data_3QX8 # _model_server_result.job_id EedgdVBqEXsuvZ15UcPw9w _model_server_result.datetime_utc '2024-10-20 07:33:28' _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 3qx8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":28}' # _entry.id 3QX8 # _exptl.entry_id 3QX8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 803.44 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "7-METHYL-GUANOSINE-5'-TRIPHOSPHATE-5'-GUANOSINE" _entity.pdbx_number_of_molecules 3 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 86.09 _cell.angle_beta 73.33 _cell.angle_gamma 83.38 _cell.entry_id 3QX8 _cell.length_a 40.686 _cell.length_b 46.967 _cell.length_c 66.119 _cell.Z_PDB 3 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3QX8 _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 PISA monomeric 1 author_and_software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,D,G 1 1 B,E,H 2 1 C,F,I 3 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 D N N ? 2 E N N ? 2 F N N # _chem_comp.formula 'C21 H30 N10 O18 P3 1' _chem_comp.formula_weight 803.44 _chem_comp.id GTG _chem_comp.mon_nstd_flag . _chem_comp.name "7-METHYL-GUANOSINE-5'-TRIPHOSPHATE-5'-GUANOSINE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'MRNA CAP ANALOG N7-METHYL GPPPG' # 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 PA O1A GTG doub 129 n n PA O2A GTG sing 130 n n PA O3A GTG sing 131 n n PA O5D GTG sing 132 n n O2A HOA2 GTG sing 133 n n O3A PB GTG sing 134 n n PB O1B GTG doub 135 n n PB O2B GTG sing 136 n n PB O3B GTG sing 137 n n O2B HOB2 GTG sing 138 n n O3B PG GTG sing 139 n n N9A C8A GTG sing 140 n y N9A C4A GTG sing 141 n y N9A C1D GTG sing 142 n n C8A N7A GTG doub 143 n y C8A H8 GTG sing 144 n n N7A C7X GTG sing 145 n n N7A C5A GTG sing 146 n y C7X HC71 GTG sing 147 n n C7X HC72 GTG sing 148 n n C7X HC73 GTG sing 149 n n C5A C6A GTG sing 150 n n C5A C4A GTG doub 151 n y C6A O6A GTG doub 152 n n C6A N1A GTG sing 153 n n N1A C2A GTG sing 154 n n N1A HN1 GTG sing 155 n n C2A N2A GTG sing 156 n n C2A N3A GTG doub 157 n n N2A HN21 GTG sing 158 n n N2A HN22 GTG sing 159 n n N3A C4A GTG sing 160 n n O5D C5D GTG sing 161 n n C5D C4D GTG sing 162 n n C5D "H5'1" GTG sing 163 n n C5D "H5'2" GTG sing 164 n n C4D O4D GTG sing 165 n n C4D C3D GTG sing 166 n n C4D H4' GTG sing 167 n n O4D C1D GTG sing 168 n n C3D O3D GTG sing 169 n n C3D C2D GTG sing 170 n n C3D H3' GTG sing 171 n n O3D HO3' GTG sing 172 n n C2D O2D GTG sing 173 n n C2D C1D GTG sing 174 n n C2D H2' GTG sing 175 n n O2D HO2' GTG sing 176 n n C1D H1' GTG sing 177 n n PG O1G GTG doub 178 n n PG O2G GTG sing 179 n n PG O5E GTG sing 180 n n O2G HOG2 GTG sing 181 n n O5E C5E GTG sing 182 n n C5E C4E GTG sing 183 n n C5E H5B1 GTG sing 184 n n C5E H5B2 GTG sing 185 n n C4E O4E GTG sing 186 n n C4E C3E GTG sing 187 n n C4E H4B GTG sing 188 n n O4E C1E GTG sing 189 n n C3E O3E GTG sing 190 n n C3E C2E GTG sing 191 n n C3E H3B GTG sing 192 n n O3E H3BO GTG sing 193 n n C2E O2E GTG sing 194 n n C2E C1E GTG sing 195 n n C2E H2B GTG sing 196 n n O2E H2BO GTG sing 197 n n C1E N9B GTG sing 198 n n C1E H1B GTG sing 199 n n N9B C8B GTG sing 200 n y N9B C4B GTG sing 201 n y C8B N7B GTG doub 202 n y C8B H8B GTG sing 203 n n N7B C5B GTG sing 204 n y C5B C6B GTG sing 205 n n C5B C4B GTG doub 206 n y C6B O6B GTG doub 207 n n C6B N1B GTG sing 208 n n N1B C2B GTG sing 209 n n N1B H1BN GTG sing 210 n n C2B N2B GTG sing 211 n n C2B N3B GTG doub 212 n n N2B H2B1 GTG sing 213 n n N2B H2B2 GTG sing 214 n n N3B C4B GTG sing 215 n n # _atom_sites.entry_id 3QX8 _atom_sites.fract_transf_matrix[1][1] 0.024578 _atom_sites.fract_transf_matrix[1][2] -0.002853 _atom_sites.fract_transf_matrix[1][3] -0.00726 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.021434 _atom_sites.fract_transf_matrix[2][3] -0.000792 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.015799 _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 D 2 GTG A 1 28 28 GTG GTG . E 2 GTG B 1 28 28 GTG GTG . F 2 GTG C 1 28 28 GTG GTG . G 3 HOH A 1 3 3 HOH HOH . G 3 HOH A 2 6 6 HOH HOH . G 3 HOH A 3 12 12 HOH HOH . G 3 HOH A 4 13 13 HOH HOH . G 3 HOH A 5 14 14 HOH HOH . G 3 HOH A 6 17 17 HOH HOH . G 3 HOH A 7 20 20 HOH HOH . G 3 HOH A 8 23 23 HOH HOH . G 3 HOH A 9 25 25 HOH HOH . G 3 HOH A 10 30 30 HOH HOH . G 3 HOH A 11 31 31 HOH HOH . G 3 HOH A 12 33 33 HOH HOH . G 3 HOH A 13 37 37 HOH HOH . G 3 HOH A 14 38 38 HOH HOH . G 3 HOH A 15 40 40 HOH HOH . G 3 HOH A 16 41 41 HOH HOH . G 3 HOH A 17 46 46 HOH HOH . G 3 HOH A 18 48 48 HOH HOH . G 3 HOH A 19 49 49 HOH HOH . G 3 HOH A 20 50 50 HOH HOH . G 3 HOH A 21 52 52 HOH HOH . G 3 HOH A 22 57 57 HOH HOH . G 3 HOH A 23 59 59 HOH HOH . G 3 HOH A 24 62 62 HOH HOH . G 3 HOH A 25 67 67 HOH HOH . G 3 HOH A 26 69 69 HOH HOH . G 3 HOH A 27 78 78 HOH HOH . G 3 HOH A 28 91 91 HOH HOH . G 3 HOH A 29 93 93 HOH HOH . G 3 HOH A 30 94 94 HOH HOH . G 3 HOH A 31 95 95 HOH HOH . G 3 HOH A 32 96 96 HOH HOH . G 3 HOH A 33 97 97 HOH HOH . G 3 HOH A 34 98 98 HOH HOH . G 3 HOH A 35 99 99 HOH HOH . G 3 HOH A 36 100 100 HOH HOH . G 3 HOH A 37 110 110 HOH HOH . H 3 HOH B 1 2 2 HOH HOH . H 3 HOH B 2 4 4 HOH HOH . H 3 HOH B 3 11 11 HOH HOH . H 3 HOH B 4 19 19 HOH HOH . H 3 HOH B 5 22 22 HOH HOH . H 3 HOH B 6 24 24 HOH HOH . H 3 HOH B 7 39 39 HOH HOH . H 3 HOH B 8 42 42 HOH HOH . H 3 HOH B 9 43 43 HOH HOH . H 3 HOH B 10 51 51 HOH HOH . H 3 HOH B 11 55 55 HOH HOH . H 3 HOH B 12 56 56 HOH HOH . H 3 HOH B 13 58 58 HOH HOH . H 3 HOH B 14 61 61 HOH HOH . H 3 HOH B 15 65 65 HOH HOH . H 3 HOH B 16 68 68 HOH HOH . H 3 HOH B 17 71 71 HOH HOH . H 3 HOH B 18 75 75 HOH HOH . H 3 HOH B 19 81 81 HOH HOH . H 3 HOH B 20 82 82 HOH HOH . H 3 HOH B 21 83 83 HOH HOH . H 3 HOH B 22 84 84 HOH HOH . H 3 HOH B 23 85 85 HOH HOH . H 3 HOH B 24 87 87 HOH HOH . H 3 HOH B 25 88 88 HOH HOH . H 3 HOH B 26 89 89 HOH HOH . H 3 HOH B 27 90 90 HOH HOH . H 3 HOH B 28 92 92 HOH HOH . H 3 HOH B 29 104 104 HOH HOH . H 3 HOH B 30 105 105 HOH HOH . H 3 HOH B 31 106 106 HOH HOH . H 3 HOH B 32 108 108 HOH HOH . I 3 HOH C 1 5 5 HOH HOH . I 3 HOH C 2 8 8 HOH HOH . I 3 HOH C 3 9 9 HOH HOH . I 3 HOH C 4 10 10 HOH HOH . I 3 HOH C 5 16 16 HOH HOH . I 3 HOH C 6 18 18 HOH HOH . I 3 HOH C 7 21 21 HOH HOH . I 3 HOH C 8 26 26 HOH HOH . I 3 HOH C 9 27 27 HOH HOH . I 3 HOH C 10 29 29 HOH HOH . I 3 HOH C 11 34 34 HOH HOH . I 3 HOH C 12 44 44 HOH HOH . I 3 HOH C 13 45 45 HOH HOH . I 3 HOH C 14 47 47 HOH HOH . I 3 HOH C 15 53 53 HOH HOH . I 3 HOH C 16 60 60 HOH HOH . I 3 HOH C 17 66 66 HOH HOH . I 3 HOH C 18 70 70 HOH HOH . I 3 HOH C 19 74 74 HOH HOH . I 3 HOH C 20 77 77 HOH HOH . I 3 HOH C 21 79 79 HOH HOH . I 3 HOH C 22 86 86 HOH HOH . I 3 HOH C 23 101 101 HOH HOH . I 3 HOH C 24 107 107 HOH HOH . I 3 HOH C 25 109 109 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 PA GTG . . . F 2 3.858 19.231 28.094 1 71.36 ? PA GTG 28 C 1 HETATM 2 O O1A GTG . . . F 2 5.335 19.524 28.379 1 73.69 ? O1A GTG 28 C 1 HETATM 3 O O2A GTG . . . F 2 3.817 17.73 27.428 1 69.87 ? O2A GTG 28 C 1 HETATM 4 O O3A GTG . . . F 2 3.504 20.54 27.096 1 71.39 ? O3A GTG 28 C 1 HETATM 5 P PB GTG . . . F 2 1.987 20.865 26.576 1 71.13 ? PB GTG 28 C 1 HETATM 6 O O1B GTG . . . F 2 1.252 21.975 27.468 1 70.95 ? O1B GTG 28 C 1 HETATM 7 O O2B GTG . . . F 2 2.116 21.361 25.199 1 70.17 ? O2B GTG 28 C 1 HETATM 8 O O3B GTG . . . F 2 1.045 19.508 26.507 1 69 ? O3B GTG 28 C 1 HETATM 9 N N9A GTG . . . F 2 1.755 19.435 34.141 1 75.16 ? N9A GTG 28 C 1 HETATM 10 C C8A GTG . . . F 2 2.299 19.651 35.37 1 75.2 ? C8A GTG 28 C 1 HETATM 11 N N7A GTG . . . F 2 1.76 20.646 35.946 1 75.58 ? N7A GTG 28 C 1 HETATM 12 C C7X GTG . . . F 2 2.183 21.092 37.241 1 74.55 ? C7X GTG 28 C 1 HETATM 13 C C5A GTG . . . F 2 0.796 21.179 35.148 1 76.1 ? C5A GTG 28 C 1 HETATM 14 C C6A GTG . . . F 2 -0.115 22.275 35.244 1 76.91 ? C6A GTG 28 C 1 HETATM 15 O O6A GTG . . . F 2 -0.132 22.979 36.245 1 78.21 ? O6A GTG 28 C 1 HETATM 16 N N1A GTG . . . F 2 -0.974 22.512 34.187 1 76.11 ? N1A GTG 28 C 1 HETATM 17 C C2A GTG . . . F 2 -0.959 21.716 33.066 1 75.19 ? C2A GTG 28 C 1 HETATM 18 N N2A GTG . . . F 2 -1.853 21.973 32.05 1 74.09 ? N2A GTG 28 C 1 HETATM 19 N N3A GTG . . . F 2 -0.108 20.697 32.961 1 75.07 ? N3A GTG 28 C 1 HETATM 20 C C4A GTG . . . F 2 0.775 20.391 33.958 1 75.64 ? C4A GTG 28 C 1 HETATM 21 O O5D GTG . . . F 2 3.261 19.241 29.592 1 72.78 ? O5D GTG 28 C 1 HETATM 22 C C5D GTG . . . F 2 3.325 17.866 30.124 1 73.42 ? C5D GTG 28 C 1 HETATM 23 C C4D GTG . . . F 2 2.659 17.653 31.511 1 74.59 ? C4D GTG 28 C 1 HETATM 24 O O4D GTG . . . F 2 1.446 18.123 31.956 1 75.46 ? O4D GTG 28 C 1 HETATM 25 C C3D GTG . . . F 2 2.948 16.388 32.407 1 74.84 ? C3D GTG 28 C 1 HETATM 26 O O3D GTG . . . F 2 4.263 15.897 32.316 1 75.78 ? O3D GTG 28 C 1 HETATM 27 C C2D GTG . . . F 2 2.511 16.989 33.775 1 75.34 ? C2D GTG 28 C 1 HETATM 28 O O2D GTG . . . F 2 3.592 16.926 34.709 1 75.43 ? O2D GTG 28 C 1 HETATM 29 C C1D GTG . . . F 2 2.172 18.415 33.214 1 74.89 ? C1D GTG 28 C 1 HETATM 30 P PG GTG . . . F 2 -0.496 19.861 26.873 0 66.62 ? PG GTG 28 C 1 HETATM 31 O O1G GTG . . . F 2 -0.902 19.296 28.337 0 66.48 ? O1G GTG 28 C 1 HETATM 32 O O2G GTG . . . F 2 -0.601 21.337 26.853 0 66.48 ? O2G GTG 28 C 1 HETATM 33 O O5E GTG . . . F 2 -1.525 19.266 25.743 0 64.36 ? O5E GTG 28 C 1 HETATM 34 C C5E GTG . . . F 2 -2.862 19.619 26.166 0 60.82 ? C5E GTG 28 C 1 HETATM 35 C C4E GTG . . . F 2 -3.968 19.181 25.172 0 58.49 ? C4E GTG 28 C 1 HETATM 36 O O4E GTG . . . F 2 -4.023 17.761 24.866 0 57.52 ? O4E GTG 28 C 1 HETATM 37 C C3E GTG . . . F 2 -5.366 19.593 25.691 0 57.5 ? C3E GTG 28 C 1 HETATM 38 O O3E GTG . . . F 2 -5.919 20.688 24.955 0 57.19 ? O3E GTG 28 C 1 HETATM 39 C C2E GTG . . . F 2 -6.21 18.294 25.588 0 56.89 ? C2E GTG 28 C 1 HETATM 40 O O2E GTG . . . F 2 -7.563 18.565 25.188 0 56.49 ? O2E GTG 28 C 1 HETATM 41 C C1E GTG . . . F 2 -5.422 17.452 24.547 0 56.55 ? C1E GTG 28 C 1 HETATM 42 N N9B GTG . . . F 2 -5.731 16.011 24.714 0 55.75 ? N9B GTG 28 C 1 HETATM 43 C C8B GTG . . . F 2 -5.183 15.169 25.65 0 55.36 ? C8B GTG 28 C 1 HETATM 44 N N7B GTG . . . F 2 -5.676 13.97 25.525 0 55.18 ? N7B GTG 28 C 1 HETATM 45 C C5B GTG . . . F 2 -6.569 13.948 24.503 0 55.07 ? C5B GTG 28 C 1 HETATM 46 C C6B GTG . . . F 2 -7.407 12.937 23.921 0 54.93 ? C6B GTG 28 C 1 HETATM 47 O O6B GTG . . . F 2 -7.393 11.799 24.351 0 54.83 ? O6B GTG 28 C 1 HETATM 48 N N1B GTG . . . F 2 -8.219 13.274 22.86 0 54.88 ? N1B GTG 28 C 1 HETATM 49 C C2B GTG . . . F 2 -8.234 14.566 22.372 0 54.9 ? C2B GTG 28 C 1 HETATM 50 N N2B GTG . . . F 2 -9.05 14.883 21.316 0 54.82 ? N2B GTG 28 C 1 HETATM 51 N N3B GTG . . . F 2 -7.46 15.517 22.909 0 54.99 ? N3B GTG 28 C 1 HETATM 52 C C4B GTG . . . F 2 -6.628 15.256 23.966 0 55.25 ? C4B GTG 28 C 1 # _model_server_stats.io_time_ms 56 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 330 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 52 #