data_3PNN # _model_server_result.job_id OJTNOE8yeeWiMBCXhwdGSQ _model_server_result.datetime_utc '2025-04-03 19:56:41' _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 3pnn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":302}' # _entry.id 3PNN # _exptl.entry_id 3PNN _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _entity.pdbx_number_of_molecules 6 _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 3PNN _cell.length_a 109.038 _cell.length_b 109.038 _cell.length_c 124.637 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3PNN _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61 2 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,F,G,H _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 ? 2 B N N ? 2 C N N ? 2 D N N ? 2 E N N ? 2 F N N ? 2 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 covale ? covale1 A C ALA 3 A ALA 0 1_555 A N MSE 4 A MSE 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale2 A C MSE 4 A MSE 1 1_555 A N LYS 5 A LYS 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale3 A C GLY 14 A GLY 11 1_555 A N MSE 15 A MSE 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale4 A C MSE 15 A MSE 12 1_555 A N GLY 16 A GLY 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale5 A C ILE 35 A ILE 32 1_555 A N MSE 36 A MSE 33 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale6 A C MSE 36 A MSE 33 1_555 A N ASP 37 A ASP 34 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale7 A C LEU 108 A LEU 105 1_555 A N MSE 109 A MSE 106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale8 A C MSE 109 A MSE 106 1_555 A N GLY 110 A GLY 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale9 A C LEU 139 A LEU 136 1_555 A N MSE 140 A MSE 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale10 A C MSE 140 A MSE 137 1_555 A N THR 141 A THR 138 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale11 A C CYS 150 A CYS 147 1_555 A N MSE 151 A MSE 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale12 A C MSE 151 A MSE 148 1_555 A N VAL 152 A VAL 149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale13 A C SER 214 A SER 211 1_555 A N MSE 215 A MSE 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale14 A C MSE 215 A MSE 212 1_555 A N ASN 216 A ASN 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale15 A C ASN 216 A ASN 213 1_555 A N MSE 217 A MSE 214 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale16 A C MSE 217 A MSE 214 1_555 A N TRP 218 A TRP 215 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? # _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 3PNN _atom_sites.fract_transf_matrix[1][1] 0.009171 _atom_sites.fract_transf_matrix[1][2] 0.005295 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01059 _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] 0.008023 _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 GOL A 1 301 1 GOL GOL . C 2 GOL A 1 302 2 GOL GOL . D 2 GOL A 1 303 3 GOL GOL . E 2 GOL A 1 304 4 GOL GOL . F 2 GOL A 1 305 5 GOL GOL . G 2 GOL A 1 306 7 GOL GOL . H 3 HOH A 1 307 1 HOH HOH . H 3 HOH A 2 308 2 HOH HOH . H 3 HOH A 3 309 3 HOH HOH . H 3 HOH A 4 310 4 HOH HOH . H 3 HOH A 5 311 5 HOH HOH . H 3 HOH A 6 312 6 HOH HOH . H 3 HOH A 7 313 7 HOH HOH . H 3 HOH A 8 314 8 HOH HOH . H 3 HOH A 9 315 9 HOH HOH . H 3 HOH A 10 316 10 HOH HOH . H 3 HOH A 11 317 11 HOH HOH . H 3 HOH A 12 318 12 HOH HOH . H 3 HOH A 13 319 13 HOH HOH . H 3 HOH A 14 320 14 HOH HOH . H 3 HOH A 15 321 15 HOH HOH . H 3 HOH A 16 322 16 HOH HOH . H 3 HOH A 17 323 17 HOH HOH . H 3 HOH A 18 324 18 HOH HOH . H 3 HOH A 19 325 19 HOH HOH . H 3 HOH A 20 326 20 HOH HOH . H 3 HOH A 21 327 21 HOH HOH . H 3 HOH A 22 328 22 HOH HOH . H 3 HOH A 23 329 23 HOH HOH . H 3 HOH A 24 330 24 HOH HOH . H 3 HOH A 25 331 25 HOH HOH . H 3 HOH A 26 332 26 HOH HOH . H 3 HOH A 27 333 27 HOH HOH . H 3 HOH A 28 334 28 HOH HOH . H 3 HOH A 29 335 29 HOH HOH . H 3 HOH A 30 336 30 HOH HOH . H 3 HOH A 31 337 31 HOH HOH . H 3 HOH A 32 338 32 HOH HOH . H 3 HOH A 33 340 34 HOH HOH . H 3 HOH A 34 341 35 HOH HOH . H 3 HOH A 35 342 36 HOH HOH . H 3 HOH A 36 343 37 HOH HOH . H 3 HOH A 37 344 38 HOH HOH . H 3 HOH A 38 345 39 HOH HOH . H 3 HOH A 39 346 40 HOH HOH . H 3 HOH A 40 347 41 HOH HOH . H 3 HOH A 41 348 42 HOH HOH . H 3 HOH A 42 349 43 HOH HOH . H 3 HOH A 43 350 44 HOH HOH . H 3 HOH A 44 351 45 HOH HOH . H 3 HOH A 45 352 46 HOH HOH . H 3 HOH A 46 353 47 HOH HOH . H 3 HOH A 47 354 48 HOH HOH . H 3 HOH A 48 355 49 HOH HOH . H 3 HOH A 49 356 50 HOH HOH . H 3 HOH A 50 357 51 HOH HOH . H 3 HOH A 51 358 52 HOH HOH . H 3 HOH A 52 359 53 HOH HOH . H 3 HOH A 53 360 54 HOH HOH . H 3 HOH A 54 361 55 HOH HOH . H 3 HOH A 55 362 56 HOH HOH . H 3 HOH A 56 363 57 HOH HOH . H 3 HOH A 57 364 58 HOH HOH . H 3 HOH A 58 365 59 HOH HOH . H 3 HOH A 59 366 60 HOH HOH . H 3 HOH A 60 367 61 HOH HOH . H 3 HOH A 61 368 62 HOH HOH . H 3 HOH A 62 369 63 HOH HOH . H 3 HOH A 63 370 64 HOH HOH . H 3 HOH A 64 371 65 HOH HOH . H 3 HOH A 65 372 66 HOH HOH . H 3 HOH A 66 373 67 HOH HOH . H 3 HOH A 67 374 68 HOH HOH . H 3 HOH A 68 375 69 HOH HOH . H 3 HOH A 69 376 70 HOH HOH . H 3 HOH A 70 377 71 HOH HOH . H 3 HOH A 71 378 72 HOH HOH . H 3 HOH A 72 379 73 HOH HOH . H 3 HOH A 73 380 74 HOH HOH . H 3 HOH A 74 381 75 HOH HOH . H 3 HOH A 75 382 76 HOH HOH . H 3 HOH A 76 383 77 HOH HOH . H 3 HOH A 77 384 78 HOH HOH . H 3 HOH A 78 385 79 HOH HOH . H 3 HOH A 79 386 80 HOH HOH . H 3 HOH A 80 387 81 HOH HOH . H 3 HOH A 81 388 82 HOH HOH . H 3 HOH A 82 389 83 HOH HOH . H 3 HOH A 83 390 84 HOH HOH . H 3 HOH A 84 391 85 HOH HOH . H 3 HOH A 85 392 86 HOH HOH . H 3 HOH A 86 393 87 HOH HOH . H 3 HOH A 87 394 88 HOH HOH . H 3 HOH A 88 395 89 HOH HOH . H 3 HOH A 89 396 90 HOH HOH . H 3 HOH A 90 397 91 HOH HOH . H 3 HOH A 91 398 92 HOH HOH . H 3 HOH A 92 399 93 HOH HOH . H 3 HOH A 93 400 94 HOH HOH . H 3 HOH A 94 401 95 HOH HOH . H 3 HOH A 95 402 96 HOH HOH . H 3 HOH A 96 403 97 HOH HOH . H 3 HOH A 97 404 98 HOH HOH . H 3 HOH A 98 405 99 HOH HOH . H 3 HOH A 99 406 100 HOH HOH . H 3 HOH A 100 407 101 HOH HOH . H 3 HOH A 101 408 102 HOH HOH . H 3 HOH A 102 409 103 HOH HOH . H 3 HOH A 103 410 104 HOH HOH . H 3 HOH A 104 411 105 HOH HOH . H 3 HOH A 105 412 106 HOH HOH . H 3 HOH A 106 413 107 HOH HOH . H 3 HOH A 107 414 108 HOH HOH . H 3 HOH A 108 415 109 HOH HOH . H 3 HOH A 109 416 110 HOH HOH . H 3 HOH A 110 417 111 HOH HOH . H 3 HOH A 111 418 112 HOH HOH . H 3 HOH A 112 419 113 HOH HOH . H 3 HOH A 113 420 114 HOH HOH . H 3 HOH A 114 421 115 HOH HOH . H 3 HOH A 115 422 116 HOH HOH . H 3 HOH A 116 423 117 HOH HOH . H 3 HOH A 117 424 118 HOH HOH . H 3 HOH A 118 425 119 HOH HOH . H 3 HOH A 119 426 120 HOH HOH . H 3 HOH A 120 427 121 HOH HOH . H 3 HOH A 121 428 122 HOH HOH . H 3 HOH A 122 429 123 HOH HOH . H 3 HOH A 123 430 124 HOH HOH . H 3 HOH A 124 431 125 HOH HOH . H 3 HOH A 125 432 126 HOH HOH . H 3 HOH A 126 433 127 HOH HOH . H 3 HOH A 127 434 128 HOH HOH . H 3 HOH A 128 435 129 HOH HOH . H 3 HOH A 129 436 130 HOH HOH . H 3 HOH A 130 437 131 HOH HOH . H 3 HOH A 131 438 132 HOH HOH . H 3 HOH A 132 439 133 HOH HOH . H 3 HOH A 133 440 134 HOH HOH . H 3 HOH A 134 441 135 HOH HOH . H 3 HOH A 135 442 136 HOH HOH . H 3 HOH A 136 443 137 HOH HOH . H 3 HOH A 137 444 138 HOH HOH . H 3 HOH A 138 445 139 HOH HOH . H 3 HOH A 139 446 140 HOH HOH . H 3 HOH A 140 447 141 HOH HOH . H 3 HOH A 141 448 142 HOH HOH . H 3 HOH A 142 449 143 HOH HOH . H 3 HOH A 143 450 144 HOH HOH . H 3 HOH A 144 451 145 HOH HOH . H 3 HOH A 145 452 146 HOH HOH . H 3 HOH A 146 453 147 HOH HOH . H 3 HOH A 147 454 148 HOH HOH . H 3 HOH A 148 455 149 HOH HOH . H 3 HOH A 149 456 150 HOH HOH . H 3 HOH A 150 457 151 HOH HOH . H 3 HOH A 151 458 152 HOH HOH . H 3 HOH A 152 459 153 HOH HOH . H 3 HOH A 153 460 154 HOH HOH . H 3 HOH A 154 462 156 HOH HOH . H 3 HOH A 155 463 157 HOH HOH . H 3 HOH A 156 464 158 HOH HOH . H 3 HOH A 157 465 159 HOH HOH . H 3 HOH A 158 466 160 HOH HOH . H 3 HOH A 159 467 161 HOH HOH . H 3 HOH A 160 468 162 HOH HOH . H 3 HOH A 161 469 163 HOH HOH . H 3 HOH A 162 470 164 HOH HOH . H 3 HOH A 163 471 165 HOH HOH . H 3 HOH A 164 472 166 HOH HOH . H 3 HOH A 165 473 167 HOH HOH . H 3 HOH A 166 474 168 HOH HOH . H 3 HOH A 167 475 169 HOH HOH . H 3 HOH A 168 476 170 HOH HOH . H 3 HOH A 169 477 171 HOH HOH . H 3 HOH A 170 478 172 HOH HOH . H 3 HOH A 171 479 173 HOH HOH . H 3 HOH A 172 480 174 HOH HOH . H 3 HOH A 173 481 175 HOH HOH . H 3 HOH A 174 482 176 HOH HOH . H 3 HOH A 175 483 177 HOH HOH . H 3 HOH A 176 484 178 HOH HOH . H 3 HOH A 177 485 179 HOH HOH . H 3 HOH A 178 486 180 HOH HOH . H 3 HOH A 179 487 181 HOH HOH . H 3 HOH A 180 488 182 HOH HOH . H 3 HOH A 181 489 183 HOH HOH . H 3 HOH A 182 490 184 HOH HOH . H 3 HOH A 183 491 185 HOH HOH . H 3 HOH A 184 492 186 HOH HOH . H 3 HOH A 185 493 187 HOH HOH . H 3 HOH A 186 494 188 HOH HOH . H 3 HOH A 187 495 189 HOH HOH . H 3 HOH A 188 496 190 HOH HOH . H 3 HOH A 189 497 191 HOH HOH . H 3 HOH A 190 498 192 HOH HOH . H 3 HOH A 191 499 193 HOH HOH . H 3 HOH A 192 500 194 HOH HOH . H 3 HOH A 193 501 195 HOH HOH . H 3 HOH A 194 502 196 HOH HOH . H 3 HOH A 195 503 197 HOH HOH . H 3 HOH A 196 504 198 HOH HOH . H 3 HOH A 197 505 199 HOH HOH . H 3 HOH A 198 506 200 HOH HOH . H 3 HOH A 199 507 201 HOH HOH . H 3 HOH A 200 508 202 HOH HOH . H 3 HOH A 201 509 203 HOH HOH . H 3 HOH A 202 510 204 HOH HOH . H 3 HOH A 203 511 205 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 . A . C 2 0.285 26.869 10.293 0.5 65.86 ? C1 GOL 302 A 1 HETATM 2 C C1 GOL . B . C 2 -0.252 27.024 10.222 0.5 66.27 ? C1 GOL 302 A 1 HETATM 3 O O1 GOL . A . C 2 -0.064 27.191 8.967 0.5 68.56 ? O1 GOL 302 A 1 HETATM 4 O O1 GOL . B . C 2 0.223 27.296 8.925 0.5 68.6 ? O1 GOL 302 A 1 HETATM 5 C C2 GOL . A . C 2 -0.133 25.434 10.603 0.5 61.52 ? C2 GOL 302 A 1 HETATM 6 C C2 GOL . B . C 2 -0.606 25.544 10.333 0.5 63.33 ? C2 GOL 302 A 1 HETATM 7 O O2 GOL . A . C 2 -1.378 25.168 9.993 0.5 62.66 ? O2 GOL 302 A 1 HETATM 8 O O2 GOL . B . C 2 0.441 24.772 9.777 0.5 64.71 ? O2 GOL 302 A 1 HETATM 9 C C3 GOL . A . C 2 -0.233 25.216 12.113 0.5 50.22 ? C3 GOL 302 A 1 HETATM 10 C C3 GOL . B . C 2 -0.801 25.158 11.797 0.5 54.38 ? C3 GOL 302 A 1 HETATM 11 O O3 GOL . A . C 2 -1.575 24.991 12.495 0.5 42.29 ? O3 GOL 302 A 1 HETATM 12 O O3 GOL . B . C 2 0.442 25.128 12.456 0.5 43.76 ? O3 GOL 302 A 1 # _model_server_stats.io_time_ms 0 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 242 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 12 #