data_8YWY # _model_server_result.job_id rCZLhgJxh7GUmCGmv52qLg _model_server_result.datetime_utc '2025-07-16 05:08:46' _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 8ywy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 8YWY # _exptl.entry_id 8YWY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 452.546 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description ~{N}-[(2~{S})-3-cyclohexyl-1-oxidanylidene-1-[[(2~{S})-1-oxidanylidene-3-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]propan-2-yl]amino]propan-2-yl]-1~{H}-indole-2-carboxamide _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 101.346 _cell.angle_gamma 90 _cell.entry_id 8YWY _cell.length_a 113.42 _cell.length_b 54.54 _cell.length_c 45.5 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8YWY _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall 'C 2y' _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C25 H32 N4 O4' _chem_comp.formula_weight 452.546 _chem_comp.id FHR _chem_comp.mon_nstd_flag . _chem_comp.name ~{N}-[(2~{S})-3-cyclohexyl-1-oxidanylidene-1-[[(2~{S})-1-oxidanylidene-3-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]propan-2-yl]amino]propan-2-yl]-1~{H}-indole-2-carboxamide _chem_comp.type peptide-like _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 C10 C05 FHR doub 83 n y C10 C09 FHR sing 84 n y C10 N11 FHR sing 85 n y N12 C13 FHR sing 86 n n N12 C02 FHR sing 87 n n C13 C21 FHR sing 88 n n C13 C14 FHR sing 89 n n C15 C20 FHR sing 90 n n C15 C14 FHR sing 91 n n C15 C16 FHR sing 92 n n C17 C16 FHR sing 93 n n C17 C18 FHR sing 94 n n C20 C19 FHR sing 95 n n C21 N22 FHR sing 96 n n C21 O33 FHR doub 97 n n C24 C23 FHR sing 98 n n C24 C25 FHR sing 99 n n C26 C25 FHR sing 100 n n C02 C03 FHR sing 101 n n C02 O01 FHR doub 102 n n C03 C04 FHR doub 103 n y C03 N11 FHR sing 104 n y C04 C05 FHR sing 105 n y C05 C06 FHR sing 106 n y C06 C07 FHR doub 107 n y C07 C08 FHR sing 108 n y C08 C09 FHR doub 109 n y C18 C19 FHR sing 110 n n C23 C31 FHR sing 111 n n C23 N22 FHR sing 112 n n C25 C29 FHR sing 113 n n C27 N28 FHR sing 114 n n C29 N28 FHR sing 115 n n C29 O30 FHR doub 116 n n C31 O32 FHR doub 117 n n N12 H1 FHR sing 118 n n C13 H2 FHR sing 119 n n C15 H3 FHR sing 120 n n C17 H4 FHR sing 121 n n C17 H5 FHR sing 122 n n C20 H6 FHR sing 123 n n C20 H7 FHR sing 124 n n C24 H8 FHR sing 125 n n C24 H9 FHR sing 126 n n C26 H10 FHR sing 127 n n C26 H11 FHR sing 128 n n C04 H13 FHR sing 129 n n C06 H14 FHR sing 130 n n C07 H15 FHR sing 131 n n C08 H16 FHR sing 132 n n C09 H17 FHR sing 133 n n C14 H18 FHR sing 134 n n C14 H19 FHR sing 135 n n C16 H20 FHR sing 136 n n C16 H21 FHR sing 137 n n C18 H22 FHR sing 138 n n C18 H23 FHR sing 139 n n C19 H24 FHR sing 140 n n C19 H25 FHR sing 141 n n C23 H26 FHR sing 142 n n C25 H27 FHR sing 143 n n C27 H28 FHR sing 144 n n C27 H29 FHR sing 145 n n C31 H31 FHR sing 146 n n N11 H32 FHR sing 147 n n N22 H33 FHR sing 148 n n N28 H34 FHR sing 149 n n C26 C27 FHR sing 150 n n # _atom_sites.entry_id 8YWY _atom_sites.fract_transf_matrix[1][1] 0.008817 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001769 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018335 _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] 0.022416 _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 B 2 FHR A 1 401 401 FHR LIG . C 3 HOH A 1 501 62 HOH HOH . C 3 HOH A 2 502 96 HOH HOH . C 3 HOH A 3 503 77 HOH HOH . C 3 HOH A 4 504 33 HOH HOH . C 3 HOH A 5 505 35 HOH HOH . C 3 HOH A 6 506 84 HOH HOH . C 3 HOH A 7 507 46 HOH HOH . C 3 HOH A 8 508 15 HOH HOH . C 3 HOH A 9 509 23 HOH HOH . C 3 HOH A 10 510 59 HOH HOH . C 3 HOH A 11 511 50 HOH HOH . C 3 HOH A 12 512 58 HOH HOH . C 3 HOH A 13 513 112 HOH HOH . C 3 HOH A 14 514 14 HOH HOH . C 3 HOH A 15 515 36 HOH HOH . C 3 HOH A 16 516 41 HOH HOH . C 3 HOH A 17 517 16 HOH HOH . C 3 HOH A 18 518 98 HOH HOH . C 3 HOH A 19 519 27 HOH HOH . C 3 HOH A 20 520 97 HOH HOH . C 3 HOH A 21 521 57 HOH HOH . C 3 HOH A 22 522 7 HOH HOH . C 3 HOH A 23 523 40 HOH HOH . C 3 HOH A 24 524 19 HOH HOH . C 3 HOH A 25 525 48 HOH HOH . C 3 HOH A 26 526 24 HOH HOH . C 3 HOH A 27 527 17 HOH HOH . C 3 HOH A 28 528 83 HOH HOH . C 3 HOH A 29 529 3 HOH HOH . C 3 HOH A 30 530 110 HOH HOH . C 3 HOH A 31 531 53 HOH HOH . C 3 HOH A 32 532 60 HOH HOH . C 3 HOH A 33 533 79 HOH HOH . C 3 HOH A 34 534 6 HOH HOH . C 3 HOH A 35 535 12 HOH HOH . C 3 HOH A 36 536 13 HOH HOH . C 3 HOH A 37 537 32 HOH HOH . C 3 HOH A 38 538 29 HOH HOH . C 3 HOH A 39 539 63 HOH HOH . C 3 HOH A 40 540 28 HOH HOH . C 3 HOH A 41 541 5 HOH HOH . C 3 HOH A 42 542 52 HOH HOH . C 3 HOH A 43 543 55 HOH HOH . C 3 HOH A 44 544 18 HOH HOH . C 3 HOH A 45 545 92 HOH HOH . C 3 HOH A 46 546 8 HOH HOH . C 3 HOH A 47 547 44 HOH HOH . C 3 HOH A 48 548 22 HOH HOH . C 3 HOH A 49 549 65 HOH HOH . C 3 HOH A 50 550 37 HOH HOH . C 3 HOH A 51 551 25 HOH HOH . C 3 HOH A 52 552 56 HOH HOH . C 3 HOH A 53 553 78 HOH HOH . C 3 HOH A 54 554 26 HOH HOH . C 3 HOH A 55 555 69 HOH HOH . C 3 HOH A 56 556 38 HOH HOH . C 3 HOH A 57 557 31 HOH HOH . C 3 HOH A 58 558 21 HOH HOH . C 3 HOH A 59 559 71 HOH HOH . C 3 HOH A 60 560 42 HOH HOH . C 3 HOH A 61 561 45 HOH HOH . C 3 HOH A 62 562 49 HOH HOH . C 3 HOH A 63 563 82 HOH HOH . C 3 HOH A 64 564 30 HOH HOH . C 3 HOH A 65 565 39 HOH HOH . C 3 HOH A 66 566 34 HOH HOH . C 3 HOH A 67 567 64 HOH HOH . C 3 HOH A 68 568 88 HOH HOH . C 3 HOH A 69 569 108 HOH HOH . C 3 HOH A 70 570 89 HOH HOH . C 3 HOH A 71 571 105 HOH HOH . C 3 HOH A 72 572 109 HOH HOH . C 3 HOH A 73 573 72 HOH HOH . C 3 HOH A 74 574 102 HOH HOH . C 3 HOH A 75 575 86 HOH HOH . C 3 HOH A 76 576 74 HOH HOH . C 3 HOH A 77 577 91 HOH HOH . C 3 HOH A 78 578 73 HOH HOH . C 3 HOH A 79 579 94 HOH HOH . C 3 HOH A 80 580 67 HOH HOH . C 3 HOH A 81 581 104 HOH HOH . C 3 HOH A 82 582 20 HOH HOH . C 3 HOH A 83 583 61 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 C02 FHR . . . B 2 10.535 1.547 22.164 1 25.18 ? C02 FHR 401 A 1 HETATM 2 C C07 FHR . . . B 2 12.214 6.98 24.849 1 32.1 ? C07 FHR 401 A 1 HETATM 3 C C08 FHR . . . B 2 11.539 7.56 23.676 1 30.8 ? C08 FHR 401 A 1 HETATM 4 C C09 FHR . . . B 2 10.915 6.657 22.658 1 28.6 ? C09 FHR 401 A 1 HETATM 5 C C10 FHR . . . B 2 10.991 5.112 22.861 1 27.63 ? C10 FHR 401 A 1 HETATM 6 C C05 FHR . . . B 2 11.621 4.56 23.964 1 29.99 ? C05 FHR 401 A 1 HETATM 7 C C06 FHR . . . B 2 12.278 5.496 25.046 1 29.84 ? C06 FHR 401 A 1 HETATM 8 C C04 FHR . . . B 2 11.533 3.193 23.873 1 25.41 ? C04 FHR 401 A 1 HETATM 9 C C03 FHR . . . B 2 10.817 2.936 22.721 1 26.38 ? C03 FHR 401 A 1 HETATM 10 N N11 FHR . . . B 2 10.502 4.099 22.084 1 27.64 ? N11 FHR 401 A 1 HETATM 11 O O01 FHR . . . B 2 10.296 1.452 21.012 1 27.04 ? O01 FHR 401 A 1 HETATM 12 N N12 FHR . . . B 2 10.681 0.372 23.016 1 23.61 ? N12 FHR 401 A 1 HETATM 13 C C13 FHR . . . B 2 10.493 -0.933 22.387 1 25.53 ? C13 FHR 401 A 1 HETATM 14 C C21 FHR . . . B 2 9.07 -1.148 21.897 1 28.81 ? C21 FHR 401 A 1 HETATM 15 O O33 FHR . . . B 2 8.142 -0.814 22.548 1 27.05 ? O33 FHR 401 A 1 HETATM 16 C C14 FHR . . . B 2 10.76 -2.026 23.386 1 25.16 ? C14 FHR 401 A 1 HETATM 17 C C15 FHR . . . B 2 12.249 -2.242 23.773 1 29.65 ? C15 FHR 401 A 1 HETATM 18 C C20 FHR . . . B 2 13.22 -1.177 23.285 1 28.46 ? C20 FHR 401 A 1 HETATM 19 C C19 FHR . . . B 2 14.676 -1.425 23.73 1 32.52 ? C19 FHR 401 A 1 HETATM 20 C C18 FHR . . . B 2 14.875 -2.1 25.101 1 30.34 ? C18 FHR 401 A 1 HETATM 21 C C17 FHR . . . B 2 13.669 -2.772 25.781 1 35.3 ? C17 FHR 401 A 1 HETATM 22 C C16 FHR . . . B 2 12.292 -2.299 25.293 1 33.04 ? C16 FHR 401 A 1 HETATM 23 O O30 FHR . . . B 2 6.999 1.242 17.071 1 29.86 ? O30 FHR 401 A 1 HETATM 24 C C29 FHR . . . B 2 6.507 1.18 18.153 1 27.34 ? C29 FHR 401 A 1 HETATM 25 N N28 FHR . . . B 2 5.222 1.978 18.657 1 30.23 ? N28 FHR 401 A 1 HETATM 26 C C27 FHR . . . B 2 5.003 1.646 19.903 1 29.84 ? C27 FHR 401 A 1 HETATM 27 C C26 FHR . . . B 2 6.135 0.461 20.359 1 30.01 ? C26 FHR 401 A 1 HETATM 28 C C25 FHR . . . B 2 6.997 0.297 19.389 1 27.75 ? C25 FHR 401 A 1 HETATM 29 C C24 FHR . . . B 2 7.088 -1.26 19.001 1 24.95 ? C24 FHR 401 A 1 HETATM 30 C C23 FHR . . . B 2 7.411 -1.922 20.348 1 27.2 ? C23 FHR 401 A 1 HETATM 31 N N22 FHR . . . B 2 8.85 -1.797 20.614 1 22.4 ? N22 FHR 401 A 1 HETATM 32 C C31 FHR . . . B 2 6.957 -3.366 20.519 1 35.03 ? C31 FHR 401 A 1 HETATM 33 O O32 FHR . . . B 2 6.565 -4.058 19.633 1 32.19 ? O32 FHR 401 A 1 # _model_server_stats.io_time_ms 78 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 278 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 33 #