data_5ED3 # _model_server_result.job_id XXiRL1vXhbyRX6F77wJF6A _model_server_result.datetime_utc '2025-08-07 09:24:07' _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 5ed3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":202}' # _entry.id 5ED3 # _exptl.entry_id 5ED3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 238.305 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID' _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 94.92 _cell.angle_gamma 90 _cell.entry_id 5ED3 _cell.length_a 78.454 _cell.length_b 46.306 _cell.length_c 64.102 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5ED3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 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,F _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 D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C8 H18 N2 O4 S' _chem_comp.formula_weight 238.305 _chem_comp.id EPE _chem_comp.mon_nstd_flag . _chem_comp.name '4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms HEPES # 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 N1 C2 EPE sing 122 n n N1 C6 EPE sing 123 n n N1 C9 EPE sing 124 n n C2 C3 EPE sing 125 n n C2 H21 EPE sing 126 n n C2 H22 EPE sing 127 n n C3 N4 EPE sing 128 n n C3 H31 EPE sing 129 n n C3 H32 EPE sing 130 n n N4 C5 EPE sing 131 n n N4 C7 EPE sing 132 n n C5 C6 EPE sing 133 n n C5 H51 EPE sing 134 n n C5 H52 EPE sing 135 n n C6 H61 EPE sing 136 n n C6 H62 EPE sing 137 n n C7 C8 EPE sing 138 n n C7 H71 EPE sing 139 n n C7 H72 EPE sing 140 n n C8 O8 EPE sing 141 n n C8 H81 EPE sing 142 n n C8 H82 EPE sing 143 n n O8 HO8 EPE sing 144 n n C9 C10 EPE sing 145 n n C9 H91 EPE sing 146 n n C9 H92 EPE sing 147 n n C10 S EPE sing 148 n n C10 H101 EPE sing 149 n n C10 H102 EPE sing 150 n n S O1S EPE doub 151 n n S O2S EPE doub 152 n n S O3S EPE sing 153 n n O3S HOS3 EPE sing 154 n n # _atom_sites.entry_id 5ED3 _atom_sites.fract_transf_matrix[1][1] 0.012746 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001098 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.021595 _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] 0.015658 _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 AMP B 1 201 1 AMP AMP . D 3 EPE B 1 202 1 EPE EPE . E 4 HOH A 1 201 215 HOH HOH . E 4 HOH A 2 202 169 HOH HOH . E 4 HOH A 3 203 111 HOH HOH . E 4 HOH A 4 204 149 HOH HOH . E 4 HOH A 5 205 204 HOH HOH . E 4 HOH A 6 206 241 HOH HOH . E 4 HOH A 7 207 104 HOH HOH . E 4 HOH A 8 208 239 HOH HOH . E 4 HOH A 9 209 70 HOH HOH . E 4 HOH A 10 210 25 HOH HOH . E 4 HOH A 11 211 219 HOH HOH . E 4 HOH A 12 212 20 HOH HOH . E 4 HOH A 13 213 19 HOH HOH . E 4 HOH A 14 214 68 HOH HOH . E 4 HOH A 15 215 152 HOH HOH . E 4 HOH A 16 216 108 HOH HOH . E 4 HOH A 17 217 16 HOH HOH . E 4 HOH A 18 218 164 HOH HOH . E 4 HOH A 19 219 225 HOH HOH . E 4 HOH A 20 220 200 HOH HOH . E 4 HOH A 21 221 2 HOH HOH . E 4 HOH A 22 222 14 HOH HOH . E 4 HOH A 23 223 212 HOH HOH . E 4 HOH A 24 224 129 HOH HOH . E 4 HOH A 25 225 27 HOH HOH . E 4 HOH A 26 226 175 HOH HOH . E 4 HOH A 27 227 194 HOH HOH . E 4 HOH A 28 228 79 HOH HOH . E 4 HOH A 29 229 42 HOH HOH . E 4 HOH A 30 230 112 HOH HOH . E 4 HOH A 31 231 24 HOH HOH . E 4 HOH A 32 232 36 HOH HOH . E 4 HOH A 33 233 85 HOH HOH . E 4 HOH A 34 234 9 HOH HOH . E 4 HOH A 35 235 163 HOH HOH . E 4 HOH A 36 236 91 HOH HOH . E 4 HOH A 37 237 126 HOH HOH . E 4 HOH A 38 238 8 HOH HOH . E 4 HOH A 39 239 37 HOH HOH . E 4 HOH A 40 240 67 HOH HOH . E 4 HOH A 41 241 103 HOH HOH . E 4 HOH A 42 242 145 HOH HOH . E 4 HOH A 43 243 134 HOH HOH . E 4 HOH A 44 244 154 HOH HOH . E 4 HOH A 45 245 57 HOH HOH . E 4 HOH A 46 246 26 HOH HOH . E 4 HOH A 47 247 228 HOH HOH . E 4 HOH A 48 248 4 HOH HOH . E 4 HOH A 49 249 50 HOH HOH . E 4 HOH A 50 250 45 HOH HOH . E 4 HOH A 51 251 170 HOH HOH . E 4 HOH A 52 252 48 HOH HOH . E 4 HOH A 53 253 256 HOH HOH . E 4 HOH A 54 254 155 HOH HOH . E 4 HOH A 55 255 39 HOH HOH . E 4 HOH A 56 256 41 HOH HOH . E 4 HOH A 57 257 52 HOH HOH . E 4 HOH A 58 258 15 HOH HOH . E 4 HOH A 59 259 121 HOH HOH . E 4 HOH A 60 260 263 HOH HOH . E 4 HOH A 61 261 73 HOH HOH . E 4 HOH A 62 262 124 HOH HOH . E 4 HOH A 63 263 143 HOH HOH . E 4 HOH A 64 264 44 HOH HOH . E 4 HOH A 65 265 131 HOH HOH . E 4 HOH A 66 266 207 HOH HOH . E 4 HOH A 67 267 196 HOH HOH . E 4 HOH A 68 268 3 HOH HOH . E 4 HOH A 69 269 56 HOH HOH . E 4 HOH A 70 270 171 HOH HOH . E 4 HOH A 71 271 240 HOH HOH . E 4 HOH A 72 272 192 HOH HOH . E 4 HOH A 73 273 232 HOH HOH . E 4 HOH A 74 274 107 HOH HOH . E 4 HOH A 75 275 98 HOH HOH . E 4 HOH A 76 276 199 HOH HOH . E 4 HOH A 77 277 157 HOH HOH . E 4 HOH A 78 278 202 HOH HOH . E 4 HOH A 79 279 117 HOH HOH . E 4 HOH A 80 280 139 HOH HOH . E 4 HOH A 81 281 90 HOH HOH . E 4 HOH A 82 282 96 HOH HOH . E 4 HOH A 83 283 115 HOH HOH . E 4 HOH A 84 284 165 HOH HOH . E 4 HOH A 85 285 141 HOH HOH . E 4 HOH A 86 286 185 HOH HOH . E 4 HOH A 87 287 22 HOH HOH . E 4 HOH A 88 288 146 HOH HOH . E 4 HOH A 89 289 102 HOH HOH . E 4 HOH A 90 290 71 HOH HOH . E 4 HOH A 91 291 66 HOH HOH . E 4 HOH A 92 292 220 HOH HOH . E 4 HOH A 93 293 38 HOH HOH . E 4 HOH A 94 294 231 HOH HOH . E 4 HOH A 95 295 247 HOH HOH . E 4 HOH A 96 296 255 HOH HOH . E 4 HOH A 97 297 183 HOH HOH . E 4 HOH A 98 298 97 HOH HOH . E 4 HOH A 99 299 234 HOH HOH . E 4 HOH A 100 300 280 HOH HOH . E 4 HOH A 101 301 229 HOH HOH . E 4 HOH A 102 302 270 HOH HOH . E 4 HOH A 103 303 189 HOH HOH . E 4 HOH A 104 304 176 HOH HOH . E 4 HOH A 105 305 109 HOH HOH . E 4 HOH A 106 306 226 HOH HOH . E 4 HOH A 107 307 181 HOH HOH . E 4 HOH A 108 308 242 HOH HOH . E 4 HOH A 109 309 83 HOH HOH . E 4 HOH A 110 310 150 HOH HOH . E 4 HOH A 111 311 276 HOH HOH . E 4 HOH A 112 312 160 HOH HOH . E 4 HOH A 113 313 51 HOH HOH . E 4 HOH A 114 314 221 HOH HOH . E 4 HOH A 115 315 253 HOH HOH . E 4 HOH A 116 316 55 HOH HOH . E 4 HOH A 117 317 252 HOH HOH . E 4 HOH A 118 318 264 HOH HOH . E 4 HOH A 119 319 237 HOH HOH . E 4 HOH A 120 320 244 HOH HOH . E 4 HOH A 121 321 268 HOH HOH . E 4 HOH A 122 322 281 HOH HOH . E 4 HOH A 123 323 101 HOH HOH . E 4 HOH A 124 324 118 HOH HOH . E 4 HOH A 125 325 180 HOH HOH . E 4 HOH A 126 326 236 HOH HOH . E 4 HOH A 127 327 159 HOH HOH . E 4 HOH A 128 328 230 HOH HOH . E 4 HOH A 129 329 249 HOH HOH . E 4 HOH A 130 330 178 HOH HOH . E 4 HOH A 131 331 274 HOH HOH . E 4 HOH A 132 332 148 HOH HOH . E 4 HOH A 133 333 201 HOH HOH . E 4 HOH A 134 334 223 HOH HOH . E 4 HOH A 135 335 72 HOH HOH . E 4 HOH A 136 336 278 HOH HOH . E 4 HOH A 137 337 116 HOH HOH . E 4 HOH A 138 338 248 HOH HOH . E 4 HOH A 139 339 74 HOH HOH . E 4 HOH A 140 340 261 HOH HOH . E 4 HOH A 141 341 243 HOH HOH . E 4 HOH A 142 342 279 HOH HOH . F 4 HOH B 1 301 173 HOH HOH . F 4 HOH B 2 302 99 HOH HOH . F 4 HOH B 3 303 238 HOH HOH . F 4 HOH B 4 304 76 HOH HOH . F 4 HOH B 5 305 65 HOH HOH . F 4 HOH B 6 306 33 HOH HOH . F 4 HOH B 7 307 120 HOH HOH . F 4 HOH B 8 308 13 HOH HOH . F 4 HOH B 9 309 30 HOH HOH . F 4 HOH B 10 310 271 HOH HOH . F 4 HOH B 11 311 80 HOH HOH . F 4 HOH B 12 312 197 HOH HOH . F 4 HOH B 13 313 40 HOH HOH . F 4 HOH B 14 314 251 HOH HOH . F 4 HOH B 15 315 213 HOH HOH . F 4 HOH B 16 316 11 HOH HOH . F 4 HOH B 17 317 179 HOH HOH . F 4 HOH B 18 318 119 HOH HOH . F 4 HOH B 19 319 21 HOH HOH . F 4 HOH B 20 320 31 HOH HOH . F 4 HOH B 21 321 125 HOH HOH . F 4 HOH B 22 322 10 HOH HOH . F 4 HOH B 23 323 63 HOH HOH . F 4 HOH B 24 324 61 HOH HOH . F 4 HOH B 25 325 144 HOH HOH . F 4 HOH B 26 326 177 HOH HOH . F 4 HOH B 27 327 158 HOH HOH . F 4 HOH B 28 328 95 HOH HOH . F 4 HOH B 29 329 87 HOH HOH . F 4 HOH B 30 330 23 HOH HOH . F 4 HOH B 31 331 81 HOH HOH . F 4 HOH B 32 332 46 HOH HOH . F 4 HOH B 33 333 128 HOH HOH . F 4 HOH B 34 334 166 HOH HOH . F 4 HOH B 35 335 60 HOH HOH . F 4 HOH B 36 336 168 HOH HOH . F 4 HOH B 37 337 49 HOH HOH . F 4 HOH B 38 338 138 HOH HOH . F 4 HOH B 39 339 113 HOH HOH . F 4 HOH B 40 340 93 HOH HOH . F 4 HOH B 41 341 162 HOH HOH . F 4 HOH B 42 342 64 HOH HOH . F 4 HOH B 43 343 35 HOH HOH . F 4 HOH B 44 344 259 HOH HOH . F 4 HOH B 45 345 89 HOH HOH . F 4 HOH B 46 346 12 HOH HOH . F 4 HOH B 47 347 206 HOH HOH . F 4 HOH B 48 348 84 HOH HOH . F 4 HOH B 49 349 18 HOH HOH . F 4 HOH B 50 350 17 HOH HOH . F 4 HOH B 51 351 5 HOH HOH . F 4 HOH B 52 352 28 HOH HOH . F 4 HOH B 53 353 75 HOH HOH . F 4 HOH B 54 354 122 HOH HOH . F 4 HOH B 55 355 1 HOH HOH . F 4 HOH B 56 356 82 HOH HOH . F 4 HOH B 57 357 47 HOH HOH . F 4 HOH B 58 358 54 HOH HOH . F 4 HOH B 59 359 151 HOH HOH . F 4 HOH B 60 360 58 HOH HOH . F 4 HOH B 61 361 7 HOH HOH . F 4 HOH B 62 362 250 HOH HOH . F 4 HOH B 63 363 130 HOH HOH . F 4 HOH B 64 364 105 HOH HOH . F 4 HOH B 65 365 59 HOH HOH . F 4 HOH B 66 366 123 HOH HOH . F 4 HOH B 67 367 114 HOH HOH . F 4 HOH B 68 368 257 HOH HOH . F 4 HOH B 69 369 211 HOH HOH . F 4 HOH B 70 370 110 HOH HOH . F 4 HOH B 71 371 43 HOH HOH . F 4 HOH B 72 372 88 HOH HOH . F 4 HOH B 73 373 133 HOH HOH . F 4 HOH B 74 374 32 HOH HOH . F 4 HOH B 75 375 100 HOH HOH . F 4 HOH B 76 376 153 HOH HOH . F 4 HOH B 77 377 135 HOH HOH . F 4 HOH B 78 378 167 HOH HOH . F 4 HOH B 79 379 106 HOH HOH . F 4 HOH B 80 380 147 HOH HOH . F 4 HOH B 81 381 53 HOH HOH . F 4 HOH B 82 382 235 HOH HOH . F 4 HOH B 83 383 209 HOH HOH . F 4 HOH B 84 384 188 HOH HOH . F 4 HOH B 85 385 254 HOH HOH . F 4 HOH B 86 386 6 HOH HOH . F 4 HOH B 87 387 174 HOH HOH . F 4 HOH B 88 388 94 HOH HOH . F 4 HOH B 89 389 29 HOH HOH . F 4 HOH B 90 390 62 HOH HOH . F 4 HOH B 91 391 245 HOH HOH . F 4 HOH B 92 392 78 HOH HOH . F 4 HOH B 93 393 272 HOH HOH . F 4 HOH B 94 394 195 HOH HOH . F 4 HOH B 95 395 222 HOH HOH . F 4 HOH B 96 396 69 HOH HOH . F 4 HOH B 97 397 198 HOH HOH . F 4 HOH B 98 398 186 HOH HOH . F 4 HOH B 99 399 127 HOH HOH . F 4 HOH B 100 400 142 HOH HOH . F 4 HOH B 101 401 156 HOH HOH . F 4 HOH B 102 402 77 HOH HOH . F 4 HOH B 103 403 210 HOH HOH . F 4 HOH B 104 404 273 HOH HOH . F 4 HOH B 105 405 282 HOH HOH . F 4 HOH B 106 406 208 HOH HOH . F 4 HOH B 107 407 216 HOH HOH . F 4 HOH B 108 408 190 HOH HOH . F 4 HOH B 109 409 214 HOH HOH . F 4 HOH B 110 410 246 HOH HOH . F 4 HOH B 111 411 132 HOH HOH . F 4 HOH B 112 412 266 HOH HOH . F 4 HOH B 113 413 275 HOH HOH . F 4 HOH B 114 414 233 HOH HOH . F 4 HOH B 115 415 182 HOH HOH . F 4 HOH B 116 416 140 HOH HOH . F 4 HOH B 117 417 161 HOH HOH . F 4 HOH B 118 418 224 HOH HOH . F 4 HOH B 119 419 191 HOH HOH . F 4 HOH B 120 420 184 HOH HOH . F 4 HOH B 121 421 86 HOH HOH . F 4 HOH B 122 422 218 HOH HOH . F 4 HOH B 123 423 260 HOH HOH . F 4 HOH B 124 424 265 HOH HOH . F 4 HOH B 125 425 172 HOH HOH . F 4 HOH B 126 426 262 HOH HOH . F 4 HOH B 127 427 193 HOH HOH . F 4 HOH B 128 428 267 HOH HOH . F 4 HOH B 129 429 187 HOH HOH . F 4 HOH B 130 430 92 HOH HOH . F 4 HOH B 131 431 269 HOH HOH . F 4 HOH B 132 432 136 HOH HOH . F 4 HOH B 133 433 137 HOH HOH . F 4 HOH B 134 434 277 HOH HOH . F 4 HOH B 135 435 217 HOH HOH . F 4 HOH B 136 436 227 HOH HOH . F 4 HOH B 137 437 34 HOH HOH . F 4 HOH B 138 438 258 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 N N1 EPE . . . D 3 -0.561 3.965 0.752 0.5 25.83 ? N1 EPE 202 B 1 HETATM 2 C C2 EPE . . . D 3 -2.025 4.016 0.889 0.5 28.01 ? C2 EPE 202 B 1 HETATM 3 C C3 EPE . . . D 3 -2.511 5.438 0.626 0.5 31.5 ? C3 EPE 202 B 1 HETATM 4 N N4 EPE . . . D 3 -1.878 6.358 1.584 0.5 30.55 ? N4 EPE 202 B 1 HETATM 5 C C5 EPE . . . D 3 -0.414 6.306 1.446 0.5 26.26 ? C5 EPE 202 B 1 HETATM 6 C C6 EPE . . . D 3 0.071 4.884 1.71 0.5 23.97 ? C6 EPE 202 B 1 HETATM 7 C C9 EPE . . . D 3 -0.095 2.596 1.009 0.5 27.53 ? C9 EPE 202 B 1 HETATM 8 C C10 EPE . . . D 3 0.039 1.847 -0.312 0.5 28.74 ? C10 EPE 202 B 1 HETATM 9 S S EPE . . . D 3 0.028 0.21 -0.025 0.5 18.73 ? S EPE 202 B 1 HETATM 10 O O1S EPE . . . D 3 -1.367 -0.282 -0.033 0.5 22.98 ? O1S EPE 202 B 1 HETATM 11 O O2S EPE . . . D 3 0.801 -0.48 -1.082 0.5 23.29 ? O2S EPE 202 B 1 HETATM 12 O O3S EPE . . . D 3 0.641 -0.064 1.294 0.5 20.42 ? O3S EPE 202 B 1 # _model_server_stats.io_time_ms 64 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 294 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 12 #