data_3VT5 # _model_server_result.job_id 8rOPVOU7G6e0Pr2dsojSeg _model_server_result.datetime_utc '2024-10-11 13:31:33' _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 3vt5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":500}' # _entry.id 3VT5 # _exptl.entry_id 3VT5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 476.712 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (1R,2E,3R,5Z,7E)-17-{(1S)-1-[(2-ethyl-2-hydroxybutyl)sulfanyl]ethyl}-2-(2-hydroxyethylidene)-9,10-secoestra-5,7,16-triene-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 96.1 _cell.angle_gamma 90 _cell.entry_id 3VT5 _cell.length_a 153.174 _cell.length_b 42.565 _cell.length_c 42.184 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3VT5 _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 software_defined_assembly 1 ? monomeric 1 author_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 1 1 A,C,D 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 # _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 H44 O4 S' _chem_comp.formula_weight 476.712 _chem_comp.id YI2 _chem_comp.mon_nstd_flag . _chem_comp.name (1R,2E,3R,5Z,7E)-17-{(1S)-1-[(2-ethyl-2-hydroxybutyl)sulfanyl]ethyl}-2-(2-hydroxyethylidene)-9,10-secoestra-5,7,16-triene-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 O04 C31 YI2 sing 376 n n C31 C30 YI2 sing 377 n n C30 C02 YI2 doub 378 e n O01 C01 YI2 sing 379 n n C02 C01 YI2 sing 380 n n C02 C03 YI2 sing 381 n n C01 C10 YI2 sing 382 n n C03 O02 YI2 sing 383 n n C03 C04 YI2 sing 384 n n C10 C05 YI2 sing 385 n n C04 C05 YI2 sing 386 n n C05 C06 YI2 doub 387 z n C06 C07 YI2 sing 388 n n C07 C08 YI2 doub 389 e n C15 C14 YI2 sing 390 n n C15 C16 YI2 sing 391 n n C08 C14 YI2 sing 392 n n C08 C09 YI2 sing 393 n n C18 C13 YI2 sing 394 n n C14 C13 YI2 sing 395 n n C09 C11 YI2 sing 396 n n C16 C17 YI2 doub 397 n n C26 C28 YI2 sing 398 n n C26 C24 YI2 sing 399 n n C13 C17 YI2 sing 400 n n C13 C12 YI2 sing 401 n n C11 C12 YI2 sing 402 n n C17 C20 YI2 sing 403 n n C23 C24 YI2 sing 404 n n C23 S22 YI2 sing 405 n n C24 O03 YI2 sing 406 n n C24 C27 YI2 sing 407 n n C29 C27 YI2 sing 408 n n C20 S22 YI2 sing 409 n n C20 C21 YI2 sing 410 n n C12 H1 YI2 sing 411 n n C12 H2 YI2 sing 412 n n C14 H3 YI2 sing 413 n n C15 H4 YI2 sing 414 n n C15 H5 YI2 sing 415 n n C16 H6 YI2 sing 416 n n C21 H8 YI2 sing 417 n n C21 H9 YI2 sing 418 n n C21 H10 YI2 sing 419 n n C23 H11 YI2 sing 420 n n C23 H12 YI2 sing 421 n n C29 H13 YI2 sing 422 n n C29 H14 YI2 sing 423 n n C29 H15 YI2 sing 424 n n C27 H16 YI2 sing 425 n n C27 H17 YI2 sing 426 n n C26 H18 YI2 sing 427 n n C26 H19 YI2 sing 428 n n C28 H20 YI2 sing 429 n n C28 H21 YI2 sing 430 n n C28 H22 YI2 sing 431 n n O03 H23 YI2 sing 432 n n C20 H24 YI2 sing 433 n n C18 H26 YI2 sing 434 n n C18 H27 YI2 sing 435 n n C18 H28 YI2 sing 436 n n C11 H29 YI2 sing 437 n n C11 H30 YI2 sing 438 n n C09 H31 YI2 sing 439 n n C09 H32 YI2 sing 440 n n C07 H33 YI2 sing 441 n n C06 H34 YI2 sing 442 n n C10 H35 YI2 sing 443 n n C10 H36 YI2 sing 444 n n C01 H37 YI2 sing 445 n n O01 H38 YI2 sing 446 n n C04 H39 YI2 sing 447 n n C04 H40 YI2 sing 448 n n C03 H41 YI2 sing 449 n n O02 H42 YI2 sing 450 n n C30 H43 YI2 sing 451 n n C31 H44 YI2 sing 452 n n C31 H45 YI2 sing 453 n n O04 H46 YI2 sing 454 n n # _atom_sites.entry_id 3VT5 _atom_sites.fract_transf_matrix[1][1] 0.006529 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000698 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.023493 _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] 0.023841 _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 YI2 A 1 500 500 YI2 YI2 . D 4 HOH A 1 601 1 HOH HOH . D 4 HOH A 2 602 2 HOH HOH . D 4 HOH A 3 603 3 HOH HOH . D 4 HOH A 4 604 4 HOH HOH . D 4 HOH A 5 605 5 HOH HOH . D 4 HOH A 6 606 6 HOH HOH . D 4 HOH A 7 607 7 HOH HOH . D 4 HOH A 8 608 8 HOH HOH . D 4 HOH A 9 609 9 HOH HOH . D 4 HOH A 10 610 10 HOH HOH . D 4 HOH A 11 611 11 HOH HOH . D 4 HOH A 12 612 12 HOH HOH . D 4 HOH A 13 613 13 HOH HOH . D 4 HOH A 14 614 14 HOH HOH . D 4 HOH A 15 615 15 HOH HOH . D 4 HOH A 16 616 16 HOH HOH . D 4 HOH A 17 617 17 HOH HOH . D 4 HOH A 18 618 18 HOH HOH . D 4 HOH A 19 619 19 HOH HOH . D 4 HOH A 20 620 20 HOH HOH . D 4 HOH A 21 621 21 HOH HOH . D 4 HOH A 22 622 22 HOH HOH . D 4 HOH A 23 623 23 HOH HOH . D 4 HOH A 24 624 24 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 C12 YI2 . . . C 3 13.044 9.925 27.619 1 36 ? C12 YI2 500 A 1 HETATM 2 C C13 YI2 . . . C 3 13.117 8.798 26.533 1 36.76 ? C13 YI2 500 A 1 HETATM 3 C C14 YI2 . . . C 3 14.46 8.977 25.763 1 38.06 ? C14 YI2 500 A 1 HETATM 4 C C15 YI2 . . . C 3 14.573 7.67 24.982 1 42.39 ? C15 YI2 500 A 1 HETATM 5 C C16 YI2 . . . C 3 14.255 6.731 26.164 1 40.47 ? C16 YI2 500 A 1 HETATM 6 C C21 YI2 . . . C 3 13.364 5.338 28.618 1 36.79 ? C21 YI2 500 A 1 HETATM 7 C C23 YI2 . . . C 3 10.493 5.641 27.17 1 51.59 ? C23 YI2 500 A 1 HETATM 8 C C24 YI2 . . . C 3 9.435 4.584 27.543 1 50.24 ? C24 YI2 500 A 1 HETATM 9 C C29 YI2 . . . C 3 7.416 6.3 27.941 1 57.28 ? C29 YI2 500 A 1 HETATM 10 C C27 YI2 . . . C 3 8.316 5.163 28.476 1 51.55 ? C27 YI2 500 A 1 HETATM 11 C C26 YI2 . . . C 3 8.897 3.911 26.253 1 49.18 ? C26 YI2 500 A 1 HETATM 12 C C28 YI2 . . . C 3 7.972 2.691 26.434 1 52.33 ? C28 YI2 500 A 1 HETATM 13 O O03 YI2 . . . C 3 10.172 3.611 28.302 1 44.23 ? O03 YI2 500 A 1 HETATM 14 S S22 YI2 . . . C 3 11.008 6.872 28.448 1 46.17 ? S22 YI2 500 A 1 HETATM 15 C C20 YI2 . . . C 3 12.861 6.782 28.411 1 43.37 ? C20 YI2 500 A 1 HETATM 16 C C17 YI2 . . . C 3 13.425 7.371 27.051 1 39.63 ? C17 YI2 500 A 1 HETATM 17 C C18 YI2 . . . C 3 11.759 8.738 25.726 1 36.18 ? C18 YI2 500 A 1 HETATM 18 C C11 YI2 . . . C 3 13.085 11.368 26.988 1 42.01 ? C11 YI2 500 A 1 HETATM 19 C C09 YI2 . . . C 3 14.224 11.559 25.965 1 37.49 ? C09 YI2 500 A 1 HETATM 20 C C08 YI2 . . . C 3 14.37 10.351 24.988 1 43.97 ? C08 YI2 500 A 1 HETATM 21 C C07 YI2 . . . C 3 14.39 10.468 23.586 1 40.89 ? C07 YI2 500 A 1 HETATM 22 C C06 YI2 . . . C 3 14.293 11.613 22.784 1 41.32 ? C06 YI2 500 A 1 HETATM 23 C C05 YI2 . . . C 3 14.09 11.701 21.406 1 41.47 ? C05 YI2 500 A 1 HETATM 24 C C10 YI2 . . . C 3 13.94 10.435 20.497 1 35.52 ? C10 YI2 500 A 1 HETATM 25 C C01 YI2 . . . C 3 14.68 10.599 19.133 1 27.65 ? C01 YI2 500 A 1 HETATM 26 O O01 YI2 . . . C 3 14.249 9.539 18.284 1 38.18 ? O01 YI2 500 A 1 HETATM 27 C C04 YI2 . . . C 3 14.003 13.099 20.737 1 32.97 ? C04 YI2 500 A 1 HETATM 28 C C03 YI2 . . . C 3 14.776 13.227 19.404 1 35.58 ? C03 YI2 500 A 1 HETATM 29 O O02 YI2 . . . C 3 16.171 13.236 19.737 1 37.44 ? O02 YI2 500 A 1 HETATM 30 C C02 YI2 . . . C 3 14.392 12.024 18.515 1 37.01 ? C02 YI2 500 A 1 HETATM 31 C C30 YI2 . . . C 3 13.811 12.266 17.249 1 38.63 ? C30 YI2 500 A 1 HETATM 32 C C31 YI2 . . . C 3 13.348 11.44 16.219 1 47.63 ? C31 YI2 500 A 1 HETATM 33 O O04 YI2 . . . C 3 12.791 12.259 15.183 1 59.3 ? O04 YI2 500 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 33 #