.id 3JAW # _exptl.entry_id 3JAW _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 539.246 _entity.id 5 _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 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 3JAW _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3JAW _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 tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,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 ? _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 J N 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 OE2 GLU 71 A GLU 71 1_555 F MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.638 ? metalc ? metalc2 E O1B GTP . A GTP 501 1_555 F MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.895 ? metalc ? metalc3 E O1G GTP . A GTP 501 1_555 F MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.958 ? metalc ? metalc4 H O1B GTP . C GTP 501 1_555 I MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? metalc ? metalc5 H O1G GTP . C GTP 501 1_555 I MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.363 ? # _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 129 n n PG S1G GSP doub 130 n n PG O2G GSP sing 131 n n PG O3G GSP sing 132 n n O3B PB GSP sing 133 n n O2G HOG2 GSP sing 134 n n O3G HOG3 GSP sing 135 n n PB O1B GSP doub 136 n n PB O2B GSP sing 137 n n PB O3A GSP sing 138 n n O2B HOB2 GSP sing 139 n n PA O1A GSP doub 140 n n PA O2A GSP sing 141 n n PA O3A GSP sing 142 n n PA O5' GSP sing 143 n n O2A HOA2 GSP sing 144 n n O5' C5' GSP sing 145 n n C5' C4' GSP sing 146 n n C5' "H5'1" GSP sing 147 n n C5' "H5'2" GSP sing 148 n n C4' O4' GSP sing 149 n n C4' C3' GSP sing 150 n n C4' H4' GSP sing 151 n n O4' C1' GSP sing 152 n n C3' O3' GSP sing 153 n n C3' C2' GSP sing 154 n n C3' H3' GSP sing 155 n n O3' HO3' GSP sing 156 n n C2' O2' GSP sing 157 n n C2' C1' GSP sing 158 n n C2' H2' GSP sing 159 n n O2' HO2' GSP sing 160 n n C1' N9 GSP sing 161 n n C1' H1' GSP sing 162 n n N9 C8 GSP sing 163 n y N9 C4 GSP sing 164 n y C8 N7 GSP doub 165 n y C8 H8 GSP sing 166 n n N7 C5 GSP sing 167 n y C5 C6 GSP sing 168 n n C5 C4 GSP doub 169 n y C6 O6 GSP doub 170 n n C6 N1 GSP sing 171 n n N1 C2 GSP sing 172 n n N1 HN1 GSP sing 173 n n C2 N2 GSP sing 174 n n C2 N3 GSP doub 175 n n N2 HN21 GSP sing 176 n n N2 HN22 GSP sing 177 n n N3 C4 GSP sing 178 n n # _atom_sites.entry_id 3JAW _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 E 3 GTP A 1 501 501 GTP GTP . F 4 MG A 1 502 502 MG MG . G 5 GSP B 1 501 501 GSP GSP . H 3 GTP C 1 501 501 GTP GTP . I 4 MG C 1 502 502 MG MG . J 5 GSP D 1 501 501 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 . . . G 5 337.853 225.025 285.587 1 84.06 ? PG GSP 501 B 1 HETATM 2 O O3B GSP . . . G 5 336.602 225.475 286.498 1 75.33 ? O3B GSP 501 B 1 HETATM 3 S S1G GSP . . . G 5 337.249 224.824 283.744 1 90.1 ? S1G GSP 501 B 1 HETATM 4 O O2G GSP . . . G 5 339.053 226.094 285.672 1 84.9 ? O2G GSP 501 B 1 HETATM 5 O O3G GSP . . . G 5 338.319 223.536 285.943 1 80.17 ? O3G GSP 501 B 1 HETATM 6 P PB GSP . . . G 5 336.815 225.88 288.041 1 67.61 ? PB GSP 501 B 1 HETATM 7 O O1B GSP . . . G 5 337.59 224.791 288.738 1 68 ? O1B GSP 501 B 1 HETATM 8 O O2B GSP . . . G 5 337.397 227.275 288.069 1 67.41 ? O2B GSP 501 B 1 HETATM 9 P PA GSP . . . G 5 334.327 227.005 287.98 1 60.5 ? PA GSP 501 B 1 HETATM 10 O O1A GSP . . . G 5 334.757 228.411 288.268 1 62.07 ? O1A GSP 501 B 1 HETATM 11 O O2A GSP . . . G 5 334.087 226.529 286.568 1 60.76 ? O2A GSP 501 B 1 HETATM 12 O O3A GSP . . . G 5 335.361 226.013 288.697 1 63.43 ? O3A GSP 501 B 1 HETATM 13 O O5' GSP . . . G 5 333 226.802 288.84 1 57.88 ? O5' GSP 501 B 1 HETATM 14 C C5' GSP . . . G 5 331.997 225.886 288.45 1 55.87 ? C5' GSP 501 B 1 HETATM 15 C C4' GSP . . . G 5 331.024 225.754 289.614 1 55.15 ? C4' GSP 501 B 1 HETATM 16 O O4' GSP . . . G 5 331.186 226.847 290.534 1 52.27 ? O4' GSP 501 B 1 HETATM 17 C C3' GSP . . . G 5 329.573 225.83 289.179 1 54.99 ? C3' GSP 501 B 1 HETATM 18 O O3' GSP . . . G 5 328.82 224.936 290.015 1 55.48 ? O3' GSP 501 B 1 HETATM 19 C C2' GSP . . . G 5 329.155 227.268 289.443 1 52.2 ? C2' GSP 501 B 1 HETATM 20 O O2' GSP . . . G 5 327.764 227.295 289.785 1 52.99 ? O2' GSP 501 B 1 HETATM 21 C C1' GSP . . . G 5 330.038 227.702 290.601 1 49.5 ? C1' GSP 501 B 1 HETATM 22 N N9 GSP . . . G 5 330.518 229.09 290.48 1 44.31 ? N9 GSP 501 B 1 HETATM 23 C C8 GSP . . . G 5 331.23 229.631 289.489 1 42.91 ? C8 GSP 501 B 1 HETATM 24 N N7 GSP . . . G 5 331.476 230.941 289.763 1 42.55 ? N7 GSP 501 B 1 HETATM 25 C C5 GSP . . . G 5 330.918 231.255 290.948 1 41.58 ? C5 GSP 501 B 1 HETATM 26 C C6 GSP . . . G 5 330.79 232.455 291.835 1 40.37 ? C6 GSP 501 B 1 HETATM 27 O O6 GSP . . . G 5 331.283 233.563 291.538 1 39.39 ? O6 GSP 501 B 1 HETATM 28 N N1 GSP . . . G 5 330.115 232.323 292.985 1 40.33 ? N1 GSP 501 B 1 HETATM 29 C C2 GSP . . . G 5 329.556 231.151 293.36 1 41.03 ? C2 GSP 501 B 1 HETATM 30 N N2 GSP . . . G 5 328.88 231.08 294.537 1 40.84 ? N2 GSP 501 B 1 HETATM 31 N N3 GSP . . . G 5 329.637 230.026 292.596 1 41.65 ? N3 GSP 501 B 1 HETATM 32 C C4 GSP . . . G 5 330.289 230.015 291.408 1 42.19 ? C4 GSP 501 B 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 24 _model_server_stats.query_time_ms 443 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 32 #