data_3DFF # _model_server_result.job_id g6fpNuTy7d709-OGNkLL3w _model_server_result.datetime_utc '2024-12-18 04:58:55' _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 3dff # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":300}' # _entry.id 3DFF # _exptl.entry_id 3DFF _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 4 _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 99.16 _cell.angle_gamma 90 _cell.entry_id 3DFF _cell.length_a 42.191 _cell.length_b 64.26 _cell.length_c 50.474 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3DFF _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _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 4 _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 ARG 58 A ARG 58 1_555 A N MSE 59 A MSE 59 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale2 A C MSE 59 A MSE 59 1_555 A N HIS 60 A HIS 60 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale3 A C GLU 217 A GLU 217 1_555 A N MSE 218 A MSE 218 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale4 A C MSE 218 A MSE 218 1_555 A N ARG 219 A ARG 219 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale5 A C GLN 232 A GLN 232 1_555 A N MSE 233 A MSE 233 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale6 A C MSE 233 A MSE 233 1_555 A N VAL 234 A VAL 234 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? metalc ? metalc1 A ND1 HIS 16 A HIS 16 1_555 B ZN ZN . A ZN 274 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.093 ? metalc ? metalc2 A OD2 ASP 19 A ASP 19 1_555 B ZN ZN . A ZN 274 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.129 ? metalc ? metalc3 A NE2 HIS 164 A HIS 164 1_555 B ZN ZN . A ZN 274 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.138 ? metalc ? metalc4 B ZN ZN . A ZN 274 1_555 E O HOH . A HOH 579 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? metalc ? metalc5 B ZN ZN . A ZN 274 1_555 E O HOH . A HOH 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.003 ? # _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 3DFF _atom_sites.fract_transf_matrix[1][1] 0.023702 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003821 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015562 _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] 0.020068 _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 1 274 100 ZN ZN . C 3 PG4 A 1 400 400 PG4 PG4 . D 4 GOL A 1 300 300 GOL GOL . E 5 HOH A 1 401 1 HOH HOH . E 5 HOH A 2 402 2 HOH HOH . E 5 HOH A 3 403 3 HOH HOH . E 5 HOH A 4 404 4 HOH HOH . E 5 HOH A 5 405 5 HOH HOH . E 5 HOH A 6 406 6 HOH HOH . E 5 HOH A 7 407 7 HOH HOH . E 5 HOH A 8 408 8 HOH HOH . E 5 HOH A 9 409 9 HOH HOH . E 5 HOH A 10 410 10 HOH HOH . E 5 HOH A 11 411 11 HOH HOH . E 5 HOH A 12 412 12 HOH HOH . E 5 HOH A 13 413 13 HOH HOH . E 5 HOH A 14 414 14 HOH HOH . E 5 HOH A 15 415 15 HOH HOH . E 5 HOH A 16 416 16 HOH HOH . E 5 HOH A 17 417 17 HOH HOH . E 5 HOH A 18 418 18 HOH HOH . E 5 HOH A 19 419 19 HOH HOH . E 5 HOH A 20 420 20 HOH HOH . E 5 HOH A 21 421 21 HOH HOH . E 5 HOH A 22 422 22 HOH HOH . E 5 HOH A 23 423 23 HOH HOH . E 5 HOH A 24 424 24 HOH HOH . E 5 HOH A 25 425 25 HOH HOH . E 5 HOH A 26 426 26 HOH HOH . E 5 HOH A 27 427 27 HOH HOH . E 5 HOH A 28 428 28 HOH HOH . E 5 HOH A 29 429 29 HOH HOH . E 5 HOH A 30 430 30 HOH HOH . E 5 HOH A 31 431 31 HOH HOH . E 5 HOH A 32 432 32 HOH HOH . E 5 HOH A 33 433 33 HOH HOH . E 5 HOH A 34 434 35 HOH HOH . E 5 HOH A 35 435 36 HOH HOH . E 5 HOH A 36 436 37 HOH HOH . E 5 HOH A 37 437 38 HOH HOH . E 5 HOH A 38 438 39 HOH HOH . E 5 HOH A 39 439 40 HOH HOH . E 5 HOH A 40 440 41 HOH HOH . E 5 HOH A 41 441 43 HOH HOH . E 5 HOH A 42 442 44 HOH HOH . E 5 HOH A 43 443 45 HOH HOH . E 5 HOH A 44 444 46 HOH HOH . E 5 HOH A 45 445 47 HOH HOH . E 5 HOH A 46 446 48 HOH HOH . E 5 HOH A 47 447 49 HOH HOH . E 5 HOH A 48 448 50 HOH HOH . E 5 HOH A 49 449 51 HOH HOH . E 5 HOH A 50 450 52 HOH HOH . E 5 HOH A 51 451 53 HOH HOH . E 5 HOH A 52 452 54 HOH HOH . E 5 HOH A 53 453 55 HOH HOH . E 5 HOH A 54 454 58 HOH HOH . E 5 HOH A 55 455 59 HOH HOH . E 5 HOH A 56 456 60 HOH HOH . E 5 HOH A 57 457 61 HOH HOH . E 5 HOH A 58 458 62 HOH HOH . E 5 HOH A 59 459 63 HOH HOH . E 5 HOH A 60 460 64 HOH HOH . E 5 HOH A 61 461 65 HOH HOH . E 5 HOH A 62 462 66 HOH HOH . E 5 HOH A 63 463 67 HOH HOH . E 5 HOH A 64 464 68 HOH HOH . E 5 HOH A 65 465 69 HOH HOH . E 5 HOH A 66 466 70 HOH HOH . E 5 HOH A 67 467 71 HOH HOH . E 5 HOH A 68 468 72 HOH HOH . E 5 HOH A 69 469 73 HOH HOH . E 5 HOH A 70 470 74 HOH HOH . E 5 HOH A 71 471 75 HOH HOH . E 5 HOH A 72 472 76 HOH HOH . E 5 HOH A 73 473 77 HOH HOH . E 5 HOH A 74 474 78 HOH HOH . E 5 HOH A 75 475 79 HOH HOH . E 5 HOH A 76 476 81 HOH HOH . E 5 HOH A 77 477 82 HOH HOH . E 5 HOH A 78 478 83 HOH HOH . E 5 HOH A 79 479 84 HOH HOH . E 5 HOH A 80 480 85 HOH HOH . E 5 HOH A 81 481 87 HOH HOH . E 5 HOH A 82 482 88 HOH HOH . E 5 HOH A 83 483 89 HOH HOH . E 5 HOH A 84 484 90 HOH HOH . E 5 HOH A 85 485 91 HOH HOH . E 5 HOH A 86 486 92 HOH HOH . E 5 HOH A 87 487 93 HOH HOH . E 5 HOH A 88 488 94 HOH HOH . E 5 HOH A 89 489 95 HOH HOH . E 5 HOH A 90 490 96 HOH HOH . E 5 HOH A 91 491 97 HOH HOH . E 5 HOH A 92 492 98 HOH HOH . E 5 HOH A 93 493 99 HOH HOH . E 5 HOH A 94 494 100 HOH HOH . E 5 HOH A 95 495 101 HOH HOH . E 5 HOH A 96 496 102 HOH HOH . E 5 HOH A 97 497 103 HOH HOH . E 5 HOH A 98 498 104 HOH HOH . E 5 HOH A 99 499 105 HOH HOH . E 5 HOH A 100 500 106 HOH HOH . E 5 HOH A 101 501 107 HOH HOH . E 5 HOH A 102 502 108 HOH HOH . E 5 HOH A 103 503 109 HOH HOH . E 5 HOH A 104 504 111 HOH HOH . E 5 HOH A 105 505 112 HOH HOH . E 5 HOH A 106 506 113 HOH HOH . E 5 HOH A 107 507 114 HOH HOH . E 5 HOH A 108 508 115 HOH HOH . E 5 HOH A 109 509 116 HOH HOH . E 5 HOH A 110 510 117 HOH HOH . E 5 HOH A 111 511 118 HOH HOH . E 5 HOH A 112 512 119 HOH HOH . E 5 HOH A 113 513 120 HOH HOH . E 5 HOH A 114 514 121 HOH HOH . E 5 HOH A 115 515 123 HOH HOH . E 5 HOH A 116 516 125 HOH HOH . E 5 HOH A 117 517 126 HOH HOH . E 5 HOH A 118 518 127 HOH HOH . E 5 HOH A 119 519 128 HOH HOH . E 5 HOH A 120 520 129 HOH HOH . E 5 HOH A 121 521 130 HOH HOH . E 5 HOH A 122 522 131 HOH HOH . E 5 HOH A 123 523 132 HOH HOH . E 5 HOH A 124 524 133 HOH HOH . E 5 HOH A 125 525 134 HOH HOH . E 5 HOH A 126 526 135 HOH HOH . E 5 HOH A 127 527 136 HOH HOH . E 5 HOH A 128 528 137 HOH HOH . E 5 HOH A 129 529 138 HOH HOH . E 5 HOH A 130 530 140 HOH HOH . E 5 HOH A 131 531 141 HOH HOH . E 5 HOH A 132 532 142 HOH HOH . E 5 HOH A 133 533 143 HOH HOH . E 5 HOH A 134 534 144 HOH HOH . E 5 HOH A 135 535 147 HOH HOH . E 5 HOH A 136 536 148 HOH HOH . E 5 HOH A 137 537 149 HOH HOH . E 5 HOH A 138 538 150 HOH HOH . E 5 HOH A 139 539 151 HOH HOH . E 5 HOH A 140 540 153 HOH HOH . E 5 HOH A 141 541 154 HOH HOH . E 5 HOH A 142 542 155 HOH HOH . E 5 HOH A 143 543 156 HOH HOH . E 5 HOH A 144 544 157 HOH HOH . E 5 HOH A 145 545 158 HOH HOH . E 5 HOH A 146 546 159 HOH HOH . E 5 HOH A 147 547 160 HOH HOH . E 5 HOH A 148 548 161 HOH HOH . E 5 HOH A 149 549 162 HOH HOH . E 5 HOH A 150 550 163 HOH HOH . E 5 HOH A 151 551 164 HOH HOH . E 5 HOH A 152 552 165 HOH HOH . E 5 HOH A 153 553 166 HOH HOH . E 5 HOH A 154 554 167 HOH HOH . E 5 HOH A 155 555 168 HOH HOH . E 5 HOH A 156 556 169 HOH HOH . E 5 HOH A 157 557 170 HOH HOH . E 5 HOH A 158 558 171 HOH HOH . E 5 HOH A 159 559 172 HOH HOH . E 5 HOH A 160 560 173 HOH HOH . E 5 HOH A 161 561 174 HOH HOH . E 5 HOH A 162 562 175 HOH HOH . E 5 HOH A 163 563 176 HOH HOH . E 5 HOH A 164 564 177 HOH HOH . E 5 HOH A 165 565 178 HOH HOH . E 5 HOH A 166 566 179 HOH HOH . E 5 HOH A 167 567 180 HOH HOH . E 5 HOH A 168 568 183 HOH HOH . E 5 HOH A 169 569 184 HOH HOH . E 5 HOH A 170 570 185 HOH HOH . E 5 HOH A 171 571 186 HOH HOH . E 5 HOH A 172 572 187 HOH HOH . E 5 HOH A 173 573 188 HOH HOH . E 5 HOH A 174 574 190 HOH HOH . E 5 HOH A 175 575 191 HOH HOH . E 5 HOH A 176 576 192 HOH HOH . E 5 HOH A 177 577 194 HOH HOH . E 5 HOH A 178 578 195 HOH HOH . E 5 HOH A 179 579 196 HOH HOH . E 5 HOH A 180 580 197 HOH HOH . E 5 HOH A 181 581 198 HOH HOH . E 5 HOH A 182 582 202 HOH HOH . E 5 HOH A 183 583 203 HOH HOH . E 5 HOH A 184 584 205 HOH HOH . E 5 HOH A 185 585 206 HOH HOH . E 5 HOH A 186 586 207 HOH HOH . E 5 HOH A 187 587 210 HOH HOH . E 5 HOH A 188 588 212 HOH HOH . E 5 HOH A 189 589 213 HOH HOH . E 5 HOH A 190 590 215 HOH HOH . E 5 HOH A 191 591 216 HOH HOH . E 5 HOH A 192 592 217 HOH HOH . E 5 HOH A 193 593 218 HOH HOH . E 5 HOH A 194 594 219 HOH HOH . E 5 HOH A 195 595 220 HOH HOH . E 5 HOH A 196 596 222 HOH HOH . E 5 HOH A 197 597 225 HOH HOH . E 5 HOH A 198 598 226 HOH HOH . E 5 HOH A 199 599 228 HOH HOH . E 5 HOH A 200 600 230 HOH HOH . E 5 HOH A 201 601 231 HOH HOH . E 5 HOH A 202 602 232 HOH HOH . E 5 HOH A 203 603 234 HOH HOH . E 5 HOH A 204 604 235 HOH HOH . E 5 HOH A 205 605 237 HOH HOH . E 5 HOH A 206 606 239 HOH HOH . E 5 HOH A 207 607 241 HOH HOH . E 5 HOH A 208 608 242 HOH HOH . E 5 HOH A 209 609 243 HOH HOH . E 5 HOH A 210 610 244 HOH HOH . E 5 HOH A 211 611 245 HOH HOH . E 5 HOH A 212 612 247 HOH HOH . E 5 HOH A 213 613 248 HOH HOH . E 5 HOH A 214 614 249 HOH HOH . E 5 HOH A 215 615 250 HOH HOH . E 5 HOH A 216 616 252 HOH HOH . E 5 HOH A 217 617 255 HOH HOH . E 5 HOH A 218 618 257 HOH HOH . E 5 HOH A 219 619 259 HOH HOH . E 5 HOH A 220 620 260 HOH HOH . E 5 HOH A 221 621 261 HOH HOH . E 5 HOH A 222 622 262 HOH HOH . E 5 HOH A 223 623 264 HOH HOH . E 5 HOH A 224 624 265 HOH HOH . E 5 HOH A 225 625 267 HOH HOH . E 5 HOH A 226 626 268 HOH HOH . E 5 HOH A 227 627 269 HOH HOH . E 5 HOH A 228 628 271 HOH HOH . E 5 HOH A 229 629 272 HOH HOH . E 5 HOH A 230 630 274 HOH HOH . E 5 HOH A 231 631 280 HOH HOH . E 5 HOH A 232 632 282 HOH HOH . E 5 HOH A 233 633 287 HOH HOH . E 5 HOH A 234 634 288 HOH HOH . E 5 HOH A 235 635 289 HOH HOH . E 5 HOH A 236 636 292 HOH HOH . E 5 HOH A 237 637 293 HOH HOH . E 5 HOH A 238 638 294 HOH HOH . E 5 HOH A 239 639 296 HOH HOH . E 5 HOH A 240 640 297 HOH HOH . E 5 HOH A 241 641 299 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 4 23.821 31.141 14.488 1 45.55 ? C1 GOL 300 A 1 HETATM 2 O O1 GOL . . . D 4 22.502 31.648 14.536 1 46.95 ? O1 GOL 300 A 1 HETATM 3 C C2 GOL . . . D 4 24.407 30.989 15.897 1 45.02 ? C2 GOL 300 A 1 HETATM 4 O O2 GOL . . . D 4 25.511 31.856 15.987 1 44.08 ? O2 GOL 300 A 1 HETATM 5 C C3 GOL . . . D 4 24.934 29.563 16.044 1 43.44 ? C3 GOL 300 A 1 HETATM 6 O O3 GOL . . . D 4 24.995 29.084 17.373 1 41.74 ? O3 GOL 300 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 28 _model_server_stats.query_time_ms 327 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 6 #