data_6UT4 # _model_server_result.job_id 09jjzTBW2HQFrNHBwlYF9w _model_server_result.datetime_utc '2024-10-19 12:29:52' _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 6ut4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"O","auth_seq_id":701}' # _entry.id 6UT4 # _exptl.entry_id 6UT4 _exptl.method 'ELECTRON MICROSCOPY' # _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 6 _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 6UT4 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 6UT4 _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 hexameric _pdbx_struct_assembly.oligomeric_count 6 _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,K,L,M,N,O,P,Q,R,S,T,U,V,W _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 ? 2 G N N ? 2 I N N ? 2 K N N ? 2 M N N ? 2 O N N ? 2 Q 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 OG1 THR 37 A THR 222 1_555 H MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.124 ? metalc ? metalc2 A OD1 ASP 171 A ASP 356 1_555 H MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.927 ? metalc ? metalc3 A OD2 ASP 171 A ASP 356 1_555 H MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.913 ? metalc ? metalc4 G O2G GSP . A GSP 701 1_555 H MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.546 ? metalc ? metalc5 G O2B GSP . A GSP 701 1_555 H MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.135 ? metalc ? metalc6 B OG1 THR 37 B THR 222 1_555 J MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.136 ? metalc ? metalc7 B OD1 ASP 171 B ASP 356 1_555 J MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.895 ? metalc ? metalc8 I O2G GSP . B GSP 701 1_555 J MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.149 ? metalc ? metalc9 I O2B GSP . B GSP 701 1_555 J MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.23 ? metalc ? metalc10 J MG MG . B MG 702 1_555 S O HOH . B HOH 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.137 ? metalc ? metalc11 J MG MG . B MG 702 1_555 T O HOH . C HOH 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.115 ? metalc ? metalc12 C OG1 THR 37 C THR 222 1_555 L MG MG . C MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.271 ? metalc ? metalc13 C OD1 ASP 171 C ASP 356 1_555 L MG MG . C MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.987 ? metalc ? metalc14 K O2G GSP . C GSP 701 1_555 L MG MG . C MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.172 ? metalc ? metalc15 K O2B GSP . C GSP 701 1_555 L MG MG . C MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.137 ? metalc ? metalc16 L MG MG . C MG 702 1_555 T O HOH . C HOH 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? metalc ? metalc17 L MG MG . C MG 702 1_555 U O HOH . D HOH 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.158 ? metalc ? metalc18 D OG1 THR 37 D THR 222 1_555 N MG MG . D MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.137 ? metalc ? metalc19 D OD2 ASP 171 D ASP 356 1_555 N MG MG . D MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.931 ? metalc ? metalc20 M O2G GSP . D GSP 701 1_555 N MG MG . D MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.155 ? metalc ? metalc21 M O2B GSP . D GSP 701 1_555 N MG MG . D MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.122 ? metalc ? metalc22 N MG MG . D MG 702 1_555 U O HOH . D HOH 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.142 ? metalc ? metalc23 N MG MG . D MG 702 1_555 U O HOH . D HOH 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.13 ? metalc ? metalc24 E OG1 THR 37 E THR 222 1_555 P MG MG . E MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.128 ? metalc ? metalc25 E OD2 ASP 171 E ASP 356 1_555 P MG MG . E MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.635 ? metalc ? metalc26 O O2G GSP . E GSP 701 1_555 P MG MG . E MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.133 ? metalc ? metalc27 O O2B GSP . E GSP 701 1_555 P MG MG . E MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.839 ? metalc ? metalc28 P MG MG . E MG 702 1_555 V O HOH . E HOH 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.123 ? metalc ? metalc29 P MG MG . E MG 702 1_555 W O HOH . F HOH 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.174 ? metalc ? metalc30 F OG1 THR 37 F THR 222 1_555 R MG MG . F MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.112 ? metalc ? metalc31 F OD1 ASP 171 F ASP 356 1_555 R MG MG . F MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.788 ? metalc ? metalc32 Q O2G GSP . F GSP 701 1_555 R MG MG . F MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.122 ? metalc ? metalc33 Q O2B GSP . F GSP 701 1_555 R MG MG . F MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.174 ? # _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 6UT4 _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 G 2 GSP A 1 701 701 GSP GSP . H 3 MG A 1 702 801 MG MG . I 2 GSP B 1 701 701 GSP GSP . J 3 MG B 1 702 801 MG MG . K 2 GSP C 1 701 701 GSP GSP . L 3 MG C 1 702 801 MG MG . M 2 GSP D 1 701 701 GSP GSP . N 3 MG D 1 702 801 MG MG . O 2 GSP E 1 701 701 GSP GSP . P 3 MG E 1 702 801 MG MG . Q 2 GSP F 1 701 701 GSP GSP . R 3 MG F 1 702 801 MG MG . S 4 HOH B 1 901 901 HOH HOH . S 4 HOH B 2 902 902 HOH HOH . T 4 HOH C 1 801 902 HOH HOH . T 4 HOH C 2 802 903 HOH HOH . T 4 HOH C 3 803 901 HOH HOH . U 4 HOH D 1 801 903 HOH HOH . U 4 HOH D 2 802 902 HOH HOH . U 4 HOH D 3 803 903 HOH HOH . U 4 HOH D 4 804 901 HOH HOH . V 4 HOH E 1 801 902 HOH HOH . V 4 HOH E 2 802 901 HOH HOH . W 4 HOH F 1 801 903 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 GSP . . . O 2 130.771 153.209 157.921 1 27.57 ? PG GSP 701 E 1 HETATM 2 O O3B GSP . . . O 2 129.262 152.783 157.584 1 27.57 ? O3B GSP 701 E 1 HETATM 3 S S1G GSP . . . O 2 130.944 154.828 157.469 1 27.57 ? S1G GSP 701 E 1 HETATM 4 O O2G GSP . . . O 2 131.016 153.062 159.431 1 27.57 ? O2G GSP 701 E 1 HETATM 5 O O3G GSP . . . O 2 131.784 152.361 157.139 1 27.57 ? O3G GSP 701 E 1 HETATM 6 P PB GSP . . . O 2 128.59 151.533 158.327 1 27.57 ? PB GSP 701 E 1 HETATM 7 O O1B GSP . . . O 2 128.713 150.337 157.481 1 27.57 ? O1B GSP 701 E 1 HETATM 8 O O2B GSP . . . O 2 129.188 151.326 159.66 1 27.57 ? O2B GSP 701 E 1 HETATM 9 P PA GSP . . . O 2 126.336 152.171 159.841 1 27.57 ? PA GSP 701 E 1 HETATM 10 O O1A GSP . . . O 2 126.382 150.93 160.634 1 27.57 ? O1A GSP 701 E 1 HETATM 11 O O2A GSP . . . O 2 126.967 153.294 160.56 1 27.57 ? O2A GSP 701 E 1 HETATM 12 O O3A GSP . . . O 2 127.039 151.926 158.422 1 27.57 ? O3A GSP 701 E 1 HETATM 13 O O5' GSP . . . O 2 124.821 152.503 159.428 1 27.57 ? O5' GSP 701 E 1 HETATM 14 C C5' GSP . . . O 2 124.363 153.833 159.428 1 27.57 ? C5' GSP 701 E 1 HETATM 15 C C4' GSP . . . O 2 122.936 153.856 159.948 1 27.57 ? C4' GSP 701 E 1 HETATM 16 O O4' GSP . . . O 2 122.059 153.422 158.93 1 27.57 ? O4' GSP 701 E 1 HETATM 17 C C3' GSP . . . O 2 122.776 152.905 161.12 1 27.57 ? C3' GSP 701 E 1 HETATM 18 O O3' GSP . . . O 2 122.604 153.626 162.311 1 27.57 ? O3' GSP 701 E 1 HETATM 19 C C2' GSP . . . O 2 121.54 152.094 160.827 1 27.57 ? C2' GSP 701 E 1 HETATM 20 O O2' GSP . . . O 2 120.501 152.485 161.689 1 27.57 ? O2' GSP 701 E 1 HETATM 21 C C1' GSP . . . O 2 121.17 152.431 159.4 1 27.57 ? C1' GSP 701 E 1 HETATM 22 N N9 GSP . . . O 2 121.341 151.205 158.615 1 27.57 ? N9 GSP 701 E 1 HETATM 23 C C8 GSP . . . O 2 122.419 150.9 157.833 1 27.57 ? C8 GSP 701 E 1 HETATM 24 N N7 GSP . . . O 2 122.215 149.681 157.295 1 27.57 ? N7 GSP 701 E 1 HETATM 25 C C5 GSP . . . O 2 121.036 149.202 157.733 1 27.57 ? C5 GSP 701 E 1 HETATM 26 C C6 GSP . . . O 2 120.368 148.015 157.492 1 27.57 ? C6 GSP 701 E 1 HETATM 27 O O6 GSP . . . O 2 120.868 147.176 156.749 1 27.57 ? O6 GSP 701 E 1 HETATM 28 N N1 GSP . . . O 2 119.147 147.785 158.088 1 27.57 ? N1 GSP 701 E 1 HETATM 29 C C2 GSP . . . O 2 118.604 148.74 158.921 1 27.57 ? C2 GSP 701 E 1 HETATM 30 N N2 GSP . . . O 2 117.428 148.521 159.5 1 27.57 ? N2 GSP 701 E 1 HETATM 31 N N3 GSP . . . O 2 119.276 149.919 159.158 1 27.57 ? N3 GSP 701 E 1 HETATM 32 C C4 GSP . . . O 2 120.475 150.146 158.574 1 27.57 ? C4 GSP 701 E 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 26 _model_server_stats.create_model_time_ms 22 _model_server_stats.query_time_ms 302 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 32 #