data_3VT6 # _model_server_result.job_id nkMjp5IF9CsdzOxuHPwkHA _model_server_result.datetime_utc '2024-11-25 13:42:54' _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 3vt6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":500}' # _entry.id 3VT6 # _exptl.entry_id 3VT6 _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,2Z,3R,5E,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 95.55 _cell.angle_gamma 90 _cell.entry_id 3VT6 _cell.length_a 153.734 _cell.length_b 42.724 _cell.length_c 42.271 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3VT6 _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 5YI _chem_comp.mon_nstd_flag . _chem_comp.name (1R,2Z,3R,5E,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 5YI sing 1 n n C31 C30 5YI sing 2 n n C30 C02 5YI doub 3 z n O01 C01 5YI sing 4 n n C02 C01 5YI sing 5 n n C02 C03 5YI sing 6 n n C01 C10 5YI sing 7 n n C03 O02 5YI sing 8 n n C03 C04 5YI sing 9 n n C10 C05 5YI sing 10 n n C04 C05 5YI sing 11 n n C05 C06 5YI doub 12 z n C06 C07 5YI sing 13 n n C07 C08 5YI doub 14 e n C08 C14 5YI sing 15 n n C08 C09 5YI sing 16 n n C15 C14 5YI sing 17 n n C15 C16 5YI sing 18 n n C28 C26 5YI sing 19 n n C14 C13 5YI sing 20 n n C18 C13 5YI sing 21 n n C09 C11 5YI sing 22 n n C16 C17 5YI doub 23 n n C26 C24 5YI sing 24 n n C13 C17 5YI sing 25 n n C13 C12 5YI sing 26 n n C11 C12 5YI sing 27 n n C17 C20 5YI sing 28 n n C23 C24 5YI sing 29 n n C23 S22 5YI sing 30 n n C24 O03 5YI sing 31 n n C24 C27 5YI sing 32 n n C29 C27 5YI sing 33 n n C20 S22 5YI sing 34 n n C20 C21 5YI sing 35 n n C12 H1 5YI sing 36 n n C12 H2 5YI sing 37 n n C14 H3 5YI sing 38 n n C15 H4 5YI sing 39 n n C15 H5 5YI sing 40 n n C16 H6 5YI sing 41 n n C21 H8 5YI sing 42 n n C21 H9 5YI sing 43 n n C21 H10 5YI sing 44 n n C23 H11 5YI sing 45 n n C23 H12 5YI sing 46 n n C29 H13 5YI sing 47 n n C29 H14 5YI sing 48 n n C29 H15 5YI sing 49 n n C27 H16 5YI sing 50 n n C27 H17 5YI sing 51 n n C26 H18 5YI sing 52 n n C26 H19 5YI sing 53 n n C28 H20 5YI sing 54 n n C28 H21 5YI sing 55 n n C28 H22 5YI sing 56 n n O03 H23 5YI sing 57 n n C20 H24 5YI sing 58 n n C18 H26 5YI sing 59 n n C18 H27 5YI sing 60 n n C18 H28 5YI sing 61 n n C11 H29 5YI sing 62 n n C11 H30 5YI sing 63 n n C09 H31 5YI sing 64 n n C09 H32 5YI sing 65 n n C07 H33 5YI sing 66 n n C06 H34 5YI sing 67 n n C10 H35 5YI sing 68 n n C10 H36 5YI sing 69 n n C01 H37 5YI sing 70 n n O01 H38 5YI sing 71 n n C04 H39 5YI sing 72 n n C04 H40 5YI sing 73 n n C03 H41 5YI sing 74 n n O02 H42 5YI sing 75 n n C30 H43 5YI sing 76 n n C31 H44 5YI sing 77 n n C31 H45 5YI sing 78 n n O04 H46 5YI sing 79 n n # _atom_sites.entry_id 3VT6 _atom_sites.fract_transf_matrix[1][1] 0.006505 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000632 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.023406 _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] 0.023768 _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 5YI A 1 500 500 5YI YI5 . 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 . # 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 5YI . . . C 3 13.239 9.457 27.575 1 36.39 ? C12 5YI 500 A 1 HETATM 2 C C13 5YI . . . C 3 13.322 8.301 26.51 1 36.96 ? C13 5YI 500 A 1 HETATM 3 C C14 5YI . . . C 3 14.679 8.466 25.77 1 38.36 ? C14 5YI 500 A 1 HETATM 4 C C15 5YI . . . C 3 14.802 7.158 24.99 1 39.73 ? C15 5YI 500 A 1 HETATM 5 C C16 5YI . . . C 3 14.441 6.225 26.165 1 39.43 ? C16 5YI 500 A 1 HETATM 6 C C21 5YI . . . C 3 13.468 4.835 28.578 1 44.39 ? C21 5YI 500 A 1 HETATM 7 C C23 5YI . . . C 3 10.601 5.154 27.149 1 48.29 ? C23 5YI 500 A 1 HETATM 8 C C24 5YI . . . C 3 9.696 4.007 27.679 1 47.32 ? C24 5YI 500 A 1 HETATM 9 C C29 5YI . . . C 3 7.806 5.922 28.102 1 46.49 ? C29 5YI 500 A 1 HETATM 10 C C27 5YI . . . C 3 8.516 4.611 28.532 1 50.45 ? C27 5YI 500 A 1 HETATM 11 C C26 5YI . . . C 3 9.233 3.125 26.466 1 48.6 ? C26 5YI 500 A 1 HETATM 12 C C28 5YI . . . C 3 8.173 3.64 25.483 1 42.76 ? C28 5YI 500 A 1 HETATM 13 O O03 5YI . . . C 3 10.489 3.191 28.536 1 51 ? O03 5YI 500 A 1 HETATM 14 S S22 5YI . . . C 3 11.168 6.4 28.385 1 45.68 ? S22 5YI 500 A 1 HETATM 15 C C20 5YI . . . C 3 13.003 6.287 28.365 1 36.38 ? C20 5YI 500 A 1 HETATM 16 C C17 5YI . . . C 3 13.602 6.867 27.03 1 44.33 ? C17 5YI 500 A 1 HETATM 17 C C18 5YI . . . C 3 11.982 8.246 25.664 1 36.98 ? C18 5YI 500 A 1 HETATM 18 C C11 5YI . . . C 3 13.325 10.889 26.947 1 24.68 ? C11 5YI 500 A 1 HETATM 19 C C09 5YI . . . C 3 14.487 11.062 25.928 1 29.32 ? C09 5YI 500 A 1 HETATM 20 C C08 5YI . . . C 3 14.63 9.83 24.967 1 29.95 ? C08 5YI 500 A 1 HETATM 21 C C07 5YI . . . C 3 14.694 9.912 23.568 1 38.57 ? C07 5YI 500 A 1 HETATM 22 C C06 5YI . . . C 3 14.639 11.106 22.82 1 32.01 ? C06 5YI 500 A 1 HETATM 23 C C05 5YI . . . C 3 14.411 11.2 21.448 1 36.8 ? C05 5YI 500 A 1 HETATM 24 C C10 5YI . . . C 3 14.181 9.964 20.516 1 27.14 ? C10 5YI 500 A 1 HETATM 25 C C01 5YI . . . C 3 14.865 10.108 19.129 1 24.46 ? C01 5YI 500 A 1 HETATM 26 O O01 5YI . . . C 3 14.36 9.104 18.245 1 37.04 ? O01 5YI 500 A 1 HETATM 27 C C04 5YI . . . C 3 14.387 12.645 20.851 1 22.42 ? C04 5YI 500 A 1 HETATM 28 C C03 5YI . . . C 3 14.998 12.761 19.427 1 25.29 ? C03 5YI 500 A 1 HETATM 29 O O02 5YI . . . C 3 16.414 12.842 19.535 1 29.57 ? O02 5YI 500 A 1 HETATM 30 C C02 5YI . . . C 3 14.622 11.531 18.55 1 32.65 ? C02 5YI 500 A 1 HETATM 31 C C30 5YI . . . C 3 14.064 11.677 17.263 1 28.37 ? C30 5YI 500 A 1 HETATM 32 C C31 5YI . . . C 3 13.752 12.829 16.537 1 33.09 ? C31 5YI 500 A 1 HETATM 33 O O04 5YI . . . C 3 12.626 12.568 15.694 1 43.33 ? O04 5YI 500 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 290 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 33 #