data_5DGU # _model_server_result.job_id wy5iIfl9sCNXWL8icAIThQ _model_server_result.datetime_utc '2024-10-18 15:32:13' _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 5dgu # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":101}' # _entry.id 5DGU # _exptl.entry_id 5DGU _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SODIUM ION' _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 5DGU _cell.length_a 58.642 _cell.length_b 86.329 _cell.length_c 45.981 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5DGU _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # _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,F,G,H,I,J,K _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 G 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 O ASP 60 A ASP 60 1_555 D NA NA . A NA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? metalc ? metalc2 D NA NA . A NA 202 1_555 J O HOH . A HOH 324 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.319 ? metalc ? metalc3 D NA NA . A NA 202 1_555 J O HOH . A HOH 330 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.361 ? metalc ? metalc4 D NA NA . A NA 202 1_555 J O HOH . A HOH 349 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.426 ? metalc ? metalc5 D NA NA . A NA 202 1_555 J O HOH . A HOH 362 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.786 ? metalc ? metalc6 D NA NA . A NA 202 1_555 J O HOH . A HOH 379 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.35 ? metalc ? metalc7 B O ASP 60 B ASP 60 1_555 G NA NA . B NA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.444 ? metalc ? metalc8 G NA NA . B NA 101 1_555 K O HOH . B HOH 224 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.397 ? metalc ? metalc9 G NA NA . B NA 101 1_555 K O HOH . B HOH 225 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.366 ? metalc ? metalc10 G NA NA . B NA 101 1_555 K O HOH . B HOH 227 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.499 ? # _chem_comp.formula 'Na 1' _chem_comp.formula_weight 22.99 _chem_comp.id NA _chem_comp.mon_nstd_flag . _chem_comp.name 'SODIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 5DGU _atom_sites.fract_transf_matrix[1][1] 0.017053 _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] 0.011584 _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] 0.021748 _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 2 5B7 A 1 201 201 5B7 G04 . D 3 NA A 1 202 501 NA NA . E 4 CL A 1 203 511 CL CL . F 5 ACT A 1 204 521 ACT ACT . G 3 NA B 1 101 502 NA NA . H 4 CL B 1 102 512 CL CL . I 4 CL B 1 103 513 CL CL . J 6 HOH A 1 301 1033 HOH HOH . J 6 HOH A 2 302 1001 HOH HOH . J 6 HOH A 3 303 1034 HOH HOH . J 6 HOH A 4 304 1168 HOH HOH . J 6 HOH A 5 305 1090 HOH HOH . J 6 HOH A 6 306 1013 HOH HOH . J 6 HOH A 7 307 1122 HOH HOH . J 6 HOH A 8 308 1158 HOH HOH . J 6 HOH A 9 309 1156 HOH HOH . J 6 HOH A 10 310 1085 HOH HOH . J 6 HOH A 11 311 1139 HOH HOH . J 6 HOH A 12 312 1182 HOH HOH . J 6 HOH A 13 313 1184 HOH HOH . J 6 HOH A 14 314 1049 HOH HOH . J 6 HOH A 15 315 1052 HOH HOH . J 6 HOH A 16 316 1120 HOH HOH . J 6 HOH A 17 317 1042 HOH HOH . J 6 HOH A 18 318 1105 HOH HOH . J 6 HOH A 19 319 1089 HOH HOH . J 6 HOH A 20 320 1104 HOH HOH . J 6 HOH A 21 321 1113 HOH HOH . J 6 HOH A 22 322 1180 HOH HOH . J 6 HOH A 23 323 1041 HOH HOH . J 6 HOH A 24 324 1016 HOH HOH . J 6 HOH A 25 325 1108 HOH HOH . J 6 HOH A 26 326 1028 HOH HOH . J 6 HOH A 27 327 1119 HOH HOH . J 6 HOH A 28 328 1111 HOH HOH . J 6 HOH A 29 329 1110 HOH HOH . J 6 HOH A 30 330 1015 HOH HOH . J 6 HOH A 31 331 1178 HOH HOH . J 6 HOH A 32 332 1074 HOH HOH . J 6 HOH A 33 333 1141 HOH HOH . J 6 HOH A 34 334 1050 HOH HOH . J 6 HOH A 35 335 1027 HOH HOH . J 6 HOH A 36 336 1031 HOH HOH . J 6 HOH A 37 337 1039 HOH HOH . J 6 HOH A 38 338 1177 HOH HOH . J 6 HOH A 39 339 1019 HOH HOH . J 6 HOH A 40 340 1152 HOH HOH . J 6 HOH A 41 341 1035 HOH HOH . J 6 HOH A 42 342 1169 HOH HOH . J 6 HOH A 43 343 1026 HOH HOH . J 6 HOH A 44 344 1125 HOH HOH . J 6 HOH A 45 345 1162 HOH HOH . J 6 HOH A 46 346 1151 HOH HOH . J 6 HOH A 47 347 1076 HOH HOH . J 6 HOH A 48 348 1101 HOH HOH . J 6 HOH A 49 349 1014 HOH HOH . J 6 HOH A 50 350 1166 HOH HOH . J 6 HOH A 51 351 1002 HOH HOH . J 6 HOH A 52 352 1143 HOH HOH . J 6 HOH A 53 353 1148 HOH HOH . J 6 HOH A 54 354 1057 HOH HOH . J 6 HOH A 55 355 1053 HOH HOH . J 6 HOH A 56 356 1054 HOH HOH . J 6 HOH A 57 357 1102 HOH HOH . J 6 HOH A 58 358 1175 HOH HOH . J 6 HOH A 59 359 1010 HOH HOH . J 6 HOH A 60 360 1164 HOH HOH . J 6 HOH A 61 361 1067 HOH HOH . J 6 HOH A 62 362 1017 HOH HOH . J 6 HOH A 63 363 1038 HOH HOH . J 6 HOH A 64 364 1150 HOH HOH . J 6 HOH A 65 365 1121 HOH HOH . J 6 HOH A 66 366 1084 HOH HOH . J 6 HOH A 67 367 1036 HOH HOH . J 6 HOH A 68 368 1137 HOH HOH . J 6 HOH A 69 369 1030 HOH HOH . J 6 HOH A 70 370 1055 HOH HOH . J 6 HOH A 71 371 1043 HOH HOH . J 6 HOH A 72 372 1188 HOH HOH . J 6 HOH A 73 373 1176 HOH HOH . J 6 HOH A 74 374 1106 HOH HOH . J 6 HOH A 75 375 1012 HOH HOH . J 6 HOH A 76 376 1159 HOH HOH . J 6 HOH A 77 377 1147 HOH HOH . J 6 HOH A 78 378 1073 HOH HOH . J 6 HOH A 79 379 1018 HOH HOH . J 6 HOH A 80 380 1133 HOH HOH . J 6 HOH A 81 381 1163 HOH HOH . J 6 HOH A 82 382 1127 HOH HOH . J 6 HOH A 83 383 1094 HOH HOH . J 6 HOH A 84 384 1185 HOH HOH . J 6 HOH A 85 385 1140 HOH HOH . J 6 HOH A 86 386 1048 HOH HOH . J 6 HOH A 87 387 1160 HOH HOH . J 6 HOH A 88 388 1100 HOH HOH . J 6 HOH A 89 389 1186 HOH HOH . J 6 HOH A 90 390 1172 HOH HOH . K 6 HOH B 1 201 1142 HOH HOH . K 6 HOH B 2 202 1004 HOH HOH . K 6 HOH B 3 203 1093 HOH HOH . K 6 HOH B 4 204 1003 HOH HOH . K 6 HOH B 5 205 1167 HOH HOH . K 6 HOH B 6 206 1114 HOH HOH . K 6 HOH B 7 207 1065 HOH HOH . K 6 HOH B 8 208 1087 HOH HOH . K 6 HOH B 9 209 1009 HOH HOH . K 6 HOH B 10 210 1071 HOH HOH . K 6 HOH B 11 211 1062 HOH HOH . K 6 HOH B 12 212 1046 HOH HOH . K 6 HOH B 13 213 1086 HOH HOH . K 6 HOH B 14 214 1068 HOH HOH . K 6 HOH B 15 215 1124 HOH HOH . K 6 HOH B 16 216 1032 HOH HOH . K 6 HOH B 17 217 1069 HOH HOH . K 6 HOH B 18 218 1083 HOH HOH . K 6 HOH B 19 219 1129 HOH HOH . K 6 HOH B 20 220 1029 HOH HOH . K 6 HOH B 21 221 1058 HOH HOH . K 6 HOH B 22 222 1099 HOH HOH . K 6 HOH B 23 223 1059 HOH HOH . K 6 HOH B 24 224 1021 HOH HOH . K 6 HOH B 25 225 1020 HOH HOH . K 6 HOH B 26 226 1072 HOH HOH . K 6 HOH B 27 227 1022 HOH HOH . K 6 HOH B 28 228 1070 HOH HOH . K 6 HOH B 29 229 1155 HOH HOH . K 6 HOH B 30 230 1123 HOH HOH . K 6 HOH B 31 231 1144 HOH HOH . K 6 HOH B 32 232 1088 HOH HOH . K 6 HOH B 33 233 1006 HOH HOH . K 6 HOH B 34 234 1008 HOH HOH . K 6 HOH B 35 235 1025 HOH HOH . K 6 HOH B 36 236 1109 HOH HOH . K 6 HOH B 37 237 1126 HOH HOH . K 6 HOH B 38 238 1103 HOH HOH . K 6 HOH B 39 239 1079 HOH HOH . K 6 HOH B 40 240 1064 HOH HOH . K 6 HOH B 41 241 1130 HOH HOH . K 6 HOH B 42 242 1024 HOH HOH . K 6 HOH B 43 243 1165 HOH HOH . K 6 HOH B 44 244 1146 HOH HOH . K 6 HOH B 45 245 1060 HOH HOH . K 6 HOH B 46 246 1117 HOH HOH . K 6 HOH B 47 247 1091 HOH HOH . K 6 HOH B 48 248 1005 HOH HOH . K 6 HOH B 49 249 1045 HOH HOH . K 6 HOH B 50 250 1082 HOH HOH . K 6 HOH B 51 251 1063 HOH HOH . K 6 HOH B 52 252 1075 HOH HOH . K 6 HOH B 53 253 1078 HOH HOH . K 6 HOH B 54 254 1112 HOH HOH . K 6 HOH B 55 255 1174 HOH HOH . K 6 HOH B 56 256 1153 HOH HOH . K 6 HOH B 57 257 1096 HOH HOH . K 6 HOH B 58 258 1161 HOH HOH . K 6 HOH B 59 259 1107 HOH HOH . K 6 HOH B 60 260 1066 HOH HOH . K 6 HOH B 61 261 1118 HOH HOH . K 6 HOH B 62 262 1138 HOH HOH . K 6 HOH B 63 263 1047 HOH HOH . K 6 HOH B 64 264 1132 HOH HOH . K 6 HOH B 65 265 1095 HOH HOH . K 6 HOH B 66 266 1037 HOH HOH . K 6 HOH B 67 267 1044 HOH HOH . K 6 HOH B 68 268 1040 HOH HOH . K 6 HOH B 69 269 1134 HOH HOH . K 6 HOH B 70 270 1135 HOH HOH . K 6 HOH B 71 271 1098 HOH HOH . K 6 HOH B 72 272 1131 HOH HOH . K 6 HOH B 73 273 1171 HOH HOH . K 6 HOH B 74 274 1007 HOH HOH . K 6 HOH B 75 275 1136 HOH HOH . K 6 HOH B 76 276 1061 HOH HOH . K 6 HOH B 77 277 1187 HOH HOH . K 6 HOH B 78 278 1154 HOH HOH . K 6 HOH B 79 279 1128 HOH HOH . K 6 HOH B 80 280 1149 HOH HOH . K 6 HOH B 81 281 1170 HOH HOH . K 6 HOH B 82 282 1056 HOH HOH . K 6 HOH B 83 283 1116 HOH HOH . K 6 HOH B 84 284 1173 HOH HOH . K 6 HOH B 85 285 1051 HOH HOH . K 6 HOH B 86 286 1077 HOH HOH . K 6 HOH B 87 287 1092 HOH HOH . K 6 HOH B 88 288 1011 HOH HOH . K 6 HOH B 89 289 1115 HOH HOH . K 6 HOH B 90 290 1081 HOH HOH . K 6 HOH B 91 291 1181 HOH HOH . K 6 HOH B 92 292 1097 HOH HOH . K 6 HOH B 93 293 1183 HOH HOH . K 6 HOH B 94 294 1145 HOH HOH . K 6 HOH B 95 295 1179 HOH HOH . K 6 HOH B 96 296 1157 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol NA _atom_site.label_atom_id NA _atom_site.label_comp_id NA _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id G _atom_site.label_entity_id 3 _atom_site.Cartn_x 7.327 _atom_site.Cartn_y 8.226 _atom_site.Cartn_z 35.091 _atom_site.occupancy 0.5 _atom_site.B_iso_or_equiv 25.12 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 101 _atom_site.auth_asym_id B _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 309 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #