data_5GIE # _model_server_result.job_id b-_G2JtYM-nCSvNr7RmQmQ _model_server_result.datetime_utc '2024-10-18 15:24:53' _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 5gie # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":501}' # _entry.id 5GIE # _exptl.entry_id 5GIE _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 575.821 _entity.id 3 _entity.src_method man _entity.type non-polymer _entity.pdbx_description (3R,5S)-5-[(2R)-2-[(1R,3aS,4E,7aR)-7a-methyl-4-[(2Z)-2-[(3S,5R)-2-methylidene-3,5-bis(oxidanyl)cyclohexylidene]ethylidene]-2,3,3a,5,6,7-hexahydro-1H-inden-1-yl]propyl]-3-methyl-3-oxidanyl-1-(4-phenylbutyl)pyrrolidin-2-one _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 94.55 _cell.angle_gamma 90 _cell.entry_id 5GIE _cell.length_a 65.364 _cell.length_b 42.077 _cell.length_c 96.802 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5GIE _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 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 dimeric 2 author_and_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,E,G,H 1 1 C,D,F,I,J 2 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 ? 3 E N N ? 3 F N N # _chem_comp.formula 'C37 H53 N O4' _chem_comp.formula_weight 575.821 _chem_comp.id VDP _chem_comp.mon_nstd_flag . _chem_comp.name (3R,5S)-5-[(2R)-2-[(1R,3aS,4E,7aR)-7a-methyl-4-[(2Z)-2-[(3S,5R)-2-methylidene-3,5-bis(oxidanyl)cyclohexylidene]ethylidene]-2,3,3a,5,6,7-hexahydro-1H-inden-1-yl]propyl]-3-methyl-3-oxidanyl-1-(4-phenylbutyl)pyrrolidin-2-one _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 C37 C36 VDP doub 376 n y C37 C32 VDP sing 377 n y C36 C35 VDP sing 378 n y C30 C31 VDP sing 379 n n C30 C29 VDP sing 380 n n C31 C32 VDP sing 381 n n C32 C33 VDP doub 382 n y C35 C34 VDP doub 383 n y C29 C28 VDP sing 384 n n C33 C34 VDP sing 385 n y C28 N28 VDP sing 386 n n N28 C25 VDP sing 387 n n N28 C23 VDP sing 388 n n O3 C25 VDP doub 389 n n C25 C26 VDP sing 390 n n C23 C22 VDP sing 391 n n C23 C27 VDP sing 392 n n C21 C20 VDP sing 393 n n C22 C20 VDP sing 394 n n C20 C16 VDP sing 395 n n C12 C13 VDP sing 396 n n C12 C11 VDP sing 397 n n C24 C26 VDP sing 398 n n C16 C11 VDP sing 399 n n C16 C17 VDP sing 400 n n C26 C27 VDP sing 401 n n C26 O4 VDP sing 402 n n C13 C14 VDP sing 403 n n C11 C9 VDP sing 404 n n C11 C18 VDP sing 405 n n C17 C15 VDP sing 406 n n C9 C15 VDP sing 407 n n C9 C8 VDP sing 408 n n C14 C8 VDP sing 409 n n C8 C7 VDP doub 410 e n C7 C6 VDP sing 411 n n C6 C5 VDP doub 412 z n C5 C4 VDP sing 413 n n C5 C10 VDP sing 414 n n C4 C3 VDP sing 415 n n C19 C10 VDP doub 416 n n C10 C1 VDP sing 417 n n C3 O2 VDP sing 418 n n C3 C2 VDP sing 419 n n C1 C2 VDP sing 420 n n C1 O1 VDP sing 421 n n O4 H1 VDP sing 422 n n C24 H2 VDP sing 423 n n C24 H3 VDP sing 424 n n C24 H4 VDP sing 425 n n C27 H5 VDP sing 426 n n C27 H6 VDP sing 427 n n C23 H7 VDP sing 428 n n C28 H8 VDP sing 429 n n C28 H9 VDP sing 430 n n C29 H10 VDP sing 431 n n C29 H11 VDP sing 432 n n C30 H12 VDP sing 433 n n C30 H13 VDP sing 434 n n C31 H14 VDP sing 435 n n C31 H15 VDP sing 436 n n C33 H16 VDP sing 437 n n C34 H17 VDP sing 438 n n C35 H18 VDP sing 439 n n C36 H19 VDP sing 440 n n C37 H20 VDP sing 441 n n C22 H21 VDP sing 442 n n C22 H22 VDP sing 443 n n C20 H23 VDP sing 444 n n C21 H24 VDP sing 445 n n C21 H25 VDP sing 446 n n C21 H26 VDP sing 447 n n C16 H27 VDP sing 448 n n C18 H28 VDP sing 449 n n C18 H29 VDP sing 450 n n C18 H30 VDP sing 451 n n C9 H31 VDP sing 452 n n C15 H32 VDP sing 453 n n C15 H33 VDP sing 454 n n C17 H34 VDP sing 455 n n C17 H35 VDP sing 456 n n C12 H36 VDP sing 457 n n C12 H37 VDP sing 458 n n C13 H38 VDP sing 459 n n C13 H39 VDP sing 460 n n C14 H40 VDP sing 461 n n C14 H41 VDP sing 462 n n C7 H42 VDP sing 463 n n C6 H43 VDP sing 464 n n C4 H44 VDP sing 465 n n C4 H45 VDP sing 466 n n C3 H46 VDP sing 467 n n O2 H47 VDP sing 468 n n C2 H48 VDP sing 469 n n C2 H49 VDP sing 470 n n C1 H50 VDP sing 471 n n O1 H51 VDP sing 472 n n C19 H52 VDP sing 473 n n C19 H53 VDP sing 474 n n # _atom_sites.entry_id 5GIE _atom_sites.fract_transf_matrix[1][1] 0.015299 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001217 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.023766 _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] 0.010363 _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 E 3 VDP A 1 501 501 VDP VDP . F 3 VDP D 1 501 501 VDP VDP . G 4 HOH A 1 601 7 HOH HOH . G 4 HOH A 2 602 84 HOH HOH . G 4 HOH A 3 603 27 HOH HOH . G 4 HOH A 4 604 81 HOH HOH . G 4 HOH A 5 605 3 HOH HOH . G 4 HOH A 6 606 72 HOH HOH . G 4 HOH A 7 607 9 HOH HOH . G 4 HOH A 8 608 37 HOH HOH . G 4 HOH A 9 609 8 HOH HOH . G 4 HOH A 10 610 17 HOH HOH . G 4 HOH A 11 611 91 HOH HOH . G 4 HOH A 12 612 43 HOH HOH . G 4 HOH A 13 613 4 HOH HOH . G 4 HOH A 14 614 79 HOH HOH . G 4 HOH A 15 615 80 HOH HOH . G 4 HOH A 16 616 110 HOH HOH . G 4 HOH A 17 617 58 HOH HOH . G 4 HOH A 18 618 63 HOH HOH . G 4 HOH A 19 619 47 HOH HOH . G 4 HOH A 20 620 69 HOH HOH . G 4 HOH A 21 621 104 HOH HOH . G 4 HOH A 22 622 117 HOH HOH . G 4 HOH A 23 623 75 HOH HOH . G 4 HOH A 24 624 52 HOH HOH . G 4 HOH A 25 625 64 HOH HOH . G 4 HOH A 26 626 33 HOH HOH . G 4 HOH A 27 627 112 HOH HOH . G 4 HOH A 28 628 18 HOH HOH . G 4 HOH A 29 629 50 HOH HOH . G 4 HOH A 30 630 57 HOH HOH . G 4 HOH A 31 631 54 HOH HOH . G 4 HOH A 32 632 56 HOH HOH . G 4 HOH A 33 633 21 HOH HOH . G 4 HOH A 34 634 38 HOH HOH . G 4 HOH A 35 635 99 HOH HOH . G 4 HOH A 36 636 6 HOH HOH . G 4 HOH A 37 637 23 HOH HOH . G 4 HOH A 38 638 25 HOH HOH . G 4 HOH A 39 639 11 HOH HOH . G 4 HOH A 40 640 102 HOH HOH . G 4 HOH A 41 641 114 HOH HOH . G 4 HOH A 42 642 31 HOH HOH . G 4 HOH A 43 643 101 HOH HOH . G 4 HOH A 44 644 5 HOH HOH . G 4 HOH A 45 645 93 HOH HOH . G 4 HOH A 46 646 111 HOH HOH . G 4 HOH A 47 647 68 HOH HOH . G 4 HOH A 48 648 42 HOH HOH . G 4 HOH A 49 649 90 HOH HOH . G 4 HOH A 50 650 74 HOH HOH . G 4 HOH A 51 651 30 HOH HOH . G 4 HOH A 52 652 103 HOH HOH . G 4 HOH A 53 653 71 HOH HOH . G 4 HOH A 54 654 41 HOH HOH . G 4 HOH A 55 655 34 HOH HOH . G 4 HOH A 56 656 55 HOH HOH . G 4 HOH A 57 657 83 HOH HOH . G 4 HOH A 58 658 116 HOH HOH . G 4 HOH A 59 659 66 HOH HOH . G 4 HOH A 60 660 109 HOH HOH . G 4 HOH A 61 661 39 HOH HOH . G 4 HOH A 62 662 67 HOH HOH . G 4 HOH A 63 663 53 HOH HOH . G 4 HOH A 64 664 76 HOH HOH . G 4 HOH A 65 665 73 HOH HOH . G 4 HOH A 66 666 98 HOH HOH . G 4 HOH A 67 667 45 HOH HOH . G 4 HOH A 68 668 77 HOH HOH . G 4 HOH A 69 669 22 HOH HOH . G 4 HOH A 70 670 49 HOH HOH . G 4 HOH A 71 671 86 HOH HOH . G 4 HOH A 72 672 88 HOH HOH . G 4 HOH A 73 673 60 HOH HOH . G 4 HOH A 74 674 107 HOH HOH . G 4 HOH A 75 675 95 HOH HOH . G 4 HOH A 76 676 40 HOH HOH . G 4 HOH A 77 677 106 HOH HOH . G 4 HOH A 78 678 113 HOH HOH . G 4 HOH A 79 679 97 HOH HOH . G 4 HOH A 80 680 115 HOH HOH . G 4 HOH A 81 681 28 HOH HOH . G 4 HOH A 82 682 105 HOH HOH . H 4 HOH C 1 701 94 HOH HOH . H 4 HOH C 2 702 24 HOH HOH . I 4 HOH D 1 601 92 HOH HOH . I 4 HOH D 2 602 118 HOH HOH . I 4 HOH D 3 603 96 HOH HOH . I 4 HOH D 4 604 19 HOH HOH . I 4 HOH D 5 605 16 HOH HOH . I 4 HOH D 6 606 87 HOH HOH . I 4 HOH D 7 607 14 HOH HOH . I 4 HOH D 8 608 2 HOH HOH . I 4 HOH D 9 609 10 HOH HOH . I 4 HOH D 10 610 59 HOH HOH . I 4 HOH D 11 611 29 HOH HOH . I 4 HOH D 12 612 1 HOH HOH . I 4 HOH D 13 613 36 HOH HOH . I 4 HOH D 14 614 51 HOH HOH . I 4 HOH D 15 615 12 HOH HOH . I 4 HOH D 16 616 26 HOH HOH . I 4 HOH D 17 617 20 HOH HOH . I 4 HOH D 18 618 78 HOH HOH . I 4 HOH D 19 619 13 HOH HOH . I 4 HOH D 20 620 100 HOH HOH . I 4 HOH D 21 621 15 HOH HOH . I 4 HOH D 22 622 85 HOH HOH . I 4 HOH D 23 623 32 HOH HOH . I 4 HOH D 24 624 108 HOH HOH . I 4 HOH D 25 625 44 HOH HOH . I 4 HOH D 26 626 61 HOH HOH . I 4 HOH D 27 627 35 HOH HOH . I 4 HOH D 28 628 46 HOH HOH . I 4 HOH D 29 629 82 HOH HOH . I 4 HOH D 30 630 62 HOH HOH . I 4 HOH D 31 631 119 HOH HOH . I 4 HOH D 32 632 48 HOH HOH . I 4 HOH D 33 633 89 HOH HOH . I 4 HOH D 34 634 70 HOH HOH . J 4 HOH E 1 701 65 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 VDP . . . E 3 -16.523 3.634 23.544 1 62.29 ? O3 VDP 501 A 1 HETATM 2 C C25 VDP . . . E 3 -16.393 2.529 23.023 1 62.93 ? C25 VDP 501 A 1 HETATM 3 C C26 VDP . . . E 3 -15.127 2.074 22.344 1 61.81 ? C26 VDP 501 A 1 HETATM 4 O O4 VDP . . . E 3 -14.795 2.967 21.27 1 61.37 ? O4 VDP 501 A 1 HETATM 5 C C24 VDP . . . E 3 -13.988 1.959 23.356 1 61.95 ? C24 VDP 501 A 1 HETATM 6 C C27 VDP . . . E 3 -15.47 0.693 21.801 1 60.09 ? C27 VDP 501 A 1 HETATM 7 C C23 VDP . . . E 3 -16.874 0.334 22.3 1 58.15 ? C23 VDP 501 A 1 HETATM 8 N N28 VDP . . . E 3 -17.317 1.573 22.938 1 62.89 ? N28 VDP 501 A 1 HETATM 9 C C28 VDP . . . E 3 -18.707 1.576 23.385 1 65.81 ? C28 VDP 501 A 1 HETATM 10 C C29 VDP . . . E 3 -18.633 1.753 24.898 1 68.63 ? C29 VDP 501 A 1 HETATM 11 C C30 VDP . . . E 3 -18.476 0.384 25.541 1 72.28 ? C30 VDP 501 A 1 HETATM 12 C C31 VDP . . . E 3 -17.716 0.392 26.864 1 75.22 ? C31 VDP 501 A 1 HETATM 13 C C32 VDP . . . E 3 -17.401 -1.061 27.14 1 77.83 ? C32 VDP 501 A 1 HETATM 14 C C33 VDP . . . E 3 -16.492 -1.727 26.319 1 78.61 ? C33 VDP 501 A 1 HETATM 15 C C34 VDP . . . E 3 -16.198 -3.068 26.545 1 79.43 ? C34 VDP 501 A 1 HETATM 16 C C35 VDP . . . E 3 -16.82 -3.75 27.587 1 80.16 ? C35 VDP 501 A 1 HETATM 17 C C36 VDP . . . E 3 -17.736 -3.088 28.403 1 80 ? C36 VDP 501 A 1 HETATM 18 C C37 VDP . . . E 3 -18.031 -1.746 28.177 1 79 ? C37 VDP 501 A 1 HETATM 19 C C22 VDP . . . E 3 -17.782 -0.013 21.118 1 51.49 ? C22 VDP 501 A 1 HETATM 20 C C20 VDP . . . E 3 -17.433 -1.439 20.691 1 47.04 ? C20 VDP 501 A 1 HETATM 21 C C21 VDP . . . E 3 -17.352 -2.297 21.96 1 47.36 ? C21 VDP 501 A 1 HETATM 22 C C16 VDP . . . E 3 -18.356 -2.004 19.59 1 41.89 ? C16 VDP 501 A 1 HETATM 23 C C11 VDP . . . E 3 -17.898 -3.316 18.948 1 37.83 ? C11 VDP 501 A 1 HETATM 24 C C18 VDP . . . E 3 -16.398 -3.196 18.672 1 37.43 ? C18 VDP 501 A 1 HETATM 25 C C9 VDP . . . E 3 -18.68 -3.348 17.648 1 35.98 ? C9 VDP 501 A 1 HETATM 26 C C15 VDP . . . E 3 -18.522 -1.935 17.124 1 38.1 ? C15 VDP 501 A 1 HETATM 27 C C17 VDP . . . E 3 -18.456 -1.064 18.389 1 39.95 ? C17 VDP 501 A 1 HETATM 28 C C12 VDP . . . E 3 -18.19 -4.61 19.699 1 36.02 ? C12 VDP 501 A 1 HETATM 29 C C13 VDP . . . E 3 -17.802 -5.832 18.862 1 35.65 ? C13 VDP 501 A 1 HETATM 30 C C14 VDP . . . E 3 -18.414 -5.844 17.46 1 34.77 ? C14 VDP 501 A 1 HETATM 31 C C8 VDP . . . E 3 -18.138 -4.499 16.858 1 33.81 ? C8 VDP 501 A 1 HETATM 32 C C7 VDP . . . E 3 -17.426 -4.412 15.729 1 32.27 ? C7 VDP 501 A 1 HETATM 33 C C6 VDP . . . E 3 -16.934 -5.649 15.11 1 30.91 ? C6 VDP 501 A 1 HETATM 34 C C5 VDP . . . E 3 -15.98 -5.736 14.153 1 28.99 ? C5 VDP 501 A 1 HETATM 35 C C4 VDP . . . E 3 -15.617 -7.127 13.678 1 28.61 ? C4 VDP 501 A 1 HETATM 36 C C3 VDP . . . E 3 -15.18 -7.168 12.209 1 29.77 ? C3 VDP 501 A 1 HETATM 37 O O2 VDP . . . E 3 -16.323 -7.063 11.316 1 29.63 ? O2 VDP 501 A 1 HETATM 38 C C2 VDP . . . E 3 -14.156 -6.062 11.938 1 29.24 ? C2 VDP 501 A 1 HETATM 39 C C1 VDP . . . E 3 -14.866 -4.725 12.105 1 29.32 ? C1 VDP 501 A 1 HETATM 40 O O1 VDP . . . E 3 -14.035 -3.649 11.659 1 29.6 ? O1 VDP 501 A 1 HETATM 41 C C10 VDP . . . E 3 -15.256 -4.597 13.552 1 28.75 ? C10 VDP 501 A 1 HETATM 42 C C19 VDP . . . E 3 -14.892 -3.51 14.213 1 27.77 ? C19 VDP 501 A 1 # _model_server_stats.io_time_ms 0 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 298 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 42 #