data_1D4K # _model_server_result.job_id CQLorvB7y7if9lbAhZh98w _model_server_result.datetime_utc '2024-10-14 10:19:17' _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 1d4k # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":201}' # _entry.id 1D4K # _exptl.entry_id 1D4K _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 698.891 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'N-13-[(10S,13S)-9,12-DIOXO-10-(2-BUTYL)-2-OXA-8,11-DIAZABICYCLO [13.2.2] NONADECA-15,17,18-TRIENE] (2R)-BENZYL-(4S)-HYDROXY-5-AMINOPENTANOIC (1R)-HYDROXY-(2S)-INDANEAMIDE' _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 90 _cell.angle_gamma 90 _cell.entry_id 1D4K _cell.length_a 51.82 _cell.length_b 58.92 _cell.length_c 61.86 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1D4K _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _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,G _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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id E _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 covale ? covale1 A C ILE 66 A ILE 66 1_555 A N ABA 67 A ABA 67 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale2 A C ABA 67 A ABA 67 1_555 A N GLY 68 A GLY 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale3 A C GLY 94 A GLY 94 1_555 A N ABA 95 A ABA 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale4 A C ABA 95 A ABA 95 1_555 A N THR 96 A THR 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale5 B C ILE 66 B ILE 66 1_555 B N ABA 67 B ABA 67 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale6 B C ABA 67 B ABA 67 1_555 B N GLY 68 B GLY 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale7 B C GLY 94 B GLY 94 1_555 B N ABA 95 B ABA 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale8 B C ABA 95 B ABA 95 1_555 B N THR 96 B THR 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? # _chem_comp.formula 'C41 H54 N4 O6' _chem_comp.formula_weight 698.891 _chem_comp.id PI8 _chem_comp.mon_nstd_flag . _chem_comp.name 'N-13-[(10S,13S)-9,12-DIOXO-10-(2-BUTYL)-2-OXA-8,11-DIAZABICYCLO [13.2.2] NONADECA-15,17,18-TRIENE] (2R)-BENZYL-(4S)-HYDROXY-5-AMINOPENTANOIC (1R)-HYDROXY-(2S)-INDANEAMIDE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'MACROCYCLIC PEPTIDOMIMETIC INHIBITOR 8' # _atom_sites.entry_id 1D4K _atom_sites.fract_transf_matrix[1][1] 0.019298 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016972 _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] 0.016166 _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 SO4 A 1 501 501 SO4 SO4 . D 2 SO4 A 1 502 502 SO4 SO4 . E 3 PI8 A 1 201 201 PI8 BR1 . F 4 HOH A 1 302 302 HOH HOH . F 4 HOH A 2 303 303 HOH HOH . F 4 HOH A 3 304 304 HOH HOH . F 4 HOH A 4 305 305 HOH HOH . F 4 HOH A 5 306 306 HOH HOH . F 4 HOH A 6 307 307 HOH HOH . F 4 HOH A 7 315 315 HOH HOH . F 4 HOH A 8 316 316 HOH HOH . F 4 HOH A 9 318 318 HOH HOH . F 4 HOH A 10 320 320 HOH HOH . F 4 HOH A 11 321 321 HOH HOH . F 4 HOH A 12 322 322 HOH HOH . F 4 HOH A 13 328 328 HOH HOH . F 4 HOH A 14 329 329 HOH HOH . F 4 HOH A 15 331 331 HOH HOH . F 4 HOH A 16 332 332 HOH HOH . F 4 HOH A 17 333 333 HOH HOH . F 4 HOH A 18 334 334 HOH HOH . F 4 HOH A 19 335 335 HOH HOH . F 4 HOH A 20 336 336 HOH HOH . F 4 HOH A 21 338 338 HOH HOH . F 4 HOH A 22 343 343 HOH HOH . F 4 HOH A 23 347 347 HOH HOH . F 4 HOH A 24 350 350 HOH HOH . F 4 HOH A 25 354 354 HOH HOH . F 4 HOH A 26 355 355 HOH HOH . F 4 HOH A 27 356 356 HOH HOH . F 4 HOH A 28 357 357 HOH HOH . F 4 HOH A 29 358 358 HOH HOH . F 4 HOH A 30 363 363 HOH HOH . F 4 HOH A 31 364 364 HOH HOH . F 4 HOH A 32 365 365 HOH HOH . F 4 HOH A 33 366 366 HOH HOH . F 4 HOH A 34 367 367 HOH HOH . F 4 HOH A 35 370 370 HOH HOH . F 4 HOH A 36 373 373 HOH HOH . F 4 HOH A 37 374 374 HOH HOH . F 4 HOH A 38 375 375 HOH HOH . F 4 HOH A 39 378 378 HOH HOH . F 4 HOH A 40 379 379 HOH HOH . F 4 HOH A 41 380 380 HOH HOH . F 4 HOH A 42 381 381 HOH HOH . F 4 HOH A 43 382 382 HOH HOH . F 4 HOH A 44 383 383 HOH HOH . F 4 HOH A 45 386 386 HOH HOH . F 4 HOH A 46 388 388 HOH HOH . F 4 HOH A 47 389 389 HOH HOH . G 4 HOH B 1 301 301 HOH HOH . G 4 HOH B 2 308 308 HOH HOH . G 4 HOH B 3 309 309 HOH HOH . G 4 HOH B 4 310 310 HOH HOH . G 4 HOH B 5 311 311 HOH HOH . G 4 HOH B 6 312 312 HOH HOH . G 4 HOH B 7 313 313 HOH HOH . G 4 HOH B 8 314 314 HOH HOH . G 4 HOH B 9 317 317 HOH HOH . G 4 HOH B 10 319 319 HOH HOH . G 4 HOH B 11 323 323 HOH HOH . G 4 HOH B 12 324 324 HOH HOH . G 4 HOH B 13 325 325 HOH HOH . G 4 HOH B 14 326 326 HOH HOH . G 4 HOH B 15 327 327 HOH HOH . G 4 HOH B 16 330 330 HOH HOH . G 4 HOH B 17 337 337 HOH HOH . G 4 HOH B 18 339 339 HOH HOH . G 4 HOH B 19 340 340 HOH HOH . G 4 HOH B 20 341 341 HOH HOH . G 4 HOH B 21 342 342 HOH HOH . G 4 HOH B 22 344 344 HOH HOH . G 4 HOH B 23 345 345 HOH HOH . G 4 HOH B 24 346 346 HOH HOH . G 4 HOH B 25 348 348 HOH HOH . G 4 HOH B 26 349 349 HOH HOH . G 4 HOH B 27 351 351 HOH HOH . G 4 HOH B 28 352 352 HOH HOH . G 4 HOH B 29 353 353 HOH HOH . G 4 HOH B 30 359 359 HOH HOH . G 4 HOH B 31 360 360 HOH HOH . G 4 HOH B 32 361 361 HOH HOH . G 4 HOH B 33 362 362 HOH HOH . G 4 HOH B 34 368 368 HOH HOH . G 4 HOH B 35 369 369 HOH HOH . G 4 HOH B 36 371 371 HOH HOH . G 4 HOH B 37 372 372 HOH HOH . G 4 HOH B 38 376 376 HOH HOH . G 4 HOH B 39 377 377 HOH HOH . G 4 HOH B 40 384 384 HOH HOH . G 4 HOH B 41 385 385 HOH HOH . G 4 HOH B 42 387 387 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 N N1 PI8 . . . E 3 4.601 2.026 12.062 1 19.18 ? N1 PI8 201 A 1 HETATM 2 C C2 PI8 . . . E 3 3.532 1.946 11.05 1 20.16 ? C2 PI8 201 A 1 HETATM 3 C C1 PI8 . . . E 3 3.453 3.326 10.442 1 18.07 ? C1 PI8 201 A 1 HETATM 4 O O1 PI8 . . . E 3 3.769 4.311 11.431 1 18.53 ? O1 PI8 201 A 1 HETATM 5 C C9 PI8 . . . E 3 2.044 3.496 10.013 1 20.1 ? C9 PI8 201 A 1 HETATM 6 C C3 PI8 . . . E 3 2.14 1.692 11.535 1 20.72 ? C3 PI8 201 A 1 HETATM 7 C C8 PI8 . . . E 3 1.275 2.587 10.931 1 21.45 ? C8 PI8 201 A 1 HETATM 8 C C4 PI8 . . . E 3 1.665 0.748 12.432 1 19.11 ? C4 PI8 201 A 1 HETATM 9 C C7 PI8 . . . E 3 -0.08 2.552 11.214 1 22.09 ? C7 PI8 201 A 1 HETATM 10 C C5 PI8 . . . E 3 0.306 0.699 12.728 1 21.94 ? C5 PI8 201 A 1 HETATM 11 C C6 PI8 . . . E 3 -0.572 1.607 12.116 1 22.4 ? C6 PI8 201 A 1 HETATM 12 C C11 PI8 . . . E 3 6.391 1.167 13.471 1 20.3 ? C11 PI8 201 A 1 HETATM 13 C C12 PI8 . . . E 3 7.743 1.292 12.774 1 22.19 ? C12 PI8 201 A 1 HETATM 14 C C13 PI8 . . . E 3 7.738 2.24 11.618 1 23.03 ? C13 PI8 201 A 1 HETATM 15 C C18 PI8 . . . E 3 7.723 1.762 10.313 1 23.56 ? C18 PI8 201 A 1 HETATM 16 C C14 PI8 . . . E 3 7.728 3.613 11.833 1 24.49 ? C14 PI8 201 A 1 HETATM 17 C C17 PI8 . . . E 3 7.696 2.64 9.239 1 24.81 ? C17 PI8 201 A 1 HETATM 18 C C15 PI8 . . . E 3 7.701 4.499 10.767 1 24.54 ? C15 PI8 201 A 1 HETATM 19 C C16 PI8 . . . E 3 7.684 4.014 9.467 1 25.23 ? C16 PI8 201 A 1 HETATM 20 C C10 PI8 . . . E 3 5.285 0.946 12.429 1 20.55 ? C10 PI8 201 A 1 HETATM 21 O O2 PI8 . . . E 3 5.057 -0.181 11.977 1 19.25 ? O2 PI8 201 A 1 HETATM 22 C C19 PI8 . . . E 3 6.445 -0.018 14.421 1 17.94 ? C19 PI8 201 A 1 HETATM 23 O O3 PI8 . A . E 3 5.281 0.339 16.506 0.5 18.23 ? O3 PI8 201 A 1 HETATM 24 O O3 PI8 . B . E 3 4.968 0.894 16.119 0.5 21.49 ? O3 PI8 201 A 1 HETATM 25 C C20 PI8 . A . E 3 5.187 -0.292 15.223 0.5 18.98 ? C20 PI8 201 A 1 HETATM 26 C C20 PI8 . B . E 3 5.173 -0.227 15.25 0.5 19.5 ? C20 PI8 201 A 1 HETATM 27 C C21 PI8 . A . E 3 5.096 -1.79 15.393 0.5 20.52 ? C21 PI8 201 A 1 HETATM 28 C C21 PI8 . B . E 3 5.24 -1.508 16.082 0.5 19.16 ? C21 PI8 201 A 1 HETATM 29 N N2 PI8 . . . E 3 3.915 -2.148 16.17 1 17.66 ? N2 PI8 201 A 1 HETATM 30 C C22 PI8 . . . E 3 4.058 -3.482 16.762 1 19.21 ? C22 PI8 201 A 1 HETATM 31 C C23 PI8 . . . E 3 2.716 -4.219 16.707 1 18.71 ? C23 PI8 201 A 1 HETATM 32 C C24 PI8 . . . E 3 2.83 -5.692 16.995 1 20.63 ? C24 PI8 201 A 1 HETATM 33 C C25 PI8 . . . E 3 2.898 -6.16 18.305 1 21.72 ? C25 PI8 201 A 1 HETATM 34 C C26 PI8 . . . E 3 3.065 -7.515 18.575 1 25.67 ? C26 PI8 201 A 1 HETATM 35 C C29 PI8 . . . E 3 2.924 -6.616 15.955 1 20 ? C29 PI8 201 A 1 HETATM 36 C C28 PI8 . . . E 3 3.093 -7.97 16.212 1 25.78 ? C28 PI8 201 A 1 HETATM 37 C C27 PI8 . . . E 3 3.164 -8.418 17.524 1 26.1 ? C27 PI8 201 A 1 HETATM 38 O O6 PI8 . . . E 3 3.352 -9.77 17.75 0.5 27.31 ? O6 PI8 201 A 1 HETATM 39 C C30 PI8 . . . E 3 5.173 -4.383 16.2 1 20.46 ? C30 PI8 201 A 1 HETATM 40 O O4 PI8 . . . E 3 5.248 -4.621 14.994 1 22.68 ? O4 PI8 201 A 1 HETATM 41 N N3 PI8 . . . E 3 6.083 -4.8 17.079 1 19.03 ? N3 PI8 201 A 1 HETATM 42 C C31 PI8 . . . E 3 7.166 -5.745 16.733 1 21.43 ? C31 PI8 201 A 1 HETATM 43 C C32 PI8 . A . E 3 8.486 -5.029 16.337 0.5 22.46 ? C32 PI8 201 A 1 HETATM 44 C C32 PI8 . B . E 3 8.499 -5.062 16.246 0.5 20.09 ? C32 PI8 201 A 1 HETATM 45 C C33 PI8 . A . E 3 9.181 -5.81 15.217 0.5 24.59 ? C33 PI8 201 A 1 HETATM 46 C C33 PI8 . B . E 3 8.446 -3.542 16.334 0.5 21.21 ? C33 PI8 201 A 1 HETATM 47 C C34 PI8 . A . E 3 8.217 -3.599 15.865 0.5 23.35 ? C34 PI8 201 A 1 HETATM 48 C C34 PI8 . B . E 3 9.697 -5.633 17.008 0.5 17.69 ? C34 PI8 201 A 1 HETATM 49 C C35 PI8 . A . E 3 9.394 -2.939 15.229 0.5 22.81 ? C35 PI8 201 A 1 HETATM 50 C C35 PI8 . B . E 3 10.957 -4.893 16.813 0.5 17.72 ? C35 PI8 201 A 1 HETATM 51 C C36 PI8 . . . E 3 7.43 -6.595 17.978 1 22.84 ? C36 PI8 201 A 1 HETATM 52 O O5 PI8 . . . E 3 7.4 -6.084 19.104 1 24.71 ? O5 PI8 201 A 1 HETATM 53 N N4 PI8 . . . E 3 7.645 -7.894 17.779 1 26.52 ? N4 PI8 201 A 1 HETATM 54 C C37 PI8 . . . E 3 7.915 -8.864 18.856 1 26.49 ? C37 PI8 201 A 1 HETATM 55 C C38 PI8 . . . E 3 7.609 -10.301 18.446 0.5 27.9 ? C38 PI8 201 A 1 HETATM 56 C C39 PI8 . . . E 3 6.134 -10.503 18.127 0.5 26.93 ? C39 PI8 201 A 1 HETATM 57 C C40 PI8 . . . E 3 5.248 -10.006 19.257 0.5 25.69 ? C40 PI8 201 A 1 HETATM 58 C C41 PI8 . . . E 3 3.778 -10.307 18.995 0.5 26 ? C41 PI8 201 A 1 # _model_server_stats.io_time_ms 175 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 269 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 58 #