data_3OXK # _model_server_result.job_id GVxsLCEfAxJ_fi9ki3YGHw _model_server_result.datetime_utc '2024-10-20 00:35:34' _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 3oxk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":125}' # _entry.id 3OXK # _exptl.entry_id 3OXK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 363.221 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "GUANOSINE-5'-MONOPHOSPHATE" _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 90 _cell.entry_id 3OXK _cell.length_a 53.66 _cell.length_b 60.86 _cell.length_c 67.93 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3OXK _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _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 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 4_555 x,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 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 # 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 SG CYS 9 A CYS 5 1_555 B ZN ZN . A ZN 120 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.278 ? metalc ? metalc2 A SG CYS 12 A CYS 8 1_555 B ZN ZN . A ZN 120 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? metalc ? metalc3 A ND1 HIS 51 A HIS 47 1_555 B ZN ZN . A ZN 120 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? metalc ? metalc4 A ND1 HIS 101 A HIS 97 1_555 B ZN ZN . A ZN 120 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? # _chem_comp.formula 'C10 H14 N5 O8 P' _chem_comp.formula_weight 363.221 _chem_comp.id 5GP _chem_comp.mon_nstd_flag . _chem_comp.name "GUANOSINE-5'-MONOPHOSPHATE" _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 P O1P 5GP doub 1 n n P O2P 5GP sing 2 n n P O3P 5GP sing 3 n n P O5' 5GP sing 4 n n O2P HOP2 5GP sing 5 n n O3P HOP3 5GP sing 6 n n O5' C5' 5GP sing 7 n n C5' C4' 5GP sing 8 n n C5' "H5'1" 5GP sing 9 n n C5' "H5'2" 5GP sing 10 n n C4' O4' 5GP sing 11 n n C4' C3' 5GP sing 12 n n C4' H4' 5GP sing 13 n n O4' C1' 5GP sing 14 n n C3' O3' 5GP sing 15 n n C3' C2' 5GP sing 16 n n C3' H3' 5GP sing 17 n n O3' HO3' 5GP sing 18 n n C2' O2' 5GP sing 19 n n C2' C1' 5GP sing 20 n n C2' H2' 5GP sing 21 n n O2' HO2' 5GP sing 22 n n C1' N9 5GP sing 23 n n C1' H1' 5GP sing 24 n n N9 C8 5GP sing 25 n y N9 C4 5GP sing 26 n y C8 N7 5GP doub 27 n y C8 H8 5GP sing 28 n n N7 C5 5GP sing 29 n y C5 C6 5GP sing 30 n n C5 C4 5GP doub 31 n y C6 O6 5GP doub 32 n n C6 N1 5GP sing 33 n n N1 C2 5GP sing 34 n n N1 HN1 5GP sing 35 n n C2 N2 5GP sing 36 n n C2 N3 5GP doub 37 n n N2 HN21 5GP sing 38 n n N2 HN22 5GP sing 39 n n N3 C4 5GP sing 40 n n # _atom_sites.entry_id 3OXK _atom_sites.fract_transf_matrix[1][1] 0.018636 _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] 0.016431 _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] 0.014721 _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 B 2 ZN A 1 120 120 ZN ZN . C 3 5GP A 1 125 125 5GP 5GP . D 4 EOH A 1 114 1 EOH EOH . E 5 HOH A 1 115 1 HOH HOH . E 5 HOH A 2 116 116 HOH HOH . E 5 HOH A 3 117 117 HOH HOH . E 5 HOH A 4 118 118 HOH HOH . E 5 HOH A 5 119 119 HOH HOH . E 5 HOH A 6 121 121 HOH HOH . E 5 HOH A 7 122 122 HOH HOH . E 5 HOH A 8 123 123 HOH HOH . E 5 HOH A 9 124 2 HOH HOH . E 5 HOH A 10 126 126 HOH HOH . E 5 HOH A 11 127 127 HOH HOH . E 5 HOH A 12 128 128 HOH HOH . E 5 HOH A 13 129 129 HOH HOH . E 5 HOH A 14 130 130 HOH HOH . E 5 HOH A 15 131 131 HOH HOH . E 5 HOH A 16 132 132 HOH HOH . E 5 HOH A 17 133 133 HOH HOH . E 5 HOH A 18 134 134 HOH HOH . E 5 HOH A 19 135 135 HOH HOH . E 5 HOH A 20 136 136 HOH HOH . E 5 HOH A 21 137 137 HOH HOH . E 5 HOH A 22 138 138 HOH HOH . E 5 HOH A 23 139 139 HOH HOH . E 5 HOH A 24 140 140 HOH HOH . E 5 HOH A 25 141 3 HOH HOH . E 5 HOH A 26 142 142 HOH HOH . E 5 HOH A 27 143 143 HOH HOH . E 5 HOH A 28 144 144 HOH HOH . E 5 HOH A 29 145 145 HOH HOH . E 5 HOH A 30 146 146 HOH HOH . E 5 HOH A 31 147 147 HOH HOH . E 5 HOH A 32 148 148 HOH HOH . E 5 HOH A 33 149 149 HOH HOH . E 5 HOH A 34 150 150 HOH HOH . E 5 HOH A 35 151 151 HOH HOH . E 5 HOH A 36 152 152 HOH HOH . E 5 HOH A 37 153 153 HOH HOH . E 5 HOH A 38 154 154 HOH HOH . E 5 HOH A 39 155 155 HOH HOH . E 5 HOH A 40 156 156 HOH HOH . E 5 HOH A 41 157 157 HOH HOH . E 5 HOH A 42 158 158 HOH HOH . E 5 HOH A 43 159 4 HOH HOH . E 5 HOH A 44 160 160 HOH HOH . E 5 HOH A 45 161 161 HOH HOH . E 5 HOH A 46 162 162 HOH HOH . E 5 HOH A 47 163 163 HOH HOH . E 5 HOH A 48 164 164 HOH HOH . E 5 HOH A 49 165 5 HOH HOH . E 5 HOH A 50 166 6 HOH HOH . E 5 HOH A 51 167 167 HOH HOH . E 5 HOH A 52 168 168 HOH HOH . E 5 HOH A 53 169 169 HOH HOH . E 5 HOH A 54 170 170 HOH HOH . E 5 HOH A 55 171 171 HOH HOH . E 5 HOH A 56 172 172 HOH HOH . E 5 HOH A 57 173 173 HOH HOH . E 5 HOH A 58 174 174 HOH HOH . E 5 HOH A 59 175 175 HOH HOH . E 5 HOH A 60 176 176 HOH HOH . E 5 HOH A 61 177 177 HOH HOH . E 5 HOH A 62 178 178 HOH HOH . E 5 HOH A 63 179 179 HOH HOH . E 5 HOH A 64 180 180 HOH HOH . E 5 HOH A 65 181 181 HOH HOH . E 5 HOH A 66 182 182 HOH HOH . E 5 HOH A 67 183 183 HOH HOH . E 5 HOH A 68 184 184 HOH HOH . E 5 HOH A 69 185 185 HOH HOH . E 5 HOH A 70 186 186 HOH HOH . E 5 HOH A 71 187 187 HOH HOH . E 5 HOH A 72 188 188 HOH HOH . E 5 HOH A 73 189 189 HOH HOH . E 5 HOH A 74 190 7 HOH HOH . E 5 HOH A 75 191 191 HOH HOH . E 5 HOH A 76 192 192 HOH HOH . E 5 HOH A 77 193 193 HOH HOH . E 5 HOH A 78 194 194 HOH HOH . E 5 HOH A 79 195 195 HOH HOH . E 5 HOH A 80 196 196 HOH HOH . E 5 HOH A 81 197 197 HOH HOH . E 5 HOH A 82 198 198 HOH HOH . E 5 HOH A 83 199 8 HOH HOH . E 5 HOH A 84 200 200 HOH HOH . E 5 HOH A 85 201 9 HOH HOH . E 5 HOH A 86 202 202 HOH HOH . E 5 HOH A 87 203 10 HOH HOH . E 5 HOH A 88 204 11 HOH HOH . E 5 HOH A 89 205 12 HOH HOH . E 5 HOH A 90 206 13 HOH HOH . E 5 HOH A 91 207 14 HOH HOH . E 5 HOH A 92 208 15 HOH HOH . E 5 HOH A 93 209 16 HOH HOH . E 5 HOH A 94 210 17 HOH HOH . E 5 HOH A 95 211 18 HOH HOH . E 5 HOH A 96 212 19 HOH HOH . E 5 HOH A 97 213 20 HOH HOH . E 5 HOH A 98 214 21 HOH HOH . E 5 HOH A 99 215 22 HOH HOH . E 5 HOH A 100 216 23 HOH HOH . E 5 HOH A 101 217 24 HOH HOH . E 5 HOH A 102 218 25 HOH HOH . E 5 HOH A 103 219 26 HOH HOH . E 5 HOH A 104 220 27 HOH HOH . E 5 HOH A 105 221 28 HOH HOH . E 5 HOH A 106 222 29 HOH HOH . E 5 HOH A 107 223 30 HOH HOH . E 5 HOH A 108 224 31 HOH HOH . E 5 HOH A 109 225 32 HOH HOH . E 5 HOH A 110 226 33 HOH HOH . E 5 HOH A 111 227 34 HOH HOH . E 5 HOH A 112 228 35 HOH HOH . E 5 HOH A 113 229 36 HOH HOH . E 5 HOH A 114 230 37 HOH HOH . E 5 HOH A 115 231 38 HOH HOH . E 5 HOH A 116 232 39 HOH HOH . E 5 HOH A 117 233 40 HOH HOH . E 5 HOH A 118 234 41 HOH HOH . E 5 HOH A 119 235 42 HOH HOH . E 5 HOH A 120 236 43 HOH HOH . E 5 HOH A 121 237 44 HOH HOH . E 5 HOH A 122 238 45 HOH HOH . E 5 HOH A 123 239 47 HOH HOH . E 5 HOH A 124 240 48 HOH HOH . E 5 HOH A 125 241 49 HOH HOH . E 5 HOH A 126 242 50 HOH HOH . E 5 HOH A 127 243 51 HOH HOH . E 5 HOH A 128 244 52 HOH HOH . E 5 HOH A 129 245 53 HOH HOH . E 5 HOH A 130 246 54 HOH HOH . E 5 HOH A 131 247 55 HOH HOH . E 5 HOH A 132 248 56 HOH HOH . E 5 HOH A 133 249 57 HOH HOH . E 5 HOH A 134 250 58 HOH HOH . E 5 HOH A 135 251 59 HOH HOH . E 5 HOH A 136 252 60 HOH HOH . E 5 HOH A 137 253 61 HOH HOH . E 5 HOH A 138 254 62 HOH HOH . E 5 HOH A 139 255 63 HOH HOH . E 5 HOH A 140 256 64 HOH HOH . E 5 HOH A 141 257 65 HOH HOH . E 5 HOH A 142 258 66 HOH HOH . E 5 HOH A 143 259 67 HOH HOH . E 5 HOH A 144 260 68 HOH HOH . E 5 HOH A 145 261 69 HOH HOH . E 5 HOH A 146 262 70 HOH HOH . E 5 HOH A 147 263 71 HOH HOH . E 5 HOH A 148 264 72 HOH HOH . E 5 HOH A 149 265 73 HOH HOH . E 5 HOH A 150 266 74 HOH HOH . E 5 HOH A 151 267 75 HOH HOH . E 5 HOH A 152 268 76 HOH HOH . E 5 HOH A 153 269 77 HOH HOH . E 5 HOH A 154 270 78 HOH HOH . E 5 HOH A 155 271 79 HOH HOH . E 5 HOH A 156 272 80 HOH HOH . E 5 HOH A 157 273 81 HOH HOH . E 5 HOH A 158 274 82 HOH HOH . E 5 HOH A 159 275 83 HOH HOH . E 5 HOH A 160 276 85 HOH HOH . E 5 HOH A 161 277 86 HOH HOH . E 5 HOH A 162 278 87 HOH HOH . E 5 HOH A 163 279 88 HOH HOH . E 5 HOH A 164 280 89 HOH HOH . E 5 HOH A 165 281 90 HOH HOH . E 5 HOH A 166 282 91 HOH HOH . E 5 HOH A 167 283 92 HOH HOH . E 5 HOH A 168 284 93 HOH HOH . E 5 HOH A 169 285 95 HOH HOH . E 5 HOH A 170 286 96 HOH HOH . E 5 HOH A 171 287 97 HOH HOH . E 5 HOH A 172 288 98 HOH HOH . E 5 HOH A 173 289 99 HOH HOH . E 5 HOH A 174 290 100 HOH HOH . E 5 HOH A 175 291 101 HOH HOH . E 5 HOH A 176 292 102 HOH HOH . E 5 HOH A 177 293 103 HOH HOH . E 5 HOH A 178 294 104 HOH HOH . E 5 HOH A 179 295 105 HOH HOH . E 5 HOH A 180 296 106 HOH HOH . E 5 HOH A 181 297 107 HOH HOH . E 5 HOH A 182 298 108 HOH HOH . E 5 HOH A 183 299 109 HOH HOH . E 5 HOH A 184 300 110 HOH HOH . E 5 HOH A 185 301 112 HOH HOH . E 5 HOH A 186 302 113 HOH HOH . E 5 HOH A 187 303 114 HOH HOH . E 5 HOH A 188 304 125 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 P 5GP . . . C 3 1.911 2.43 -10.36 1 14.47 ? P 5GP 125 A 1 HETATM 2 O O1P 5GP . . . C 3 2.713 2.067 -11.572 1 12.18 ? O1P 5GP 125 A 1 HETATM 3 O O2P 5GP . . . C 3 2.509 2.007 -9.049 1 11.93 ? O2P 5GP 125 A 1 HETATM 4 O O3P 5GP . . . C 3 0.454 2.005 -10.435 1 20.89 ? O3P 5GP 125 A 1 HETATM 5 O O5' 5GP . . . C 3 1.958 4.019 -10.066 1 18.81 ? O5' 5GP 125 A 1 HETATM 6 C C5' 5GP . . . C 3 2.011 4.951 -11.144 1 17.1 ? C5' 5GP 125 A 1 HETATM 7 C C4' 5GP . . . C 3 1.57 6.271 -10.568 1 15.07 ? C4' 5GP 125 A 1 HETATM 8 O O4' 5GP . . . C 3 2.045 7.244 -11.465 1 14.35 ? O4' 5GP 125 A 1 HETATM 9 C C3' 5GP . . . C 3 0.044 6.401 -10.467 1 12.71 ? C3' 5GP 125 A 1 HETATM 10 O O3' 5GP . . . C 3 -0.366 6.718 -9.121 1 10.89 ? O3' 5GP 125 A 1 HETATM 11 C C2' 5GP . . . C 3 -0.27 7.492 -11.493 1 13.68 ? C2' 5GP 125 A 1 HETATM 12 O O2' 5GP . . . C 3 -1.369 8.364 -11.191 1 12.11 ? O2' 5GP 125 A 1 HETATM 13 C C1' 5GP . . . C 3 1.056 8.244 -11.563 1 13.77 ? C1' 5GP 125 A 1 HETATM 14 N N9 5GP . . . C 3 1.308 8.893 -12.859 1 15.29 ? N9 5GP 125 A 1 HETATM 15 C C8 5GP . . . C 3 1.231 8.264 -14.044 1 18 ? C8 5GP 125 A 1 HETATM 16 N N7 5GP . . . C 3 1.548 9.144 -15.003 1 17.65 ? N7 5GP 125 A 1 HETATM 17 C C5 5GP . . . C 3 1.815 10.329 -14.414 1 15.77 ? C5 5GP 125 A 1 HETATM 18 C C6 5GP . . . C 3 2.171 11.566 -14.903 1 16.28 ? C6 5GP 125 A 1 HETATM 19 O O6 5GP . . . C 3 2.295 11.778 -16.145 1 15.94 ? O6 5GP 125 A 1 HETATM 20 N N1 5GP . . . C 3 2.388 12.559 -14.019 1 13.06 ? N1 5GP 125 A 1 HETATM 21 C C2 5GP . . . C 3 2.271 12.382 -12.683 1 14.79 ? C2 5GP 125 A 1 HETATM 22 N N2 5GP . . . C 3 2.496 13.426 -11.865 1 12.81 ? N2 5GP 125 A 1 HETATM 23 N N3 5GP . . . C 3 1.893 11.2 -12.167 1 11.71 ? N3 5GP 125 A 1 HETATM 24 C C4 5GP . . . C 3 1.693 10.16 -13.036 1 15.05 ? C4 5GP 125 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 307 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 24 #