data_1LF3 # _model_server_result.job_id aetYuRoHejsOEw1PHWvxfw _model_server_result.datetime_utc '2024-10-16 10:31:01' _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 1lf3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":332}' # _entry.id 1LF3 # _exptl.entry_id 1LF3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 805.911 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-(1-BENZYL-3-{[3-(1,3-DIOXO-1,3-DIHYDRO-ISOINDOL-2-YL)-PROPIONYL]-[2-(HEXAHYDRO-BENZO[1,3]DIOXOL-5-YL)-ETHYL]-AMINO}-2-HYDROXY-PROPYL)-4-BENZYLOXY-3,5-DIMETHOXY-BENZAMIDE _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 105.11 _cell.angle_gamma 90 _cell.entry_id 1LF3 _cell.length_a 53.411 _cell.length_b 39.904 _cell.length_c 91.409 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1LF3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 3 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 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 ? monomeric 1 author_defined_assembly 1 PISA,PQS dimeric 2 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,C 1 1 A,B,C 2 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_656 -x+1,y,-z+1 -1 0 0 0 1 0 0 0 -1 29.583141 0 88.24873 # _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 # 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 disulf ? disulf1 A SG CYS 49 A CYS 47 1_555 A SG CYS 54 A CYS 52 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 A SG CYS 251 A CYS 249 1_555 A SG CYS 287 A CYS 285 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? # _chem_comp.formula 'C46 H51 N3 O10' _chem_comp.formula_weight 805.911 _chem_comp.id EH5 _chem_comp.mon_nstd_flag . _chem_comp.name N-(1-BENZYL-3-{[3-(1,3-DIOXO-1,3-DIHYDRO-ISOINDOL-2-YL)-PROPIONYL]-[2-(HEXAHYDRO-BENZO[1,3]DIOXOL-5-YL)-ETHYL]-AMINO}-2-HYDROXY-PROPYL)-4-BENZYLOXY-3,5-DIMETHOXY-BENZAMIDE _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 CA CB EH5 sing 83 n n CA N2 EH5 sing 84 n n CA C1 EH5 sing 85 n n CA HA1 EH5 sing 86 n n CB CG EH5 sing 87 n n CB HB1 EH5 sing 88 n n CB HB2 EH5 sing 89 n n CG CD1 EH5 doub 90 n y CG CD2 EH5 sing 91 n y CD1 CE1 EH5 sing 92 n y CD1 HD11 EH5 sing 93 n n CD2 CE2 EH5 doub 94 n y CD2 HD21 EH5 sing 95 n n CE1 CZ EH5 doub 96 n y CE1 HE11 EH5 sing 97 n n CE2 CZ EH5 sing 98 n y CE2 HE21 EH5 sing 99 n n CZ HZ1 EH5 sing 100 n n N2 C5 EH5 sing 101 n n N2 HN21 EH5 sing 102 n n C1 CB1 EH5 sing 103 n n C1 O1 EH5 sing 104 n n C1 H11 EH5 sing 105 n n CB1 N1 EH5 sing 106 n n CB1 HB11 EH5 sing 107 n n CB1 HB12 EH5 sing 108 n n N1 C3 EH5 sing 109 n n N1 C2 EH5 sing 110 n n O1 HO11 EH5 sing 111 n n C3 C4 EH5 sing 112 n n C3 H31 EH5 sing 113 n n C3 H32 EH5 sing 114 n n C4 C27 EH5 sing 115 n n C4 H41 EH5 sing 116 n n C4 H42 EH5 sing 117 n n C2 C6 EH5 sing 118 n n C2 O2 EH5 doub 119 n n C6 C7 EH5 sing 120 n n C6 H61 EH5 sing 121 n n C6 H62 EH5 sing 122 n n C7 N3 EH5 sing 123 n n C7 H71 EH5 sing 124 n n C7 H72 EH5 sing 125 n n C5 O3 EH5 doub 126 n n C5 C20 EH5 sing 127 n n C10 C22 EH5 doub 128 n y C10 C26 EH5 sing 129 n y C10 H101 EH5 sing 130 n n C22 C14 EH5 sing 131 n y C22 H221 EH5 sing 132 n n C14 C18 EH5 doub 133 n y C14 C30 EH5 sing 134 n n C18 C32 EH5 sing 135 n y C18 C9 EH5 sing 136 n n C32 C26 EH5 doub 137 n y C32 H321 EH5 sing 138 n n C26 H261 EH5 sing 139 n n C30 N3 EH5 sing 140 n n C30 O4 EH5 doub 141 n n N3 C9 EH5 sing 142 n n C9 O7 EH5 doub 143 n n C11 C23 EH5 sing 144 n n C11 C27 EH5 sing 145 n n C11 H111 EH5 sing 146 n n C11 H112 EH5 sing 147 n n C23 C15 EH5 sing 148 n n C23 H231 EH5 sing 149 n n C23 H232 EH5 sing 150 n n C15 C19 EH5 sing 151 n n C15 O5 EH5 sing 152 n n C15 H151 EH5 sing 153 n n C19 C33 EH5 sing 154 n n C19 O8 EH5 sing 155 n n C19 H191 EH5 sing 156 n n C33 C27 EH5 sing 157 n n C33 H331 EH5 sing 158 n n C33 H332 EH5 sing 159 n n C27 H271 EH5 sing 160 n n O5 C8 EH5 sing 161 n n C8 O8 EH5 sing 162 n n C8 H81 EH5 sing 163 n n C8 H82 EH5 sing 164 n n C12 C24 EH5 doub 165 n y C12 C28 EH5 sing 166 n y C12 O10 EH5 sing 167 n n C24 C16 EH5 sing 168 n y C24 O9 EH5 sing 169 n n C16 C20 EH5 doub 170 n y C16 H161 EH5 sing 171 n n C20 C34 EH5 sing 172 n y C34 C28 EH5 doub 173 n y C34 H341 EH5 sing 174 n n C28 O6 EH5 sing 175 n n O10 C36 EH5 sing 176 n n O9 C37 EH5 sing 177 n n O6 C31 EH5 sing 178 n n C31 H311 EH5 sing 179 n n C31 H312 EH5 sing 180 n n C31 H313 EH5 sing 181 n n C37 H371 EH5 sing 182 n n C37 H372 EH5 sing 183 n n C37 H373 EH5 sing 184 n n C36 C21 EH5 sing 185 n n C36 H361 EH5 sing 186 n n C36 H362 EH5 sing 187 n n C13 C25 EH5 doub 188 n y C13 C29 EH5 sing 189 n y C13 H131 EH5 sing 190 n n C25 C17 EH5 sing 191 n y C25 H251 EH5 sing 192 n n C17 C21 EH5 doub 193 n y C17 H171 EH5 sing 194 n n C21 C35 EH5 sing 195 n y C35 C29 EH5 doub 196 n y C35 H351 EH5 sing 197 n n C29 H291 EH5 sing 198 n n # _atom_sites.entry_id 1LF3 _atom_sites.fract_transf_matrix[1][1] 0.018723 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.005056 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.02506 _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] 0.011332 _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 EH5 A 1 332 332 EH5 EH5 . C 3 HOH A 1 333 1 HOH H2O . C 3 HOH A 2 334 2 HOH H2O . C 3 HOH A 3 335 3 HOH H2O . C 3 HOH A 4 336 4 HOH H2O . C 3 HOH A 5 337 5 HOH H2O . C 3 HOH A 6 338 6 HOH H2O . C 3 HOH A 7 339 7 HOH H2O . C 3 HOH A 8 340 8 HOH H2O . C 3 HOH A 9 341 9 HOH H2O . C 3 HOH A 10 342 10 HOH H2O . C 3 HOH A 11 343 11 HOH H2O . C 3 HOH A 12 344 12 HOH H2O . C 3 HOH A 13 345 13 HOH H2O . C 3 HOH A 14 346 14 HOH H2O . C 3 HOH A 15 347 1 HOH H2O . C 3 HOH A 16 348 2 HOH H2O . C 3 HOH A 17 349 3 HOH H2O . C 3 HOH A 18 350 4 HOH H2O . C 3 HOH A 19 351 5 HOH H2O . C 3 HOH A 20 352 6 HOH H2O . C 3 HOH A 21 353 7 HOH H2O . C 3 HOH A 22 354 8 HOH H2O . C 3 HOH A 23 355 9 HOH H2O . C 3 HOH A 24 356 10 HOH H2O . C 3 HOH A 25 357 11 HOH H2O . C 3 HOH A 26 358 12 HOH H2O . C 3 HOH A 27 359 13 HOH H2O . C 3 HOH A 28 360 14 HOH H2O . C 3 HOH A 29 361 15 HOH H2O . C 3 HOH A 30 362 16 HOH H2O . C 3 HOH A 31 363 17 HOH H2O . C 3 HOH A 32 364 18 HOH H2O . C 3 HOH A 33 365 19 HOH H2O . C 3 HOH A 34 366 20 HOH H2O . C 3 HOH A 35 367 21 HOH H2O . C 3 HOH A 36 368 22 HOH H2O . C 3 HOH A 37 369 23 HOH H2O . C 3 HOH A 38 370 24 HOH H2O . C 3 HOH A 39 371 25 HOH H2O . C 3 HOH A 40 372 26 HOH H2O . C 3 HOH A 41 373 27 HOH H2O . C 3 HOH A 42 374 28 HOH H2O . C 3 HOH A 43 375 29 HOH H2O . C 3 HOH A 44 376 30 HOH H2O . C 3 HOH A 45 377 31 HOH H2O . C 3 HOH A 46 378 32 HOH H2O . C 3 HOH A 47 379 33 HOH H2O . C 3 HOH A 48 380 34 HOH H2O . C 3 HOH A 49 381 35 HOH H2O . C 3 HOH A 50 382 36 HOH H2O . C 3 HOH A 51 383 37 HOH H2O . C 3 HOH A 52 384 38 HOH H2O . # 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 CA EH5 . . . B 2 16.463 3.506 26.224 1 17.11 ? CA EH5 332 A 1 HETATM 2 C CB EH5 . . . B 2 16.644 2.142 25.549 1 8.59 ? CB EH5 332 A 1 HETATM 3 C CG EH5 . . . B 2 17.462 1.194 26.337 1 8.59 ? CG EH5 332 A 1 HETATM 4 C CD1 EH5 . . . B 2 18.785 1.516 26.732 1 16.06 ? CD1 EH5 332 A 1 HETATM 5 C CD2 EH5 . . . B 2 16.927 -0.035 26.713 1 10.31 ? CD2 EH5 332 A 1 HETATM 6 C CE1 EH5 . . . B 2 19.541 0.612 27.477 1 12.92 ? CE1 EH5 332 A 1 HETATM 7 C CE2 EH5 . . . B 2 17.703 -0.948 27.469 1 8.59 ? CE2 EH5 332 A 1 HETATM 8 C CZ EH5 . . . B 2 19.005 -0.617 27.848 1 8.59 ? CZ EH5 332 A 1 HETATM 9 N N2 EH5 . . . B 2 15.847 3.274 27.481 1 16.49 ? N2 EH5 332 A 1 HETATM 10 C C1 EH5 . . . B 2 15.573 4.443 25.376 1 8.59 ? C1 EH5 332 A 1 HETATM 11 C CB1 EH5 . . . B 2 15.152 5.626 26.243 1 8.59 ? CB1 EH5 332 A 1 HETATM 12 N N1 EH5 . . . B 2 15.253 6.758 25.348 1 11.37 ? N1 EH5 332 A 1 HETATM 13 O O1 EH5 . . . B 2 14.36 3.761 24.936 1 8.59 ? O1 EH5 332 A 1 HETATM 14 C C3 EH5 . . . B 2 13.981 7.161 24.714 1 8.59 ? C3 EH5 332 A 1 HETATM 15 C C4 EH5 . . . B 2 12.889 7.854 25.483 1 8.59 ? C4 EH5 332 A 1 HETATM 16 C C2 EH5 . . . B 2 16.507 7.349 25.22 1 19.65 ? C2 EH5 332 A 1 HETATM 17 C C6 EH5 . . . B 2 16.64 8.523 24.276 1 26.47 ? C6 EH5 332 A 1 HETATM 18 O O2 EH5 . . . B 2 17.509 6.946 25.847 1 8.59 ? O2 EH5 332 A 1 HETATM 19 C C7 EH5 . . . B 2 18.054 8.816 23.897 1 39.42 ? C7 EH5 332 A 1 HETATM 20 C C5 EH5 . . . B 2 16.363 3.519 28.684 1 19.34 ? C5 EH5 332 A 1 HETATM 21 O O3 EH5 . . . B 2 17.501 4.006 28.921 1 16.17 ? O3 EH5 332 A 1 HETATM 22 C C10 EH5 . . . B 2 18.036 14.079 20.774 1 33.4 ? C10 EH5 332 A 1 HETATM 23 C C22 EH5 . . . B 2 18.165 12.661 20.602 1 53.02 ? C22 EH5 332 A 1 HETATM 24 C C14 EH5 . . . B 2 18.091 11.85 21.775 1 56.76 ? C14 EH5 332 A 1 HETATM 25 C C18 EH5 . . . B 2 17.901 12.411 23.045 1 57.78 ? C18 EH5 332 A 1 HETATM 26 C C32 EH5 . . . B 2 17.769 13.81 23.252 1 43.48 ? C32 EH5 332 A 1 HETATM 27 C C26 EH5 . . . B 2 17.836 14.648 22.108 1 30.61 ? C26 EH5 332 A 1 HETATM 28 C C30 EH5 . . . B 2 18.166 10.464 21.954 1 49.1 ? C30 EH5 332 A 1 HETATM 29 N N3 EH5 . . . B 2 18.03 10.156 23.299 1 49.75 ? N3 EH5 332 A 1 HETATM 30 C C9 EH5 . . . B 2 17.871 11.379 23.942 1 54.94 ? C9 EH5 332 A 1 HETATM 31 O O7 EH5 . . . B 2 17.719 11.527 25.166 1 49.31 ? O7 EH5 332 A 1 HETATM 32 O O4 EH5 . . . B 2 18.334 9.618 21.033 1 29.76 ? O4 EH5 332 A 1 HETATM 33 C C11 EH5 . . . B 2 13.539 8.429 27.824 1 8.88 ? C11 EH5 332 A 1 HETATM 34 C C23 EH5 . . . B 2 14.001 9.349 28.845 1 8.59 ? C23 EH5 332 A 1 HETATM 35 C C15 EH5 . . . B 2 14.297 10.679 28.488 1 8.59 ? C15 EH5 332 A 1 HETATM 36 C C19 EH5 . . . B 2 14.144 11.108 27.136 1 9.85 ? C19 EH5 332 A 1 HETATM 37 C C33 EH5 . . . B 2 13.679 10.171 26.119 1 8.59 ? C33 EH5 332 A 1 HETATM 38 C C27 EH5 . . . B 2 13.376 8.83 26.471 1 8.59 ? C27 EH5 332 A 1 HETATM 39 O O5 EH5 . . . B 2 14.726 11.696 29.23 1 23.64 ? O5 EH5 332 A 1 HETATM 40 C C8 EH5 . . . B 2 14.847 12.764 28.359 1 19.03 ? C8 EH5 332 A 1 HETATM 41 O O8 EH5 . . . B 2 14.495 12.425 27.071 1 19.39 ? O8 EH5 332 A 1 HETATM 42 C C12 EH5 . . . B 2 13.729 2.397 31.736 1 18.9 ? C12 EH5 332 A 1 HETATM 43 C C24 EH5 . . . B 2 14.557 1.427 31.082 1 8.59 ? C24 EH5 332 A 1 HETATM 44 C C16 EH5 . . . B 2 15.423 1.813 30.08 1 8.59 ? C16 EH5 332 A 1 HETATM 45 C C20 EH5 . . . B 2 15.493 3.169 29.679 1 18.48 ? C20 EH5 332 A 1 HETATM 46 C C34 EH5 . . . B 2 14.667 4.154 30.295 1 16.34 ? C34 EH5 332 A 1 HETATM 47 C C28 EH5 . . . B 2 13.778 3.779 31.322 1 24.33 ? C28 EH5 332 A 1 HETATM 48 O O10 EH5 . . . B 2 13.101 1.935 32.886 1 35.96 ? O10 EH5 332 A 1 HETATM 49 O O9 EH5 . . . B 2 14.591 0.073 31.387 1 18.35 ? O9 EH5 332 A 1 HETATM 50 O O6 EH5 . . . B 2 13.033 4.867 31.828 1 39.41 ? O6 EH5 332 A 1 HETATM 51 C C31 EH5 . . . B 2 13.603 5.98 32.478 1 16.73 ? C31 EH5 332 A 1 HETATM 52 C C37 EH5 . . . B 2 14.223 -0.943 30.499 1 8.59 ? C37 EH5 332 A 1 HETATM 53 C C36 EH5 . . . B 2 14.077 2.103 34.009 1 60.83 ? C36 EH5 332 A 1 HETATM 54 C C13 EH5 . . . B 2 18.503 2.528 34.436 1 38.06 ? C13 EH5 332 A 1 HETATM 55 C C25 EH5 . . . B 2 17.886 1.294 34.608 1 32.09 ? C25 EH5 332 A 1 HETATM 56 C C17 EH5 . . . B 2 16.483 1.174 34.473 1 46.1 ? C17 EH5 332 A 1 HETATM 57 C C21 EH5 . . . B 2 15.658 2.276 34.165 1 53.31 ? C21 EH5 332 A 1 HETATM 58 C C35 EH5 . . . B 2 16.307 3.546 33.99 1 51.26 ? C35 EH5 332 A 1 HETATM 59 C C29 EH5 . . . B 2 17.721 3.671 34.124 1 39.03 ? C29 EH5 332 A 1 # _model_server_stats.io_time_ms 48 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 262 _model_server_stats.encode_time_ms 15 _model_server_stats.element_count 59 #