data_3D6J
#
_model_server_result.job_id            dn_eF285pE-wpbkouXCAXw 
_model_server_result.datetime_utc      '2024-12-21 15:12:35' 
_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          3d6j 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":253}' 
#
_entry.id    3D6J 
#
_exptl.entry_id    3D6J 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              92.094 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            GLYCEROL 
_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            3D6J 
_cell.length_a            62.62 
_cell.length_b            62.62 
_cell.length_c            133.913 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3D6J 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        92 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 41 21 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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                             D 
_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
covale ? covale1 A C ASP 43 A ASP 40 1_555 A N MSE 44 A MSE 41 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? 
covale ? covale2 A C MSE 44 A MSE 41 1_555 A N ILE 45 A ILE 42 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.318 ? 
covale ? covale3 A C TYR 83 A TYR 80 1_555 A N MSE 84 A MSE 81 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? 
covale ? covale4 A C MSE 84 A MSE 81 1_555 A N ASN 85 A ASN 82 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale5 A C HIS 126 A HIS 123 1_555 A N MSE 127 A MSE 124 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.343 ? 
covale ? covale6 A C MSE 127 A MSE 124 1_555 A N PRO 128 A PRO 125 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.35 ? 
covale ? covale7 A C GLY 191 A GLY 188 1_555 A N MSE 192 A MSE 189 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? 
covale ? covale8 A C MSE 192 A MSE 189 1_555 A N THR 193 A THR 190 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
#
_chem_comp.formula           'C3 H8 O3' 
_chem_comp.formula_weight    92.094 
_chem_comp.id                GOL 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              GLYCEROL 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     GLYCERIN;PROPANE-1,2,3-TRIOL 
#
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
C1 O1 GOL sing 129 n n 
C1 C2 GOL sing 130 n n 
C1 H11 GOL sing 131 n n 
C1 H12 GOL sing 132 n n 
O1 HO1 GOL sing 133 n n 
C2 O2 GOL sing 134 n n 
C2 C3 GOL sing 135 n n 
C2 H2 GOL sing 136 n n 
O2 HO2 GOL sing 137 n n 
C3 O3 GOL sing 138 n n 
C3 H31 GOL sing 139 n n 
C3 H32 GOL sing 140 n n 
O3 HO3 GOL sing 141 n n 
#
_atom_sites.entry_id                     3D6J 
_atom_sites.fract_transf_matrix[1][1]    0.015969 
_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]    0.015969 
_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]    0.007468 
_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 PO4 A 1 251 251 PO4 PO4 . 
C 2 PO4 A 1 252 252 PO4 PO4 . 
D 3 GOL A 1 253 253 GOL GOL . 
E 4 HOH A 1 254 1 HOH HOH . 
E 4 HOH A 2 255 2 HOH HOH . 
E 4 HOH A 3 256 3 HOH HOH . 
E 4 HOH A 4 257 4 HOH HOH . 
E 4 HOH A 5 258 5 HOH HOH . 
E 4 HOH A 6 259 6 HOH HOH . 
E 4 HOH A 7 260 7 HOH HOH . 
E 4 HOH A 8 261 8 HOH HOH . 
E 4 HOH A 9 262 9 HOH HOH . 
E 4 HOH A 10 263 10 HOH HOH . 
E 4 HOH A 11 264 11 HOH HOH . 
E 4 HOH A 12 265 12 HOH HOH . 
E 4 HOH A 13 266 13 HOH HOH . 
E 4 HOH A 14 267 14 HOH HOH . 
E 4 HOH A 15 268 15 HOH HOH . 
E 4 HOH A 16 269 16 HOH HOH . 
E 4 HOH A 17 270 17 HOH HOH . 
E 4 HOH A 18 271 18 HOH HOH . 
E 4 HOH A 19 272 19 HOH HOH . 
E 4 HOH A 20 273 20 HOH HOH . 
E 4 HOH A 21 274 21 HOH HOH . 
E 4 HOH A 22 275 22 HOH HOH . 
E 4 HOH A 23 276 23 HOH HOH . 
E 4 HOH A 24 277 24 HOH HOH . 
E 4 HOH A 25 278 25 HOH HOH . 
E 4 HOH A 26 279 26 HOH HOH . 
E 4 HOH A 27 280 27 HOH HOH . 
E 4 HOH A 28 281 28 HOH HOH . 
E 4 HOH A 29 282 29 HOH HOH . 
E 4 HOH A 30 283 30 HOH HOH . 
E 4 HOH A 31 284 31 HOH HOH . 
E 4 HOH A 32 285 32 HOH HOH . 
E 4 HOH A 33 286 33 HOH HOH . 
E 4 HOH A 34 287 34 HOH HOH . 
E 4 HOH A 35 288 35 HOH HOH . 
E 4 HOH A 36 289 36 HOH HOH . 
E 4 HOH A 37 290 37 HOH HOH . 
E 4 HOH A 38 291 38 HOH HOH . 
E 4 HOH A 39 292 39 HOH HOH . 
E 4 HOH A 40 293 40 HOH HOH . 
E 4 HOH A 41 294 41 HOH HOH . 
E 4 HOH A 42 295 42 HOH HOH . 
E 4 HOH A 43 296 43 HOH HOH . 
E 4 HOH A 44 297 44 HOH HOH . 
E 4 HOH A 45 298 45 HOH HOH . 
E 4 HOH A 46 299 46 HOH HOH . 
E 4 HOH A 47 300 47 HOH HOH . 
E 4 HOH A 48 301 48 HOH HOH . 
E 4 HOH A 49 302 49 HOH HOH . 
E 4 HOH A 50 303 50 HOH HOH . 
E 4 HOH A 51 304 51 HOH HOH . 
E 4 HOH A 52 305 52 HOH HOH . 
E 4 HOH A 53 306 53 HOH HOH . 
E 4 HOH A 54 307 54 HOH HOH . 
E 4 HOH A 55 308 55 HOH HOH . 
E 4 HOH A 56 309 56 HOH HOH . 
E 4 HOH A 57 310 57 HOH HOH . 
E 4 HOH A 58 311 58 HOH HOH . 
E 4 HOH A 59 312 59 HOH HOH . 
E 4 HOH A 60 313 60 HOH HOH . 
E 4 HOH A 61 314 61 HOH HOH . 
E 4 HOH A 62 315 62 HOH HOH . 
E 4 HOH A 63 316 63 HOH HOH . 
E 4 HOH A 64 317 64 HOH HOH . 
E 4 HOH A 65 318 65 HOH HOH . 
E 4 HOH A 66 319 66 HOH HOH . 
E 4 HOH A 67 320 67 HOH HOH . 
E 4 HOH A 68 321 68 HOH HOH . 
E 4 HOH A 69 322 69 HOH HOH . 
E 4 HOH A 70 323 70 HOH HOH . 
E 4 HOH A 71 324 71 HOH HOH . 
E 4 HOH A 72 325 72 HOH HOH . 
E 4 HOH A 73 326 73 HOH HOH . 
E 4 HOH A 74 327 74 HOH HOH . 
E 4 HOH A 75 328 75 HOH HOH . 
E 4 HOH A 76 329 76 HOH HOH . 
E 4 HOH A 77 330 77 HOH HOH . 
E 4 HOH A 78 331 78 HOH HOH . 
E 4 HOH A 79 332 79 HOH HOH . 
E 4 HOH A 80 333 80 HOH HOH . 
E 4 HOH A 81 334 81 HOH HOH . 
E 4 HOH A 82 335 82 HOH HOH . 
E 4 HOH A 83 336 83 HOH HOH . 
E 4 HOH A 84 337 84 HOH HOH . 
E 4 HOH A 85 338 85 HOH HOH . 
E 4 HOH A 86 339 86 HOH HOH . 
E 4 HOH A 87 340 87 HOH HOH . 
E 4 HOH A 88 341 88 HOH HOH . 
E 4 HOH A 89 342 89 HOH HOH . 
E 4 HOH A 90 343 90 HOH HOH . 
E 4 HOH A 91 344 91 HOH HOH . 
E 4 HOH A 92 345 92 HOH HOH . 
E 4 HOH A 93 346 93 HOH HOH . 
E 4 HOH A 94 347 94 HOH HOH . 
E 4 HOH A 95 348 95 HOH HOH . 
E 4 HOH A 96 349 96 HOH HOH . 
E 4 HOH A 97 350 97 HOH HOH . 
E 4 HOH A 98 351 98 HOH HOH . 
E 4 HOH A 99 352 99 HOH HOH . 
E 4 HOH A 100 353 100 HOH HOH . 
E 4 HOH A 101 354 101 HOH HOH . 
E 4 HOH A 102 355 102 HOH HOH . 
E 4 HOH A 103 356 103 HOH HOH . 
E 4 HOH A 104 357 104 HOH HOH . 
E 4 HOH A 105 358 105 HOH HOH . 
E 4 HOH A 106 359 106 HOH HOH . 
E 4 HOH A 107 360 107 HOH HOH . 
E 4 HOH A 108 361 108 HOH HOH . 
E 4 HOH A 109 362 109 HOH HOH . 
E 4 HOH A 110 363 110 HOH HOH . 
E 4 HOH A 111 364 111 HOH HOH . 
E 4 HOH A 112 365 112 HOH HOH . 
E 4 HOH A 113 366 113 HOH HOH . 
E 4 HOH A 114 367 114 HOH HOH . 
E 4 HOH A 115 368 115 HOH HOH . 
E 4 HOH A 116 369 116 HOH HOH . 
E 4 HOH A 117 370 117 HOH HOH . 
E 4 HOH A 118 371 118 HOH HOH . 
E 4 HOH A 119 372 119 HOH HOH . 
E 4 HOH A 120 373 120 HOH HOH . 
E 4 HOH A 121 374 121 HOH HOH . 
E 4 HOH A 122 375 122 HOH HOH . 
E 4 HOH A 123 376 123 HOH HOH . 
E 4 HOH A 124 377 124 HOH HOH . 
E 4 HOH A 125 378 125 HOH HOH . 
E 4 HOH A 126 379 126 HOH HOH . 
E 4 HOH A 127 380 127 HOH HOH . 
E 4 HOH A 128 381 128 HOH HOH . 
E 4 HOH A 129 382 129 HOH HOH . 
E 4 HOH A 130 383 130 HOH HOH . 
E 4 HOH A 131 384 131 HOH HOH . 
E 4 HOH A 132 385 132 HOH HOH . 
E 4 HOH A 133 386 133 HOH HOH . 
E 4 HOH A 134 387 134 HOH HOH . 
E 4 HOH A 135 388 135 HOH HOH . 
E 4 HOH A 136 389 136 HOH HOH . 
E 4 HOH A 137 390 137 HOH HOH . 
E 4 HOH A 138 391 138 HOH HOH . 
E 4 HOH A 139 392 139 HOH HOH . 
E 4 HOH A 140 393 140 HOH HOH . 
E 4 HOH A 141 394 141 HOH HOH . 
E 4 HOH A 142 395 142 HOH HOH . 
E 4 HOH A 143 396 143 HOH HOH . 
E 4 HOH A 144 397 144 HOH HOH . 
E 4 HOH A 145 398 145 HOH HOH . 
E 4 HOH A 146 399 146 HOH HOH . 
E 4 HOH A 147 400 147 HOH HOH . 
E 4 HOH A 148 401 148 HOH HOH . 
E 4 HOH A 149 402 149 HOH HOH . 
E 4 HOH A 150 403 150 HOH HOH . 
E 4 HOH A 151 404 151 HOH HOH . 
E 4 HOH A 152 405 152 HOH HOH . 
E 4 HOH A 153 406 153 HOH HOH . 
E 4 HOH A 154 407 154 HOH HOH . 
E 4 HOH A 155 408 155 HOH HOH . 
E 4 HOH A 156 409 156 HOH HOH . 
E 4 HOH A 157 410 157 HOH HOH . 
E 4 HOH A 158 411 158 HOH HOH . 
E 4 HOH A 159 412 159 HOH HOH . 
E 4 HOH A 160 413 160 HOH HOH . 
E 4 HOH A 161 414 161 HOH HOH . 
E 4 HOH A 162 415 162 HOH HOH . 
E 4 HOH A 163 416 163 HOH HOH . 
E 4 HOH A 164 417 164 HOH HOH . 
E 4 HOH A 165 418 165 HOH HOH . 
E 4 HOH A 166 419 166 HOH HOH . 
E 4 HOH A 167 420 167 HOH HOH . 
E 4 HOH A 168 421 168 HOH HOH . 
E 4 HOH A 169 422 169 HOH HOH . 
E 4 HOH A 170 423 170 HOH HOH . 
E 4 HOH A 171 424 171 HOH HOH . 
E 4 HOH A 172 425 172 HOH HOH . 
E 4 HOH A 173 426 173 HOH HOH . 
E 4 HOH A 174 427 174 HOH HOH . 
E 4 HOH A 175 428 175 HOH HOH . 
E 4 HOH A 176 429 176 HOH HOH . 
E 4 HOH A 177 430 177 HOH HOH . 
E 4 HOH A 178 431 178 HOH HOH . 
E 4 HOH A 179 432 179 HOH HOH . 
E 4 HOH A 180 433 180 HOH HOH . 
E 4 HOH A 181 434 181 HOH HOH . 
E 4 HOH A 182 435 182 HOH HOH . 
E 4 HOH A 183 436 183 HOH HOH . 
E 4 HOH A 184 437 184 HOH HOH . 
E 4 HOH A 185 438 185 HOH HOH . 
E 4 HOH A 186 439 186 HOH HOH . 
E 4 HOH A 187 440 187 HOH HOH . 
E 4 HOH A 188 441 188 HOH HOH . 
E 4 HOH A 189 442 189 HOH HOH . 
E 4 HOH A 190 443 190 HOH HOH . 
E 4 HOH A 191 444 191 HOH HOH . 
E 4 HOH A 192 445 192 HOH HOH . 
E 4 HOH A 193 446 193 HOH HOH . 
E 4 HOH A 194 447 194 HOH HOH . 
E 4 HOH A 195 448 195 HOH HOH . 
E 4 HOH A 196 449 196 HOH HOH . 
E 4 HOH A 197 450 197 HOH HOH . 
E 4 HOH A 198 451 198 HOH HOH . 
E 4 HOH A 199 452 199 HOH HOH . 
E 4 HOH A 200 453 200 HOH HOH . 
E 4 HOH A 201 454 201 HOH HOH . 
E 4 HOH A 202 455 202 HOH HOH . 
E 4 HOH A 203 456 203 HOH HOH . 
E 4 HOH A 204 457 204 HOH HOH . 
E 4 HOH A 205 458 205 HOH HOH . 
E 4 HOH A 206 459 206 HOH HOH . 
E 4 HOH A 207 460 207 HOH HOH . 
E 4 HOH A 208 461 208 HOH HOH . 
E 4 HOH A 209 462 209 HOH HOH . 
E 4 HOH A 210 463 210 HOH HOH . 
E 4 HOH A 211 464 211 HOH HOH . 
E 4 HOH A 212 465 212 HOH HOH . 
E 4 HOH A 213 466 213 HOH HOH . 
E 4 HOH A 214 467 214 HOH HOH . 
E 4 HOH A 215 468 215 HOH HOH . 
E 4 HOH A 216 469 216 HOH HOH . 
E 4 HOH A 217 470 217 HOH HOH . 
E 4 HOH A 218 471 218 HOH HOH . 
E 4 HOH A 219 472 219 HOH HOH . 
E 4 HOH A 220 473 220 HOH HOH . 
E 4 HOH A 221 474 221 HOH HOH . 
E 4 HOH A 222 475 222 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 C C1 GOL . . . D 3 10.889 47.241 93.123 1 59.4 ? C1 GOL 253 A 1 
HETATM 2 O O1 GOL . . . D 3 11.873 46.359 93.604 1 56.42 ? O1 GOL 253 A 1 
HETATM 3 C C2 GOL . . . D 3 11.496 48.165 92.083 1 59.56 ? C2 GOL 253 A 1 
HETATM 4 O O2 GOL . . . D 3 12.402 49.014 92.762 1 60.71 ? O2 GOL 253 A 1 
HETATM 5 C C3 GOL . . . D 3 10.376 48.918 91.352 1 59.58 ? C3 GOL 253 A 1 
HETATM 6 O O3 GOL . . . D 3 10.88 49.699 90.288 1 59.89 ? O3 GOL 253 A 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           306 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           6 
#