data_8Y4E # _model_server_result.job_id tRUt_jn5fH7dfhWq-Kl47A _model_server_result.datetime_utc '2025-01-25 14:27:13' _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 8y4e # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":301}' # _entry.id 8Y4E # _exptl.entry_id 8Y4E _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 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 91.952 _cell.angle_beta 102.776 _cell.angle_gamma 108.403 _cell.entry_id 8Y4E _cell.length_a 55.008 _cell.length_b 59.787 _cell.length_c 67.836 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8Y4E _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall 'P 1' _symmetry.space_group_name_H-M 'P 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,F _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 D N N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order covale ? covale1 A SG CYS 144 A CYS 145 1_555 C C31 FHR . A FHR 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.77 ? covale ? covale2 B SG CYS 144 B CYS 145 1_555 D C31 FHR . B FHR 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.768 ? # _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 8Y4E _atom_sites.fract_transf_matrix[1][1] 0.018179 _atom_sites.fract_transf_matrix[1][2] 0.006048 _atom_sites.fract_transf_matrix[1][3] 0.004832 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.017628 _atom_sites.fract_transf_matrix[2][3] 0.001991 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.015212 _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 2 FHR A 1 301 301 FHR LIG . D 2 FHR B 1 301 301 FHR LIG . E 3 HOH A 1 401 104 HOH HOH . E 3 HOH A 2 402 143 HOH HOH . E 3 HOH A 3 403 128 HOH HOH . E 3 HOH A 4 404 126 HOH HOH . E 3 HOH A 5 405 97 HOH HOH . E 3 HOH A 6 406 154 HOH HOH . E 3 HOH A 7 407 29 HOH HOH . E 3 HOH A 8 408 120 HOH HOH . E 3 HOH A 9 409 156 HOH HOH . E 3 HOH A 10 410 159 HOH HOH . E 3 HOH A 11 411 31 HOH HOH . E 3 HOH A 12 412 119 HOH HOH . E 3 HOH A 13 413 33 HOH HOH . E 3 HOH A 14 414 56 HOH HOH . E 3 HOH A 15 415 89 HOH HOH . E 3 HOH A 16 416 138 HOH HOH . E 3 HOH A 17 417 69 HOH HOH . E 3 HOH A 18 418 72 HOH HOH . E 3 HOH A 19 419 21 HOH HOH . E 3 HOH A 20 420 18 HOH HOH . E 3 HOH A 21 421 136 HOH HOH . E 3 HOH A 22 422 108 HOH HOH . E 3 HOH A 23 423 96 HOH HOH . E 3 HOH A 24 424 2 HOH HOH . E 3 HOH A 25 425 63 HOH HOH . E 3 HOH A 26 426 137 HOH HOH . E 3 HOH A 27 427 41 HOH HOH . E 3 HOH A 28 428 9 HOH HOH . E 3 HOH A 29 429 78 HOH HOH . E 3 HOH A 30 430 16 HOH HOH . E 3 HOH A 31 431 23 HOH HOH . E 3 HOH A 32 432 61 HOH HOH . E 3 HOH A 33 433 66 HOH HOH . E 3 HOH A 34 434 106 HOH HOH . E 3 HOH A 35 435 160 HOH HOH . E 3 HOH A 36 436 133 HOH HOH . E 3 HOH A 37 437 27 HOH HOH . E 3 HOH A 38 438 44 HOH HOH . E 3 HOH A 39 439 28 HOH HOH . E 3 HOH A 40 440 98 HOH HOH . E 3 HOH A 41 441 76 HOH HOH . E 3 HOH A 42 442 5 HOH HOH . E 3 HOH A 43 443 152 HOH HOH . E 3 HOH A 44 444 162 HOH HOH . E 3 HOH A 45 445 151 HOH HOH . E 3 HOH A 46 446 4 HOH HOH . E 3 HOH A 47 447 32 HOH HOH . E 3 HOH A 48 448 134 HOH HOH . E 3 HOH A 49 449 8 HOH HOH . E 3 HOH A 50 450 158 HOH HOH . E 3 HOH A 51 451 45 HOH HOH . E 3 HOH A 52 452 141 HOH HOH . E 3 HOH A 53 453 12 HOH HOH . E 3 HOH A 54 454 101 HOH HOH . E 3 HOH A 55 455 35 HOH HOH . E 3 HOH A 56 456 113 HOH HOH . E 3 HOH A 57 457 150 HOH HOH . E 3 HOH A 58 458 50 HOH HOH . E 3 HOH A 59 459 55 HOH HOH . E 3 HOH A 60 460 88 HOH HOH . E 3 HOH A 61 461 6 HOH HOH . E 3 HOH A 62 462 14 HOH HOH . E 3 HOH A 63 463 47 HOH HOH . E 3 HOH A 64 464 15 HOH HOH . E 3 HOH A 65 465 40 HOH HOH . E 3 HOH A 66 466 83 HOH HOH . E 3 HOH A 67 467 145 HOH HOH . E 3 HOH A 68 468 65 HOH HOH . E 3 HOH A 69 469 39 HOH HOH . E 3 HOH A 70 470 107 HOH HOH . E 3 HOH A 71 471 93 HOH HOH . E 3 HOH A 72 472 100 HOH HOH . E 3 HOH A 73 473 81 HOH HOH . E 3 HOH A 74 474 67 HOH HOH . E 3 HOH A 75 475 127 HOH HOH . E 3 HOH A 76 476 62 HOH HOH . E 3 HOH A 77 477 124 HOH HOH . E 3 HOH A 78 478 112 HOH HOH . E 3 HOH A 79 479 75 HOH HOH . E 3 HOH A 80 480 17 HOH HOH . E 3 HOH A 81 481 123 HOH HOH . E 3 HOH A 82 482 149 HOH HOH . E 3 HOH A 83 483 132 HOH HOH . E 3 HOH A 84 484 115 HOH HOH . E 3 HOH A 85 485 95 HOH HOH . E 3 HOH A 86 486 71 HOH HOH . F 3 HOH B 1 401 3 HOH HOH . F 3 HOH B 2 402 122 HOH HOH . F 3 HOH B 3 403 117 HOH HOH . F 3 HOH B 4 404 10 HOH HOH . F 3 HOH B 5 405 38 HOH HOH . F 3 HOH B 6 406 105 HOH HOH . F 3 HOH B 7 407 157 HOH HOH . F 3 HOH B 8 408 59 HOH HOH . F 3 HOH B 9 409 20 HOH HOH . F 3 HOH B 10 410 57 HOH HOH . F 3 HOH B 11 411 99 HOH HOH . F 3 HOH B 12 412 144 HOH HOH . F 3 HOH B 13 413 85 HOH HOH . F 3 HOH B 14 414 146 HOH HOH . F 3 HOH B 15 415 73 HOH HOH . F 3 HOH B 16 416 155 HOH HOH . F 3 HOH B 17 417 1 HOH HOH . F 3 HOH B 18 418 92 HOH HOH . F 3 HOH B 19 419 43 HOH HOH . F 3 HOH B 20 420 82 HOH HOH . F 3 HOH B 21 421 111 HOH HOH . F 3 HOH B 22 422 103 HOH HOH . F 3 HOH B 23 423 34 HOH HOH . F 3 HOH B 24 424 22 HOH HOH . F 3 HOH B 25 425 7 HOH HOH . F 3 HOH B 26 426 70 HOH HOH . F 3 HOH B 27 427 91 HOH HOH . F 3 HOH B 28 428 13 HOH HOH . F 3 HOH B 29 429 110 HOH HOH . F 3 HOH B 30 430 153 HOH HOH . F 3 HOH B 31 431 36 HOH HOH . F 3 HOH B 32 432 37 HOH HOH . F 3 HOH B 33 433 90 HOH HOH . F 3 HOH B 34 434 53 HOH HOH . F 3 HOH B 35 435 74 HOH HOH . F 3 HOH B 36 436 25 HOH HOH . F 3 HOH B 37 437 68 HOH HOH . F 3 HOH B 38 438 94 HOH HOH . F 3 HOH B 39 439 116 HOH HOH . F 3 HOH B 40 440 42 HOH HOH . F 3 HOH B 41 441 51 HOH HOH . F 3 HOH B 42 442 142 HOH HOH . F 3 HOH B 43 443 24 HOH HOH . F 3 HOH B 44 444 46 HOH HOH . F 3 HOH B 45 445 30 HOH HOH . F 3 HOH B 46 446 148 HOH HOH . F 3 HOH B 47 447 19 HOH HOH . F 3 HOH B 48 448 58 HOH HOH . F 3 HOH B 49 449 118 HOH HOH . F 3 HOH B 50 450 52 HOH HOH . F 3 HOH B 51 451 87 HOH HOH . F 3 HOH B 52 452 147 HOH HOH . F 3 HOH B 53 453 161 HOH HOH . F 3 HOH B 54 454 129 HOH HOH . F 3 HOH B 55 455 49 HOH HOH . F 3 HOH B 56 456 80 HOH HOH . F 3 HOH B 57 457 54 HOH HOH . F 3 HOH B 58 458 130 HOH HOH . F 3 HOH B 59 459 121 HOH HOH . F 3 HOH B 60 460 11 HOH HOH . F 3 HOH B 61 461 64 HOH HOH . F 3 HOH B 62 462 84 HOH HOH . F 3 HOH B 63 463 26 HOH HOH . F 3 HOH B 64 464 60 HOH HOH . F 3 HOH B 65 465 114 HOH HOH . F 3 HOH B 66 466 79 HOH HOH . F 3 HOH B 67 467 86 HOH HOH . F 3 HOH B 68 468 109 HOH HOH . F 3 HOH B 69 469 125 HOH HOH . F 3 HOH B 70 470 77 HOH HOH . F 3 HOH B 71 471 102 HOH HOH . F 3 HOH B 72 472 139 HOH HOH . F 3 HOH B 73 473 135 HOH HOH . F 3 HOH B 74 474 140 HOH HOH . F 3 HOH B 75 475 131 HOH HOH . F 3 HOH B 76 476 48 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 . . . C 2 64.4 -35.107 -2.229 1 39.04 ? C02 FHR 301 A 1 HETATM 2 C C07 FHR . . . C 2 62.199 -31.663 -7.128 1 59.05 ? C07 FHR 301 A 1 HETATM 3 C C08 FHR . . . C 2 62.594 -32.878 -7.891 1 53.15 ? C08 FHR 301 A 1 HETATM 4 C C09 FHR . . . C 2 63.201 -34.068 -7.173 1 48.64 ? C09 FHR 301 A 1 HETATM 5 C C10 FHR . . . C 2 63.41 -33.993 -5.606 1 51.99 ? C10 FHR 301 A 1 HETATM 6 C C05 FHR . . . C 2 63.046 -32.854 -4.878 1 53.8 ? C05 FHR 301 A 1 HETATM 7 C C06 FHR . . . C 2 62.401 -31.606 -5.625 1 57.55 ? C06 FHR 301 A 1 HETATM 8 C C04 FHR . . . C 2 63.349 -33.076 -3.542 1 53.16 ? C04 FHR 301 A 1 HETATM 9 C C03 FHR . . . C 2 63.903 -34.338 -3.463 1 44.98 ? C03 FHR 301 A 1 HETATM 10 N N11 FHR . . . C 2 63.927 -34.915 -4.719 1 47.14 ? N11 FHR 301 A 1 HETATM 11 O O01 FHR . . . C 2 64.386 -36.269 -2.363 1 49.9 ? O01 FHR 301 A 1 HETATM 12 N N12 FHR . . . C 2 64.937 -34.655 -0.939 1 46.33 ? N12 FHR 301 A 1 HETATM 13 C C13 FHR . . . C 2 65.136 -33.371 -0.275 1 37.74 ? C13 FHR 301 A 1 HETATM 14 C C21 FHR . . . C 2 63.728 -33.054 0.206 1 30.89 ? C21 FHR 301 A 1 HETATM 15 O O33 FHR . . . C 2 62.941 -32.508 -0.45 1 35.33 ? O33 FHR 301 A 1 HETATM 16 C C14 FHR . . . C 2 65.877 -32.261 -0.995 1 38.69 ? C14 FHR 301 A 1 HETATM 17 C C15 FHR . . . C 2 67.435 -32.456 -1.047 1 38.17 ? C15 FHR 301 A 1 HETATM 18 C C20 FHR . . . C 2 68.196 -31.345 -0.295 1 38.22 ? C20 FHR 301 A 1 HETATM 19 C C19 FHR . . . C 2 69.703 -31.446 -0.611 1 38.37 ? C19 FHR 301 A 1 HETATM 20 C C18 FHR . . . C 2 70.311 -32.827 -0.335 1 34.51 ? C18 FHR 301 A 1 HETATM 21 C C17 FHR . . . C 2 69.435 -33.999 -0.833 1 36.88 ? C17 FHR 301 A 1 HETATM 22 C C16 FHR . . . C 2 67.929 -33.807 -0.521 1 33.88 ? C16 FHR 301 A 1 HETATM 23 O O30 FHR . . . C 2 60.606 -37.512 1.416 1 29.5 ? O30 FHR 301 A 1 HETATM 24 C C29 FHR . . . C 2 60.223 -36.527 0.886 1 30.57 ? C29 FHR 301 A 1 HETATM 25 N N28 FHR . . . C 2 58.861 -36.322 0.058 1 28.62 ? N28 FHR 301 A 1 HETATM 26 C C27 FHR . . . C 2 58.856 -35.086 -0.348 1 34.33 ? C27 FHR 301 A 1 HETATM 27 C C26 FHR . . . C 2 60.061 -34.261 0.528 1 32.49 ? C26 FHR 301 A 1 HETATM 28 C C25 FHR . . . C 2 60.972 -35.125 0.854 1 25.76 ? C25 FHR 301 A 1 HETATM 29 C C24 FHR . . . C 2 61.476 -34.74 2.328 1 29.26 ? C24 FHR 301 A 1 HETATM 30 C C23 FHR . . . C 2 62.194 -33.385 2.238 1 33.9 ? C23 FHR 301 A 1 HETATM 31 N N22 FHR . . . C 2 63.456 -33.548 1.54 1 26.97 ? N22 FHR 301 A 1 HETATM 32 C C31 FHR . . . C 2 62.504 -32.9 3.633 1 33.03 ? C31 FHR 301 A 1 HETATM 33 O O32 FHR . . . C 2 61.585 -32.512 4.288 1 36.58 ? O32 FHR 301 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 31 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 314 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 33 #