data_2O4J # _model_server_result.job_id X3a-aRgCWjxV_M64V7pU-Q _model_server_result.datetime_utc '2024-11-22 16:26:57' _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 2o4j # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":500}' # _entry.id 2O4J # _exptl.entry_id 2O4J _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 414.621 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (1R,3R,7E,17Z)-17-(5-hydroxy-1,5-dimethylhexylidene)-2-methylene-9,10-secoestra-5,7-diene-1,3-diol _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 96.5 _cell.angle_gamma 90 _cell.entry_id 2O4J _cell.length_a 155.5 _cell.length_b 42.4 _cell.length_c 41.9 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2O4J _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA tetrameric 4 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E 1 1 A,B,C,D,E 2 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_655 -x+1,y,-z -1 0 0 0 1 0 0 0 -1 155.5 0 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C27 H42 O3' _chem_comp.formula_weight 414.621 _chem_comp.id VD4 _chem_comp.mon_nstd_flag . _chem_comp.name (1R,3R,7E,17Z)-17-(5-hydroxy-1,5-dimethylhexylidene)-2-methylene-9,10-secoestra-5,7-diene-1,3-diol _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 O3 C25 VD4 sing 376 n n C26 C25 VD4 sing 377 n n C22 C20 VD4 sing 378 n n C22 C23 VD4 sing 379 n n C21 C20 VD4 sing 380 n n C24 C25 VD4 sing 381 n n C24 C23 VD4 sing 382 n n C25 C27 VD4 sing 383 n n C20 C17 VD4 doub 384 z n C12 C11 VD4 sing 385 n n C12 C13 VD4 sing 386 n n C17 C16 VD4 sing 387 n n C17 C13 VD4 sing 388 n n C11 C9 VD4 sing 389 n n C16 C15 VD4 sing 390 n n C13 C14 VD4 sing 391 n n C13 C18 VD4 sing 392 n n C9 C8 VD4 sing 393 n n C14 C15 VD4 sing 394 n n C14 C8 VD4 sing 395 n n C8 C7 VD4 doub 396 e n C7 C6 VD4 sing 397 n n C6 C5 VD4 doub 398 n n C5 C4 VD4 sing 399 n n C5 C10 VD4 sing 400 n n C4 C3 VD4 sing 401 n n C10 C1 VD4 sing 402 n n O2 C3 VD4 sing 403 n n C3 C2 VD4 sing 404 n n C1 C2 VD4 sing 405 n n C1 O1 VD4 sing 406 n n C2 C28 VD4 doub 407 n n O3 HO3 VD4 sing 408 n n C26 H261 VD4 sing 409 n n C26 H262 VD4 sing 410 n n C26 H263 VD4 sing 411 n n C27 H271 VD4 sing 412 n n C27 H272 VD4 sing 413 n n C27 H273 VD4 sing 414 n n C24 H241 VD4 sing 415 n n C24 H242 VD4 sing 416 n n C23 H231 VD4 sing 417 n n C23 H232 VD4 sing 418 n n C22 H221 VD4 sing 419 n n C22 H222 VD4 sing 420 n n C21 H211 VD4 sing 421 n n C21 H212 VD4 sing 422 n n C21 H213 VD4 sing 423 n n C18 H181 VD4 sing 424 n n C18 H182 VD4 sing 425 n n C18 H183 VD4 sing 426 n n C12 H121 VD4 sing 427 n n C12 H122 VD4 sing 428 n n C11 H111 VD4 sing 429 n n C11 H112 VD4 sing 430 n n C9 H91 VD4 sing 431 n n C9 H92 VD4 sing 432 n n C16 H161 VD4 sing 433 n n C16 H162 VD4 sing 434 n n C15 H151 VD4 sing 435 n n C15 H152 VD4 sing 436 n n C14 H14 VD4 sing 437 n n C7 H7 VD4 sing 438 n n C6 H6 VD4 sing 439 n n C10 H101 VD4 sing 440 n n C10 H102 VD4 sing 441 n n C1 H1 VD4 sing 442 n n O1 HO1 VD4 sing 443 n n C4 H41 VD4 sing 444 n n C4 H42 VD4 sing 445 n n C3 H3 VD4 sing 446 n n O2 HO2 VD4 sing 447 n n C28 H281 VD4 sing 448 n n C28 H282 VD4 sing 449 n n # _atom_sites.entry_id 2O4J _atom_sites.fract_transf_matrix[1][1] 0.006431 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000733 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.023585 _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] 0.024021 _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 3 VD4 A 1 500 500 VD4 VD4 . D 4 HOH A 1 501 1 HOH HOH . D 4 HOH A 2 502 2 HOH HOH . D 4 HOH A 3 503 3 HOH HOH . D 4 HOH A 4 504 4 HOH HOH . D 4 HOH A 5 505 5 HOH HOH . D 4 HOH A 6 506 6 HOH HOH . D 4 HOH A 7 507 7 HOH HOH . D 4 HOH A 8 508 8 HOH HOH . D 4 HOH A 9 509 9 HOH HOH . D 4 HOH A 10 510 10 HOH HOH . D 4 HOH A 11 511 11 HOH HOH . D 4 HOH A 12 512 12 HOH HOH . D 4 HOH A 13 513 13 HOH HOH . D 4 HOH A 14 514 14 HOH HOH . D 4 HOH A 15 515 15 HOH HOH . D 4 HOH A 16 516 16 HOH HOH . D 4 HOH A 17 517 17 HOH HOH . D 4 HOH A 18 518 18 HOH HOH . D 4 HOH A 19 519 19 HOH HOH . D 4 HOH A 20 520 20 HOH HOH . D 4 HOH A 21 521 21 HOH HOH . D 4 HOH A 22 522 22 HOH HOH . D 4 HOH A 23 523 23 HOH HOH . D 4 HOH A 24 524 24 HOH HOH . D 4 HOH A 25 525 25 HOH HOH . D 4 HOH A 26 526 27 HOH HOH . D 4 HOH A 27 527 28 HOH HOH . D 4 HOH A 28 528 29 HOH HOH . D 4 HOH A 29 529 30 HOH HOH . D 4 HOH A 30 530 31 HOH HOH . D 4 HOH A 31 531 32 HOH HOH . D 4 HOH A 32 532 33 HOH HOH . D 4 HOH A 33 533 34 HOH HOH . D 4 HOH A 34 534 35 HOH HOH . D 4 HOH A 35 535 36 HOH HOH . D 4 HOH A 36 536 37 HOH HOH . D 4 HOH A 37 537 38 HOH HOH . D 4 HOH A 38 538 39 HOH HOH . D 4 HOH A 39 539 40 HOH HOH . D 4 HOH A 40 540 41 HOH HOH . D 4 HOH A 41 541 42 HOH HOH . D 4 HOH A 42 542 43 HOH HOH . D 4 HOH A 43 543 44 HOH HOH . D 4 HOH A 44 544 45 HOH HOH . D 4 HOH A 45 545 47 HOH HOH . D 4 HOH A 46 546 48 HOH HOH . D 4 HOH A 47 547 49 HOH HOH . D 4 HOH A 48 548 50 HOH HOH . D 4 HOH A 49 549 51 HOH HOH . D 4 HOH A 50 550 52 HOH HOH . D 4 HOH A 51 551 53 HOH HOH . D 4 HOH A 52 552 54 HOH HOH . D 4 HOH A 53 553 55 HOH HOH . D 4 HOH A 54 554 56 HOH HOH . D 4 HOH A 55 555 57 HOH HOH . D 4 HOH A 56 556 58 HOH HOH . D 4 HOH A 57 557 59 HOH HOH . D 4 HOH A 58 558 60 HOH HOH . D 4 HOH A 59 559 61 HOH HOH . D 4 HOH A 60 560 62 HOH HOH . D 4 HOH A 61 561 63 HOH HOH . D 4 HOH A 62 562 64 HOH HOH . D 4 HOH A 63 563 65 HOH HOH . D 4 HOH A 64 564 66 HOH HOH . D 4 HOH A 65 565 67 HOH HOH . D 4 HOH A 66 566 68 HOH HOH . D 4 HOH A 67 567 69 HOH HOH . D 4 HOH A 68 568 70 HOH HOH . D 4 HOH A 69 569 71 HOH HOH . D 4 HOH A 70 570 72 HOH HOH . D 4 HOH A 71 571 73 HOH HOH . D 4 HOH A 72 572 75 HOH HOH . D 4 HOH A 73 573 76 HOH HOH . D 4 HOH A 74 574 77 HOH HOH . D 4 HOH A 75 575 78 HOH HOH . D 4 HOH A 76 576 79 HOH HOH . D 4 HOH A 77 577 80 HOH HOH . D 4 HOH A 78 578 81 HOH HOH . D 4 HOH A 79 579 82 HOH HOH . D 4 HOH A 80 580 83 HOH HOH . D 4 HOH A 81 581 84 HOH HOH . D 4 HOH A 82 582 85 HOH HOH . D 4 HOH A 83 583 86 HOH HOH . D 4 HOH A 84 584 87 HOH HOH . D 4 HOH A 85 585 88 HOH HOH . D 4 HOH A 86 586 89 HOH HOH . D 4 HOH A 87 587 90 HOH HOH . D 4 HOH A 88 588 91 HOH HOH . D 4 HOH A 89 589 92 HOH HOH . D 4 HOH A 90 590 93 HOH HOH . D 4 HOH A 91 591 95 HOH HOH . D 4 HOH A 92 592 96 HOH HOH . D 4 HOH A 93 593 97 HOH HOH . D 4 HOH A 94 594 98 HOH HOH . D 4 HOH A 95 595 99 HOH HOH . D 4 HOH A 96 596 100 HOH HOH . D 4 HOH A 97 597 101 HOH HOH . D 4 HOH A 98 598 102 HOH HOH . D 4 HOH A 99 599 103 HOH HOH . D 4 HOH A 100 600 104 HOH HOH . D 4 HOH A 101 601 105 HOH HOH . D 4 HOH A 102 602 106 HOH HOH . D 4 HOH A 103 603 107 HOH HOH . D 4 HOH A 104 604 108 HOH HOH . D 4 HOH A 105 605 109 HOH HOH . D 4 HOH A 106 606 110 HOH HOH . D 4 HOH A 107 607 111 HOH HOH . D 4 HOH A 108 608 112 HOH HOH . D 4 HOH A 109 609 113 HOH HOH . D 4 HOH A 110 610 114 HOH HOH . D 4 HOH A 111 611 115 HOH HOH . D 4 HOH A 112 612 116 HOH HOH . D 4 HOH A 113 613 117 HOH HOH . D 4 HOH A 114 614 118 HOH HOH . D 4 HOH A 115 615 119 HOH HOH . D 4 HOH A 116 616 120 HOH HOH . D 4 HOH A 117 617 121 HOH HOH . D 4 HOH A 118 618 122 HOH HOH . D 4 HOH A 119 619 123 HOH HOH . D 4 HOH A 120 620 124 HOH HOH . D 4 HOH A 121 621 125 HOH HOH . D 4 HOH A 122 622 126 HOH HOH . D 4 HOH A 123 623 127 HOH HOH . D 4 HOH A 124 624 128 HOH HOH . D 4 HOH A 125 625 130 HOH HOH . D 4 HOH A 126 626 131 HOH HOH . D 4 HOH A 127 627 132 HOH HOH . D 4 HOH A 128 628 133 HOH HOH . D 4 HOH A 129 629 134 HOH HOH . D 4 HOH A 130 630 135 HOH HOH . D 4 HOH A 131 631 136 HOH HOH . D 4 HOH A 132 632 137 HOH HOH . D 4 HOH A 133 633 138 HOH HOH . D 4 HOH A 134 634 139 HOH HOH . D 4 HOH A 135 635 140 HOH HOH . D 4 HOH A 136 636 141 HOH HOH . D 4 HOH A 137 637 142 HOH HOH . D 4 HOH A 138 638 143 HOH HOH . D 4 HOH A 139 639 144 HOH HOH . D 4 HOH A 140 640 145 HOH HOH . D 4 HOH A 141 641 146 HOH HOH . D 4 HOH A 142 642 147 HOH HOH . D 4 HOH A 143 643 148 HOH HOH . D 4 HOH A 144 644 149 HOH HOH . D 4 HOH A 145 645 150 HOH HOH . D 4 HOH A 146 646 152 HOH HOH . D 4 HOH A 147 647 153 HOH HOH . D 4 HOH A 148 648 154 HOH HOH . D 4 HOH A 149 649 155 HOH HOH . D 4 HOH A 150 650 156 HOH HOH . D 4 HOH A 151 651 157 HOH HOH . D 4 HOH A 152 652 158 HOH HOH . D 4 HOH A 153 653 159 HOH HOH . D 4 HOH A 154 654 160 HOH HOH . D 4 HOH A 155 655 161 HOH HOH . D 4 HOH A 156 656 162 HOH HOH . D 4 HOH A 157 657 163 HOH HOH . D 4 HOH A 158 658 164 HOH HOH . D 4 HOH A 159 659 165 HOH HOH . D 4 HOH A 160 660 166 HOH HOH . D 4 HOH A 161 661 167 HOH HOH . D 4 HOH A 162 662 168 HOH HOH . D 4 HOH A 163 663 169 HOH HOH . D 4 HOH A 164 664 170 HOH HOH . D 4 HOH A 165 665 171 HOH HOH . D 4 HOH A 166 666 173 HOH HOH . D 4 HOH A 167 667 174 HOH HOH . D 4 HOH A 168 668 175 HOH HOH . D 4 HOH A 169 669 176 HOH HOH . D 4 HOH A 170 670 177 HOH HOH . D 4 HOH A 171 671 178 HOH HOH . D 4 HOH A 172 672 179 HOH HOH . D 4 HOH A 173 673 180 HOH HOH . D 4 HOH A 174 674 181 HOH HOH . D 4 HOH A 175 675 182 HOH HOH . D 4 HOH A 176 676 183 HOH HOH . D 4 HOH A 177 677 184 HOH HOH . D 4 HOH A 178 678 185 HOH HOH . D 4 HOH A 179 679 186 HOH HOH . D 4 HOH A 180 680 187 HOH HOH . D 4 HOH A 181 681 188 HOH HOH . D 4 HOH A 182 682 189 HOH HOH . D 4 HOH A 183 683 190 HOH HOH . D 4 HOH A 184 684 192 HOH HOH . D 4 HOH A 185 685 193 HOH HOH . D 4 HOH A 186 686 197 HOH HOH . D 4 HOH A 187 687 200 HOH HOH . D 4 HOH A 188 688 203 HOH HOH . D 4 HOH A 189 689 204 HOH HOH . D 4 HOH A 190 690 206 HOH HOH . D 4 HOH A 191 691 210 HOH HOH . D 4 HOH A 192 692 211 HOH HOH . D 4 HOH A 193 693 212 HOH HOH . D 4 HOH A 194 694 213 HOH HOH . D 4 HOH A 195 695 219 HOH HOH . D 4 HOH A 196 696 220 HOH HOH . D 4 HOH A 197 697 221 HOH HOH . D 4 HOH A 198 698 222 HOH HOH . D 4 HOH A 199 699 223 HOH HOH . D 4 HOH A 200 700 224 HOH HOH . D 4 HOH A 201 701 225 HOH HOH . D 4 HOH A 202 702 228 HOH HOH . D 4 HOH A 203 703 229 HOH HOH . E 4 HOH C 1 26 26 HOH HOH . E 4 HOH C 2 46 46 HOH HOH . E 4 HOH C 3 74 74 HOH HOH . E 4 HOH C 4 94 94 HOH HOH . E 4 HOH C 5 151 151 HOH HOH . E 4 HOH C 6 172 172 HOH HOH . E 4 HOH C 7 191 191 HOH HOH . E 4 HOH C 8 226 226 HOH HOH . E 4 HOH C 9 227 227 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 O O3 VD4 . . . C 3 66.078 -2.252 -7.503 1 19.05 ? O3 VD4 500 A 1 HETATM 2 C C25 VD4 . . . C 3 66.739 -1.269 -6.736 1 19.76 ? C25 VD4 500 A 1 HETATM 3 C C26 VD4 . . . C 3 68.17 -1.249 -7.255 1 20.1 ? C26 VD4 500 A 1 HETATM 4 C C27 VD4 . . . C 3 66.717 -1.654 -5.252 1 19.58 ? C27 VD4 500 A 1 HETATM 5 C C24 VD4 . . . C 3 66.045 0.071 -7.008 1 16.51 ? C24 VD4 500 A 1 HETATM 6 C C23 VD4 . . . C 3 64.527 0.053 -6.721 1 17.34 ? C23 VD4 500 A 1 HETATM 7 C C22 VD4 . . . C 3 63.735 1.292 -7.199 1 18.86 ? C22 VD4 500 A 1 HETATM 8 C C20 VD4 . . . C 3 62.29 1.145 -6.736 1 17.38 ? C20 VD4 500 A 1 HETATM 9 C C21 VD4 . . . C 3 61.561 -0.103 -7.151 1 19.19 ? C21 VD4 500 A 1 HETATM 10 C C17 VD4 . . . C 3 61.605 2.055 -5.973 1 14.86 ? C17 VD4 500 A 1 HETATM 11 C C13 VD4 . . . C 3 62.081 3.384 -5.416 1 16.43 ? C13 VD4 500 A 1 HETATM 12 C C18 VD4 . . . C 3 62.979 3.133 -4.173 1 14.71 ? C18 VD4 500 A 1 HETATM 13 C C12 VD4 . . . C 3 62.752 4.378 -6.379 1 14.97 ? C12 VD4 500 A 1 HETATM 14 C C11 VD4 . . . C 3 62.901 5.798 -5.74 1 17.46 ? C11 VD4 500 A 1 HETATM 15 C C9 VD4 . . . C 3 61.556 6.318 -5.195 1 16.73 ? C9 VD4 500 A 1 HETATM 16 C C16 VD4 . . . C 3 60.173 1.758 -5.527 1 14.9 ? C16 VD4 500 A 1 HETATM 17 C C15 VD4 . . . C 3 59.829 2.821 -4.47 1 13.41 ? C15 VD4 500 A 1 HETATM 18 C C14 VD4 . . . C 3 60.68 3.933 -5.093 1 15.04 ? C14 VD4 500 A 1 HETATM 19 C C8 VD4 . . . C 3 60.906 5.225 -4.341 1 17.11 ? C8 VD4 500 A 1 HETATM 20 C C7 VD4 . . . C 3 60.634 5.37 -3.016 1 17.56 ? C7 VD4 500 A 1 HETATM 21 C C6 VD4 . . . C 3 60.857 6.634 -2.25 1 14.59 ? C6 VD4 500 A 1 HETATM 22 C C5 VD4 . . . C 3 61.185 6.715 -0.931 1 14.89 ? C5 VD4 500 A 1 HETATM 23 C C10 VD4 . . . C 3 61.414 5.471 -0.063 1 16.01 ? C10 VD4 500 A 1 HETATM 24 C C1 VD4 . . . C 3 60.739 5.608 1.316 1 16.93 ? C1 VD4 500 A 1 HETATM 25 O O1 VD4 . . . C 3 61.08 4.499 2.193 1 14.17 ? O1 VD4 500 A 1 HETATM 26 C C4 VD4 . . . C 3 61.362 8.074 -0.273 1 19.25 ? C4 VD4 500 A 1 HETATM 27 C C3 VD4 . . . C 3 60.752 8.116 1.138 1 16.08 ? C3 VD4 500 A 1 HETATM 28 O O2 VD4 . . . C 3 59.312 8.158 1.058 1 16.27 ? O2 VD4 500 A 1 HETATM 29 C C2 VD4 . . . C 3 61.143 6.902 1.936 1 16.92 ? C2 VD4 500 A 1 HETATM 30 C C28 VD4 . . . C 3 61.769 7.041 3.093 1 16.34 ? C28 VD4 500 A 1 # _model_server_stats.io_time_ms 44 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 308 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 30 #