data_3VRV
#
_model_server_result.job_id            FfFCqbRao5k66BM4EgPawA 
_model_server_result.datetime_utc      '2025-03-06 09:14:31' 
_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          3vrv 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":501}' 
#
_entry.id    3VRV 
#
_exptl.entry_id    3VRV 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              430.663 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (1R,3R,7E,17beta)-17-[(2R)-5-ethyl-5-hydroxyheptan-2-yl]-2-methylidene-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          95.42 
_cell.angle_gamma         90 
_cell.entry_id            3VRV 
_cell.length_a            154.14 
_cell.length_b            42.77 
_cell.length_c            42.12 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3VRV 
_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 
_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                             C 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C28 H46 O3' 
_chem_comp.formula_weight    430.663 
_chem_comp.id                YSD 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (1R,3R,7E,17beta)-17-[(2R)-5-ethyl-5-hydroxyheptan-2-yl]-2-methylidene-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
CAD CAY YSD sing 376 n n 
CAK CAB YSD sing 377 n n 
CAK CBD YSD sing 378 n n 
OAH CBD YSD sing 379 n n 
CAS CBD YSD sing 380 n n 
CAS CAP YSD sing 381 n n 
CAY CAP YSD sing 382 n n 
CAY CBC YSD sing 383 n n 
CBD CAL YSD sing 384 n n 
CAR CAM YSD sing 385 n n 
CAR CBE YSD sing 386 n n 
CBC CBE YSD sing 387 n n 
CBC CAQ YSD sing 388 n n 
CAM CAN YSD sing 389 n n 
CBE CBB YSD sing 390 n n 
CBE CAE YSD sing 391 n n 
CAL CAC YSD sing 392 n n 
CAQ CAO YSD sing 393 n n 
CAN CAX YSD sing 394 n n 
CBB CAO YSD sing 395 n n 
CBB CAX YSD sing 396 n n 
CAX CAJ YSD doub 397 e n 
CAJ CAI YSD sing 398 n n 
CAI CAW YSD doub 399 n n 
CAW CAT YSD sing 400 n n 
CAW CAU YSD sing 401 n n 
CAT CAZ YSD sing 402 n n 
CAU CBA YSD sing 403 n n 
OAF CAZ YSD sing 404 n n 
CAZ CAV YSD sing 405 n n 
CBA CAV YSD sing 406 n n 
CBA OAG YSD sing 407 n n 
CAV CAA YSD doub 408 n n 
CAB H1 YSD sing 409 n n 
CAB H2 YSD sing 410 n n 
CAB H3 YSD sing 411 n n 
CAK H4 YSD sing 412 n n 
CAK H5 YSD sing 413 n n 
CAL H6 YSD sing 414 n n 
CAL H7 YSD sing 415 n n 
CAC H8 YSD sing 416 n n 
CAC H9 YSD sing 417 n n 
CAC H10 YSD sing 418 n n 
OAH H11 YSD sing 419 n n 
CAS H12 YSD sing 420 n n 
CAS H13 YSD sing 421 n n 
CAP H14 YSD sing 422 n n 
CAP H15 YSD sing 423 n n 
CAY H16 YSD sing 424 n n 
CAD H17 YSD sing 425 n n 
CAD H18 YSD sing 426 n n 
CAD H19 YSD sing 427 n n 
CBC H20 YSD sing 428 n n 
CAQ H21 YSD sing 429 n n 
CAQ H22 YSD sing 430 n n 
CAO H23 YSD sing 431 n n 
CAO H24 YSD sing 432 n n 
CBB H25 YSD sing 433 n n 
CAE H26 YSD sing 434 n n 
CAE H27 YSD sing 435 n n 
CAE H28 YSD sing 436 n n 
CAR H29 YSD sing 437 n n 
CAR H30 YSD sing 438 n n 
CAM H31 YSD sing 439 n n 
CAM H32 YSD sing 440 n n 
CAN H33 YSD sing 441 n n 
CAN H34 YSD sing 442 n n 
CAJ H35 YSD sing 443 n n 
CAI H36 YSD sing 444 n n 
CAU H37 YSD sing 445 n n 
CAU H38 YSD sing 446 n n 
CAT H39 YSD sing 447 n n 
CAT H40 YSD sing 448 n n 
CAZ H41 YSD sing 449 n n 
OAF H42 YSD sing 450 n n 
CAA H44 YSD sing 451 n n 
CAA H45 YSD sing 452 n n 
CBA H47 YSD sing 453 n n 
OAG H48 YSD sing 454 n n 
#
_atom_sites.entry_id                     3VRV 
_atom_sites.fract_transf_matrix[1][1]    0.006488 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000616 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.023381 
_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]    0.023848 
_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 YSD A 1 501 1 YSD DRG . 
D 4 HOH A 1 601 2 HOH HOH . 
D 4 HOH A 2 602 3 HOH HOH . 
D 4 HOH A 3 603 4 HOH HOH . 
D 4 HOH A 4 604 5 HOH HOH . 
D 4 HOH A 5 605 6 HOH HOH . 
D 4 HOH A 6 606 7 HOH HOH . 
D 4 HOH A 7 607 8 HOH HOH . 
D 4 HOH A 8 608 9 HOH HOH . 
D 4 HOH A 9 609 10 HOH HOH . 
D 4 HOH A 10 610 11 HOH HOH . 
D 4 HOH A 11 611 12 HOH HOH . 
D 4 HOH A 12 612 13 HOH HOH . 
D 4 HOH A 13 613 14 HOH HOH . 
D 4 HOH A 14 614 16 HOH HOH . 
D 4 HOH A 15 615 18 HOH HOH . 
D 4 HOH A 16 616 20 HOH HOH . 
D 4 HOH A 17 617 21 HOH HOH . 
D 4 HOH A 18 618 22 HOH HOH . 
D 4 HOH A 19 619 23 HOH HOH . 
D 4 HOH A 20 620 24 HOH HOH . 
D 4 HOH A 21 621 25 HOH HOH . 
D 4 HOH A 22 622 26 HOH HOH . 
D 4 HOH A 23 623 28 HOH HOH . 
D 4 HOH A 24 624 29 HOH HOH . 
D 4 HOH A 25 625 31 HOH HOH . 
D 4 HOH A 26 626 32 HOH HOH . 
D 4 HOH A 27 627 34 HOH HOH . 
D 4 HOH A 28 628 36 HOH HOH . 
D 4 HOH A 29 629 38 HOH HOH . 
D 4 HOH A 30 630 39 HOH HOH . 
D 4 HOH A 31 631 40 HOH HOH . 
D 4 HOH A 32 632 41 HOH HOH . 
D 4 HOH A 33 633 43 HOH HOH . 
D 4 HOH A 34 634 44 HOH HOH . 
D 4 HOH A 35 635 45 HOH HOH . 
D 4 HOH A 36 636 47 HOH HOH . 
D 4 HOH A 37 637 48 HOH HOH . 
D 4 HOH A 38 638 49 HOH HOH . 
D 4 HOH A 39 639 50 HOH HOH . 
D 4 HOH A 40 640 51 HOH HOH . 
D 4 HOH A 41 641 55 HOH HOH . 
D 4 HOH A 42 642 57 HOH HOH . 
D 4 HOH A 43 643 58 HOH HOH . 
D 4 HOH A 44 644 59 HOH HOH . 
D 4 HOH A 45 645 60 HOH HOH . 
D 4 HOH A 46 646 424 HOH HOH . 
D 4 HOH A 47 647 4 HOH HOH . 
D 4 HOH A 48 648 6 HOH HOH . 
D 4 HOH A 49 649 8 HOH HOH . 
D 4 HOH A 50 650 11 HOH HOH . 
D 4 HOH A 51 651 13 HOH HOH . 
D 4 HOH A 52 652 18 HOH HOH . 
D 4 HOH A 53 653 20 HOH HOH . 
D 4 HOH A 54 654 21 HOH HOH . 
D 4 HOH A 55 655 22 HOH HOH . 
D 4 HOH A 56 656 23 HOH HOH . 
D 4 HOH A 57 657 26 HOH HOH . 
D 4 HOH A 58 658 29 HOH HOH . 
D 4 HOH A 59 659 30 HOH HOH . 
D 4 HOH A 60 660 31 HOH HOH . 
D 4 HOH A 61 661 33 HOH HOH . 
D 4 HOH A 62 662 34 HOH HOH . 
D 4 HOH A 63 663 39 HOH HOH . 
D 4 HOH A 64 664 40 HOH HOH . 
D 4 HOH A 65 665 42 HOH HOH . 
D 4 HOH A 66 666 43 HOH HOH . 
D 4 HOH A 67 667 44 HOH HOH . 
D 4 HOH A 68 668 45 HOH HOH . 
D 4 HOH A 69 669 47 HOH HOH . 
D 4 HOH A 70 670 48 HOH HOH . 
D 4 HOH A 71 671 49 HOH HOH . 
D 4 HOH A 72 672 50 HOH HOH . 
D 4 HOH A 73 673 51 HOH HOH . 
D 4 HOH A 74 674 52 HOH HOH . 
D 4 HOH A 75 675 53 HOH HOH . 
D 4 HOH A 76 676 54 HOH HOH . 
D 4 HOH A 77 677 55 HOH HOH . 
D 4 HOH A 78 678 57 HOH HOH . 
D 4 HOH A 79 679 58 HOH HOH . 
D 4 HOH A 80 680 59 HOH HOH . 
D 4 HOH A 81 681 60 HOH HOH . 
D 4 HOH A 82 682 61 HOH HOH . 
D 4 HOH A 83 683 62 HOH HOH . 
D 4 HOH A 84 684 63 HOH HOH . 
D 4 HOH A 85 685 65 HOH HOH . 
D 4 HOH A 86 686 66 HOH HOH . 
D 4 HOH A 87 687 68 HOH HOH . 
D 4 HOH A 88 688 69 HOH HOH . 
D 4 HOH A 89 689 71 HOH HOH . 
D 4 HOH A 90 690 72 HOH HOH . 
D 4 HOH A 91 691 73 HOH HOH . 
D 4 HOH A 92 692 74 HOH HOH . 
D 4 HOH A 93 693 76 HOH HOH . 
D 4 HOH A 94 694 78 HOH HOH . 
D 4 HOH A 95 695 79 HOH HOH . 
D 4 HOH A 96 696 80 HOH HOH . 
D 4 HOH A 97 697 81 HOH HOH . 
D 4 HOH A 98 698 82 HOH HOH . 
D 4 HOH A 99 699 83 HOH HOH . 
D 4 HOH A 100 700 85 HOH HOH . 
D 4 HOH A 101 701 86 HOH HOH . 
D 4 HOH A 102 702 87 HOH HOH . 
D 4 HOH A 103 703 88 HOH HOH . 
D 4 HOH A 104 704 89 HOH HOH . 
E 4 HOH C 1 701 38 HOH HOH . 
E 4 HOH C 2 702 27 HOH HOH . 
E 4 HOH C 3 703 17 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 CAB YSD . . . C 3 -9.642 22.53 -6.978 1 41.68 ? CAB YSD 501 A 1 
HETATM 2 C CAK YSD . . . C 3 -10.165 21.129 -7.502 1 39.59 ? CAK YSD 501 A 1 
HETATM 3 C CBD YSD . . . C 3 -11.506 20.81 -6.837 1 32.88 ? CBD YSD 501 A 1 
HETATM 4 C CAL YSD . . . C 3 -11.349 20.53 -5.335 1 35.43 ? CAL YSD 501 A 1 
HETATM 5 C CAC YSD . . . C 3 -10.279 19.485 -5.074 1 37.1 ? CAC YSD 501 A 1 
HETATM 6 O OAH YSD . . . C 3 -12.088 19.618 -7.405 1 31.9 ? OAH YSD 501 A 1 
HETATM 7 C CAS YSD . . . C 3 -12.391 22.05 -7.057 1 31.04 ? CAS YSD 501 A 1 
HETATM 8 C CAP YSD . . . C 3 -13.646 22.069 -6.188 1 30.12 ? CAP YSD 501 A 1 
HETATM 9 C CAY YSD . . . C 3 -14.729 22.854 -6.963 1 29.1 ? CAY YSD 501 A 1 
HETATM 10 C CAD YSD . . . C 3 -15.441 21.97 -7.993 1 30.37 ? CAD YSD 501 A 1 
HETATM 11 C CBC YSD . . . C 3 -15.793 23.615 -6.142 1 28.05 ? CBC YSD 501 A 1 
HETATM 12 C CAQ YSD . . . C 3 -16.342 22.842 -4.919 1 26.2 ? CAQ YSD 501 A 1 
HETATM 13 C CAO YSD . . . C 3 -16.951 23.915 -4.003 1 23.54 ? CAO YSD 501 A 1 
HETATM 14 C CBB YSD . . . C 3 -16.791 25.204 -4.77 1 27.55 ? CBB YSD 501 A 1 
HETATM 15 C CBE YSD . . . C 3 -15.459 25.022 -5.528 1 24.19 ? CBE YSD 501 A 1 
HETATM 16 C CAE YSD . . . C 3 -14.236 25.006 -4.588 1 26.21 ? CAE YSD 501 A 1 
HETATM 17 C CAR YSD . . . C 3 -15.354 26.189 -6.566 1 28.1 ? CAR YSD 501 A 1 
HETATM 18 C CAM YSD . . . C 3 -15.528 27.599 -5.911 1 25.32 ? CAM YSD 501 A 1 
HETATM 19 C CAN YSD . . . C 3 -16.72 27.726 -4.917 1 26.32 ? CAN YSD 501 A 1 
HETATM 20 C CAX YSD . . . C 3 -16.752 26.486 -3.978 1 26.57 ? CAX YSD 501 A 1 
HETATM 21 C CAJ YSD . . . C 3 -16.871 26.612 -2.558 1 25.3 ? CAJ YSD 501 A 1 
HETATM 22 C CAI YSD . . . C 3 -16.738 27.914 -1.953 1 25.06 ? CAI YSD 501 A 1 
HETATM 23 C CAW YSD . . . C 3 -16.551 28.034 -0.55 1 24.5 ? CAW YSD 501 A 1 
HETATM 24 C CAU YSD . . . C 3 -16.321 26.78 0.32 1 20.93 ? CAU YSD 501 A 1 
HETATM 25 C CAT YSD . . . C 3 -16.427 29.432 0.044 1 25.16 ? CAT YSD 501 A 1 
HETATM 26 C CAZ YSD . . . C 3 -17.052 29.585 1.42 1 24.25 ? CAZ YSD 501 A 1 
HETATM 27 O OAF YSD . . . C 3 -18.478 29.54 1.327 1 23.32 ? OAF YSD 501 A 1 
HETATM 28 C CAV YSD . . . C 3 -16.594 28.409 2.287 1 19.71 ? CAV YSD 501 A 1 
HETATM 29 C CAA YSD . . . C 3 -15.895 28.615 3.461 1 17.51 ? CAA YSD 501 A 1 
HETATM 30 C CBA YSD . . . C 3 -16.96 27.02 1.735 1 20.22 ? CBA YSD 501 A 1 
HETATM 31 O OAG YSD . . . C 3 -16.506 26.109 2.632 1 21.79 ? OAG YSD 501 A 1 
#
_model_server_stats.io_time_ms              5 
_model_server_stats.parse_time_ms           5 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           250 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           31 
#