data_4HNX # _model_server_result.job_id JGWKX4rpYceohIn1YWEKMQ _model_server_result.datetime_utc '2024-11-17 00:21:46' _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 4hnx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":901}' # _entry.id 4HNX # _exptl.entry_id 4HNX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 603.16 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "GUANOSINE-5',3'-TETRAPHOSPHATE" _entity.pdbx_number_of_molecules 1 _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 120 _cell.entry_id 4HNX _cell.length_a 137.105 _cell.length_b 137.105 _cell.length_c 179.603 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4HNX _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _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 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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C10 H17 N5 O17 P4' _chem_comp.formula_weight 603.16 _chem_comp.id G4P _chem_comp.mon_nstd_flag . _chem_comp.name "GUANOSINE-5',3'-TETRAPHOSPHATE" _chem_comp.type 'rna linking' _chem_comp.pdbx_synonyms 'guanosine tetraphosphate;ppGpp' # 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 PB O1B G4P doub 83 n n PB O2B G4P sing 84 n n PB O3B G4P sing 85 n n PB O3A G4P sing 86 n n O2B HOB2 G4P sing 87 n n O3B HOB3 G4P sing 88 n n O3A PA G4P sing 89 n n PA O1A G4P doub 90 n n PA O2A G4P sing 91 n n PA O5' G4P sing 92 n n O2A HOA2 G4P sing 93 n n O5' C5' G4P sing 94 n n C5' C4' G4P sing 95 n n C5' H5' G4P sing 96 n n C5' "H5''" G4P sing 97 n n C4' O4' G4P sing 98 n n C4' C3' G4P sing 99 n n C4' H4' G4P sing 100 n n O4' C1' G4P sing 101 n n C3' O3' G4P sing 102 n n C3' C2' G4P sing 103 n n C3' H3' G4P sing 104 n n O3' PC G4P sing 105 n n C2' O2' G4P sing 106 n n C2' C1' G4P sing 107 n n C2' H2' G4P sing 108 n n O2' HO2' G4P sing 109 n n C1' N9 G4P sing 110 n n C1' H1' G4P sing 111 n n N9 C8 G4P sing 112 n y N9 C4 G4P sing 113 n y C8 N7 G4P doub 114 n y C8 H8 G4P sing 115 n n N7 C5 G4P sing 116 n y C5 C6 G4P sing 117 n n C5 C4 G4P doub 118 n y C6 O6 G4P doub 119 n n C6 N1 G4P sing 120 n n N1 C2 G4P sing 121 n n N1 HN1 G4P sing 122 n n C2 N2 G4P sing 123 n n C2 N3 G4P doub 124 n n N2 HN21 G4P sing 125 n n N2 HN22 G4P sing 126 n n N3 C4 G4P sing 127 n n PC O1C G4P doub 128 n n PC O2C G4P sing 129 n n PC O3C G4P sing 130 n n O2C H2C G4P sing 131 n n O3C PD G4P sing 132 n n PD O1D G4P doub 133 n n PD O2D G4P sing 134 n n PD O3D G4P sing 135 n n O2D H2D G4P sing 136 n n O3D H3D G4P sing 137 n n # _atom_sites.entry_id 4HNX _atom_sites.fract_transf_matrix[1][1] 0.007294 _atom_sites.fract_transf_matrix[1][2] 0.004211 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008422 _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] 0.005568 _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 3 G4P A 1 901 600 G4P G4P . D 4 HOH A 1 1001 2 HOH HOH . D 4 HOH A 2 1002 3 HOH HOH . D 4 HOH A 3 1003 4 HOH HOH . D 4 HOH A 4 1004 6 HOH HOH . D 4 HOH A 5 1005 8 HOH HOH . D 4 HOH A 6 1006 9 HOH HOH . D 4 HOH A 7 1007 10 HOH HOH . D 4 HOH A 8 1008 11 HOH HOH . D 4 HOH A 9 1009 13 HOH HOH . D 4 HOH A 10 1010 14 HOH HOH . D 4 HOH A 11 1011 15 HOH HOH . D 4 HOH A 12 1012 17 HOH HOH . D 4 HOH A 13 1013 19 HOH HOH . D 4 HOH A 14 1014 20 HOH HOH . D 4 HOH A 15 1015 21 HOH HOH . D 4 HOH A 16 1016 23 HOH HOH . D 4 HOH A 17 1017 24 HOH HOH . D 4 HOH A 18 1018 25 HOH HOH . D 4 HOH A 19 1019 26 HOH HOH . D 4 HOH A 20 1020 27 HOH HOH . D 4 HOH A 21 1021 28 HOH HOH . D 4 HOH A 22 1022 29 HOH HOH . D 4 HOH A 23 1023 31 HOH HOH . D 4 HOH A 24 1024 33 HOH HOH . D 4 HOH A 25 1025 35 HOH HOH . D 4 HOH A 26 1026 37 HOH HOH . D 4 HOH A 27 1027 38 HOH HOH . D 4 HOH A 28 1028 40 HOH HOH . D 4 HOH A 29 1029 41 HOH HOH . D 4 HOH A 30 1030 42 HOH HOH . D 4 HOH A 31 1031 43 HOH HOH . D 4 HOH A 32 1032 44 HOH HOH . D 4 HOH A 33 1033 45 HOH HOH . D 4 HOH A 34 1034 46 HOH HOH . D 4 HOH A 35 1035 47 HOH HOH . D 4 HOH A 36 1036 48 HOH HOH . D 4 HOH A 37 1037 49 HOH HOH . D 4 HOH A 38 1038 50 HOH HOH . D 4 HOH A 39 1039 53 HOH HOH . D 4 HOH A 40 1040 55 HOH HOH . D 4 HOH A 41 1041 57 HOH HOH . D 4 HOH A 42 1042 58 HOH HOH . D 4 HOH A 43 1043 59 HOH HOH . D 4 HOH A 44 1044 60 HOH HOH . D 4 HOH A 45 1045 61 HOH HOH . D 4 HOH A 46 1046 62 HOH HOH . D 4 HOH A 47 1047 63 HOH HOH . D 4 HOH A 48 1048 65 HOH HOH . D 4 HOH A 49 1049 67 HOH HOH . D 4 HOH A 50 1050 68 HOH HOH . D 4 HOH A 51 1051 70 HOH HOH . D 4 HOH A 52 1052 73 HOH HOH . D 4 HOH A 53 1053 74 HOH HOH . D 4 HOH A 54 1054 75 HOH HOH . D 4 HOH A 55 1055 76 HOH HOH . D 4 HOH A 56 1056 78 HOH HOH . D 4 HOH A 57 1057 79 HOH HOH . D 4 HOH A 58 1058 81 HOH HOH . D 4 HOH A 59 1059 82 HOH HOH . D 4 HOH A 60 1060 84 HOH HOH . D 4 HOH A 61 1061 85 HOH HOH . D 4 HOH A 62 1062 86 HOH HOH . D 4 HOH A 63 1063 88 HOH HOH . D 4 HOH A 64 1064 89 HOH HOH . D 4 HOH A 65 1065 90 HOH HOH . D 4 HOH A 66 1066 91 HOH HOH . D 4 HOH A 67 1067 92 HOH HOH . D 4 HOH A 68 1068 93 HOH HOH . D 4 HOH A 69 1069 95 HOH HOH . D 4 HOH A 70 1070 96 HOH HOH . D 4 HOH A 71 1071 98 HOH HOH . D 4 HOH A 72 1072 99 HOH HOH . D 4 HOH A 73 1073 100 HOH HOH . D 4 HOH A 74 1074 101 HOH HOH . D 4 HOH A 75 1075 102 HOH HOH . D 4 HOH A 76 1076 103 HOH HOH . D 4 HOH A 77 1077 104 HOH HOH . D 4 HOH A 78 1078 106 HOH HOH . D 4 HOH A 79 1079 107 HOH HOH . D 4 HOH A 80 1080 108 HOH HOH . D 4 HOH A 81 1081 109 HOH HOH . D 4 HOH A 82 1082 110 HOH HOH . D 4 HOH A 83 1083 112 HOH HOH . D 4 HOH A 84 1084 113 HOH HOH . D 4 HOH A 85 1085 114 HOH HOH . D 4 HOH A 86 1086 115 HOH HOH . D 4 HOH A 87 1087 117 HOH HOH . D 4 HOH A 88 1088 118 HOH HOH . D 4 HOH A 89 1089 120 HOH HOH . D 4 HOH A 90 1090 121 HOH HOH . D 4 HOH A 91 1091 123 HOH HOH . D 4 HOH A 92 1092 124 HOH HOH . D 4 HOH A 93 1093 125 HOH HOH . D 4 HOH A 94 1094 126 HOH HOH . D 4 HOH A 95 1095 127 HOH HOH . D 4 HOH A 96 1096 130 HOH HOH . D 4 HOH A 97 1097 131 HOH HOH . D 4 HOH A 98 1098 134 HOH HOH . D 4 HOH A 99 1099 135 HOH HOH . D 4 HOH A 100 1100 136 HOH HOH . D 4 HOH A 101 1101 138 HOH HOH . D 4 HOH A 102 1102 139 HOH HOH . D 4 HOH A 103 1103 140 HOH HOH . D 4 HOH A 104 1104 141 HOH HOH . D 4 HOH A 105 1105 142 HOH HOH . D 4 HOH A 106 1106 143 HOH HOH . D 4 HOH A 107 1107 144 HOH HOH . D 4 HOH A 108 1108 145 HOH HOH . D 4 HOH A 109 1109 146 HOH HOH . D 4 HOH A 110 1110 147 HOH HOH . D 4 HOH A 111 1111 148 HOH HOH . D 4 HOH A 112 1112 151 HOH HOH . D 4 HOH A 113 1113 152 HOH HOH . D 4 HOH A 114 1114 153 HOH HOH . D 4 HOH A 115 1115 154 HOH HOH . D 4 HOH A 116 1116 155 HOH HOH . D 4 HOH A 117 1117 158 HOH HOH . D 4 HOH A 118 1118 159 HOH HOH . D 4 HOH A 119 1119 160 HOH HOH . D 4 HOH A 120 1120 161 HOH HOH . D 4 HOH A 121 1121 162 HOH HOH . D 4 HOH A 122 1122 164 HOH HOH . D 4 HOH A 123 1123 165 HOH HOH . D 4 HOH A 124 1124 167 HOH HOH . D 4 HOH A 125 1125 168 HOH HOH . D 4 HOH A 126 1126 170 HOH HOH . D 4 HOH A 127 1127 171 HOH HOH . D 4 HOH A 128 1128 173 HOH HOH . D 4 HOH A 129 1129 174 HOH HOH . D 4 HOH A 130 1130 175 HOH HOH . D 4 HOH A 131 1131 176 HOH HOH . D 4 HOH A 132 1132 177 HOH HOH . D 4 HOH A 133 1133 178 HOH HOH . D 4 HOH A 134 1134 179 HOH HOH . D 4 HOH A 135 1135 180 HOH HOH . D 4 HOH A 136 1136 181 HOH HOH . D 4 HOH A 137 1137 183 HOH HOH . D 4 HOH A 138 1138 184 HOH HOH . D 4 HOH A 139 1139 185 HOH HOH . E 4 HOH B 1 301 1 HOH HOH . E 4 HOH B 2 302 5 HOH HOH . E 4 HOH B 3 303 7 HOH HOH . E 4 HOH B 4 304 12 HOH HOH . E 4 HOH B 5 305 16 HOH HOH . E 4 HOH B 6 306 18 HOH HOH . E 4 HOH B 7 307 22 HOH HOH . E 4 HOH B 8 308 30 HOH HOH . E 4 HOH B 9 309 32 HOH HOH . E 4 HOH B 10 310 34 HOH HOH . E 4 HOH B 11 311 36 HOH HOH . E 4 HOH B 12 312 39 HOH HOH . E 4 HOH B 13 313 51 HOH HOH . E 4 HOH B 14 314 52 HOH HOH . E 4 HOH B 15 315 54 HOH HOH . E 4 HOH B 16 316 56 HOH HOH . E 4 HOH B 17 317 64 HOH HOH . E 4 HOH B 18 318 66 HOH HOH . E 4 HOH B 19 319 69 HOH HOH . E 4 HOH B 20 320 71 HOH HOH . E 4 HOH B 21 321 72 HOH HOH . E 4 HOH B 22 322 77 HOH HOH . E 4 HOH B 23 323 80 HOH HOH . E 4 HOH B 24 324 83 HOH HOH . E 4 HOH B 25 325 87 HOH HOH . E 4 HOH B 26 326 94 HOH HOH . E 4 HOH B 27 327 97 HOH HOH . E 4 HOH B 28 328 105 HOH HOH . E 4 HOH B 29 329 111 HOH HOH . E 4 HOH B 30 330 116 HOH HOH . E 4 HOH B 31 331 119 HOH HOH . E 4 HOH B 32 332 122 HOH HOH . E 4 HOH B 33 333 128 HOH HOH . E 4 HOH B 34 334 129 HOH HOH . E 4 HOH B 35 335 132 HOH HOH . E 4 HOH B 36 336 133 HOH HOH . E 4 HOH B 37 337 137 HOH HOH . E 4 HOH B 38 338 149 HOH HOH . E 4 HOH B 39 339 150 HOH HOH . E 4 HOH B 40 340 156 HOH HOH . E 4 HOH B 41 341 157 HOH HOH . E 4 HOH B 42 342 163 HOH HOH . E 4 HOH B 43 343 166 HOH HOH . E 4 HOH B 44 344 169 HOH HOH . E 4 HOH B 45 345 172 HOH HOH . E 4 HOH B 46 346 182 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 PB G4P . . . C 3 -58.069 16.997 13.63 1 82.31 ? PB G4P 901 A 1 HETATM 2 O O1B G4P . . . C 3 -58.641 16.148 14.794 1 68.28 ? O1B G4P 901 A 1 HETATM 3 O O2B G4P . . . C 3 -56.572 16.714 13.576 1 82.55 ? O2B G4P 901 A 1 HETATM 4 O O3B G4P . . . C 3 -58.785 16.668 12.334 1 77.8 ? O3B G4P 901 A 1 HETATM 5 O O3A G4P . . . C 3 -58.355 18.474 13.995 1 91.75 ? O3A G4P 901 A 1 HETATM 6 P PA G4P . . . C 3 -57.363 19.625 14.125 1 80.8 ? PA G4P 901 A 1 HETATM 7 O O1A G4P . . . C 3 -58.227 20.861 14.307 1 83.3 ? O1A G4P 901 A 1 HETATM 8 O O2A G4P . . . C 3 -56.381 19.427 15.228 1 74.21 ? O2A G4P 901 A 1 HETATM 9 O O5' G4P . . . C 3 -56.536 19.8 12.748 1 96.1 ? O5' G4P 901 A 1 HETATM 10 C C5' G4P . . . C 3 -57.101 20.292 11.606 1 91.85 ? C5' G4P 901 A 1 HETATM 11 C C4' G4P . . . C 3 -56.248 20.212 10.437 1 92.24 ? C4' G4P 901 A 1 HETATM 12 O O4' G4P . . . C 3 -55.443 21.433 10.366 1 90.06 ? O4' G4P 901 A 1 HETATM 13 C C3' G4P . . . C 3 -55.272 19.099 10.623 1 89.78 ? C3' G4P 901 A 1 HETATM 14 O O3' G4P . . . C 3 -54.842 18.634 9.402 1 98.25 ? O3' G4P 901 A 1 HETATM 15 C C2' G4P . . . C 3 -54.166 19.729 11.328 1 79.45 ? C2' G4P 901 A 1 HETATM 16 O O2' G4P . . . C 3 -53.024 19.053 11.144 1 65.96 ? O2' G4P 901 A 1 HETATM 17 C C1' G4P . . . C 3 -54.117 21.081 10.678 1 85.83 ? C1' G4P 901 A 1 HETATM 18 N N9 G4P . . . C 3 -53.451 22.06 11.435 1 94.32 ? N9 G4P 901 A 1 HETATM 19 C C8 G4P . . . C 3 -53.644 22.311 12.684 1 97.56 ? C8 G4P 901 A 1 HETATM 20 N N7 G4P . . . C 3 -52.939 23.223 13.116 1 98.09 ? N7 G4P 901 A 1 HETATM 21 C C5 G4P . . . C 3 -52.139 23.742 12.204 1 100 ? C5 G4P 901 A 1 HETATM 22 C C6 G4P . . . C 3 -51.172 24.725 12.083 1 97.9 ? C6 G4P 901 A 1 HETATM 23 O O6 G4P . . . C 3 -50.835 25.482 13.184 1 97.61 ? O6 G4P 901 A 1 HETATM 24 N N1 G4P . . . C 3 -50.555 24.952 10.885 1 96.84 ? N1 G4P 901 A 1 HETATM 25 C C2 G4P . . . C 3 -50.87 24.223 9.784 1 92.14 ? C2 G4P 901 A 1 HETATM 26 N N2 G4P . . . C 3 -50.202 24.486 8.523 1 87.9 ? N2 G4P 901 A 1 HETATM 27 N N3 G4P . . . C 3 -51.803 23.249 9.853 1 95.08 ? N3 G4P 901 A 1 HETATM 28 C C4 G4P . . . C 3 -52.445 22.978 10.997 1 98.75 ? C4 G4P 901 A 1 HETATM 29 P PC G4P . . . C 3 -55.713 17.475 8.69 1 70.28 ? PC G4P 901 A 1 HETATM 30 O O1C G4P . . . C 3 -55.097 16.223 9.117 1 61.72 ? O1C G4P 901 A 1 HETATM 31 O O2C G4P . . . C 3 -55.719 17.634 7.12 1 73.35 ? O2C G4P 901 A 1 HETATM 32 O O3C G4P . . . C 3 -57.189 17.661 9.38 1 89.59 ? O3C G4P 901 A 1 HETATM 33 P PD G4P . . . C 3 -58.518 16.908 8.976 1 74.94 ? PD G4P 901 A 1 HETATM 34 O O1D G4P . . . C 3 -58.872 17.296 7.61 1 72.49 ? O1D G4P 901 A 1 HETATM 35 O O2D G4P . . . C 3 -59.608 17.384 9.818 1 79.26 ? O2D G4P 901 A 1 HETATM 36 O O3D G4P . . . C 3 -58.364 15.429 9.137 1 80.83 ? O3D G4P 901 A 1 # _model_server_stats.io_time_ms 79 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 32 _model_server_stats.query_time_ms 314 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 36 #