data_3N46 # _model_server_result.job_id m4VT10kR62P85nSSKTSr5w _model_server_result.datetime_utc '2024-11-25 02:03:13' _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 3n46 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1}' # _entry.id 3N46 # _exptl.entry_id 3N46 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 297.305 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2R)-1-[(benzyloxy)carbonyl]-2,3-dihydro-1H-indole-2-carboxylic acid' _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 3N46 _cell.length_a 110.853 _cell.length_b 110.853 _cell.length_c 70.861 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3N46 _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _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,H _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' 8_665 -y+1,-x+1,-z+1/2 0 -1 0 -1 0 0 0 0 -1 110.853 110.853 35.4305 # _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 metalc ? metalc1 E MG MG . F MG 2 1_555 A OD2 ASP 240 F ASP 243 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.093 ? metalc ? metalc2 E MG MG . F MG 2 1_555 C O12 ZOL . F ZOL 354 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.958 ? metalc ? metalc3 E MG MG . F MG 2 1_555 C O17 ZOL . F ZOL 354 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.255 ? metalc ? metalc4 E MG MG . F MG 2 1_555 H O HOH . F HOH 381 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.201 ? metalc ? metalc5 E MG MG . F MG 2 1_555 H O HOH . F HOH 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.097 ? metalc ? metalc6 E MG MG . F MG 2 1_555 H O HOH . F HOH 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.918 ? metalc ? metalc7 F MG MG . F MG 3 1_555 A OD2 ASP 100 F ASP 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.001 ? metalc ? metalc8 F MG MG . F MG 3 1_555 A OD2 ASP 104 F ASP 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.32 ? metalc ? metalc9 F MG MG . F MG 3 1_555 C O11 ZOL . F ZOL 354 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.25 ? metalc ? metalc10 F MG MG . F MG 3 1_555 H O HOH . F HOH 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? metalc ? metalc11 F MG MG . F MG 3 1_555 H O HOH . F HOH 385 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.17 ? metalc ? metalc12 F MG MG . F MG 3 1_555 H O HOH . F HOH 413 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.179 ? metalc ? metalc13 A OD1 ASP 100 F ASP 103 1_555 D MG MG . F MG 355 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.117 ? metalc ? metalc14 A OD2 ASP 104 F ASP 107 1_555 D MG MG . F MG 355 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.391 ? metalc ? metalc15 C O15 ZOL . F ZOL 354 1_555 D MG MG . F MG 355 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.924 ? metalc ? metalc16 C O11 ZOL . F ZOL 354 1_555 D MG MG . F MG 355 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.112 ? metalc ? metalc17 D MG MG . F MG 355 1_555 H O HOH . F HOH 368 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? metalc ? metalc18 D MG MG . F MG 355 1_555 H O HOH . F HOH 376 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.257 ? # _chem_comp.formula 'C17 H15 N O4' _chem_comp.formula_weight 297.305 _chem_comp.id 3N5 _chem_comp.mon_nstd_flag . _chem_comp.name '(2R)-1-[(benzyloxy)carbonyl]-2,3-dihydro-1H-indole-2-carboxylic acid' _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 C8 N1 3N5 sing 1 n n C2 N1 3N5 sing 2 n n N1 C21 3N5 sing 3 n n C17 C2 3N5 sing 4 n n C2 C4 3N5 sing 5 n n C2 H2 3N5 sing 6 n n C7 C4 3N5 sing 7 n n C4 H4 3N5 sing 8 n n C4 H4A 3N5 sing 9 n n C15 C7 3N5 doub 10 n y C8 C7 3N5 sing 11 n y C9 C8 3N5 doub 12 n y C11 C9 3N5 sing 13 n y C9 H9 3N5 sing 14 n n C13 C11 3N5 doub 15 n y C11 H11 3N5 sing 16 n n C13 C15 3N5 sing 17 n y C13 H13 3N5 sing 18 n n C15 H15 3N5 sing 19 n n O18 C17 3N5 doub 20 n n C17 O19 3N5 sing 21 n n O19 HO19 3N5 sing 22 n n O22 C21 3N5 doub 23 n n C21 O23 3N5 sing 24 n n O23 C24 3N5 sing 25 n n C27 C24 3N5 sing 26 n n C24 H24 3N5 sing 27 n n C24 H24A 3N5 sing 28 n n C36 C27 3N5 doub 29 n y C27 C28 3N5 sing 30 n y C30 C28 3N5 doub 31 n y C28 H28 3N5 sing 32 n n C32 C30 3N5 sing 33 n y C30 H30 3N5 sing 34 n n C34 C32 3N5 doub 35 n y C32 H32 3N5 sing 36 n n C34 C36 3N5 sing 37 n y C34 H34 3N5 sing 38 n n C36 H36 3N5 sing 39 n n # _atom_sites.entry_id 3N46 _atom_sites.fract_transf_matrix[1][1] 0.009021 _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] 0.009021 _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] 0.014112 _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 3N5 F 1 1 1 3N5 3N5 . C 3 ZOL F 1 354 1 ZOL ZOL . D 4 MG F 1 355 1 MG MG . E 4 MG F 1 2 2 MG MG . F 4 MG F 1 3 3 MG MG . G 5 PO4 F 1 356 1 PO4 PO4 . H 6 HOH F 1 357 1 HOH HOH . H 6 HOH F 2 358 2 HOH HOH . H 6 HOH F 3 359 3 HOH HOH . H 6 HOH F 4 360 4 HOH HOH . H 6 HOH F 5 361 5 HOH HOH . H 6 HOH F 6 362 6 HOH HOH . H 6 HOH F 7 363 7 HOH HOH . H 6 HOH F 8 364 8 HOH HOH . H 6 HOH F 9 365 9 HOH HOH . H 6 HOH F 10 366 10 HOH HOH . H 6 HOH F 11 367 11 HOH HOH . H 6 HOH F 12 368 12 HOH HOH . H 6 HOH F 13 369 13 HOH HOH . H 6 HOH F 14 370 14 HOH HOH . H 6 HOH F 15 371 15 HOH HOH . H 6 HOH F 16 372 16 HOH HOH . H 6 HOH F 17 373 17 HOH HOH . H 6 HOH F 18 374 18 HOH HOH . H 6 HOH F 19 375 19 HOH HOH . H 6 HOH F 20 376 20 HOH HOH . H 6 HOH F 21 377 21 HOH HOH . H 6 HOH F 22 378 22 HOH HOH . H 6 HOH F 23 379 23 HOH HOH . H 6 HOH F 24 380 24 HOH HOH . H 6 HOH F 25 381 25 HOH HOH . H 6 HOH F 26 382 26 HOH HOH . H 6 HOH F 27 383 27 HOH HOH . H 6 HOH F 28 384 28 HOH HOH . H 6 HOH F 29 385 29 HOH HOH . H 6 HOH F 30 386 30 HOH HOH . H 6 HOH F 31 387 31 HOH HOH . H 6 HOH F 32 388 32 HOH HOH . H 6 HOH F 33 389 33 HOH HOH . H 6 HOH F 34 390 34 HOH HOH . H 6 HOH F 35 391 35 HOH HOH . H 6 HOH F 36 392 36 HOH HOH . H 6 HOH F 37 393 37 HOH HOH . H 6 HOH F 38 394 38 HOH HOH . H 6 HOH F 39 395 39 HOH HOH . H 6 HOH F 40 396 40 HOH HOH . H 6 HOH F 41 397 41 HOH HOH . H 6 HOH F 42 398 42 HOH HOH . H 6 HOH F 43 399 43 HOH HOH . H 6 HOH F 44 400 44 HOH HOH . H 6 HOH F 45 401 45 HOH HOH . H 6 HOH F 46 402 46 HOH HOH . H 6 HOH F 47 403 47 HOH HOH . H 6 HOH F 48 404 48 HOH HOH . H 6 HOH F 49 405 49 HOH HOH . H 6 HOH F 50 406 50 HOH HOH . H 6 HOH F 51 407 51 HOH HOH . H 6 HOH F 52 408 52 HOH HOH . H 6 HOH F 53 409 53 HOH HOH . H 6 HOH F 54 410 54 HOH HOH . H 6 HOH F 55 411 55 HOH HOH . H 6 HOH F 56 412 56 HOH HOH . H 6 HOH F 57 413 57 HOH HOH . H 6 HOH F 58 414 58 HOH HOH . H 6 HOH F 59 415 59 HOH HOH . H 6 HOH F 60 416 60 HOH HOH . H 6 HOH F 61 417 61 HOH HOH . H 6 HOH F 62 418 62 HOH HOH . H 6 HOH F 63 419 63 HOH HOH . H 6 HOH F 64 420 64 HOH HOH . H 6 HOH F 65 421 65 HOH HOH . H 6 HOH F 66 422 66 HOH HOH . H 6 HOH F 67 423 67 HOH HOH . H 6 HOH F 68 424 68 HOH HOH . H 6 HOH F 69 425 69 HOH HOH . H 6 HOH F 70 426 70 HOH HOH . H 6 HOH F 71 427 71 HOH HOH . H 6 HOH F 72 428 72 HOH HOH . H 6 HOH F 73 429 73 HOH HOH . H 6 HOH F 74 430 74 HOH HOH . H 6 HOH F 75 431 75 HOH HOH . H 6 HOH F 76 432 76 HOH HOH . H 6 HOH F 77 433 77 HOH HOH . H 6 HOH F 78 434 78 HOH HOH . H 6 HOH F 79 435 79 HOH HOH . H 6 HOH F 80 436 80 HOH HOH . H 6 HOH F 81 437 81 HOH HOH . H 6 HOH F 82 438 82 HOH HOH . H 6 HOH F 83 439 83 HOH HOH . H 6 HOH F 84 440 84 HOH HOH . H 6 HOH F 85 441 85 HOH HOH . H 6 HOH F 86 442 86 HOH HOH . H 6 HOH F 87 443 87 HOH HOH . H 6 HOH F 88 444 88 HOH HOH . H 6 HOH F 89 445 89 HOH HOH . H 6 HOH F 90 446 90 HOH HOH . H 6 HOH F 91 447 91 HOH HOH . H 6 HOH F 92 448 92 HOH HOH . H 6 HOH F 93 449 93 HOH HOH . H 6 HOH F 94 450 94 HOH HOH . H 6 HOH F 95 451 95 HOH HOH . H 6 HOH F 96 452 96 HOH HOH . H 6 HOH F 97 453 97 HOH HOH . H 6 HOH F 98 454 98 HOH HOH . H 6 HOH F 99 455 99 HOH HOH . H 6 HOH F 100 456 100 HOH HOH . H 6 HOH F 101 457 101 HOH HOH . H 6 HOH F 102 458 102 HOH HOH . H 6 HOH F 103 459 103 HOH HOH . H 6 HOH F 104 460 104 HOH HOH . H 6 HOH F 105 461 105 HOH HOH . H 6 HOH F 106 462 106 HOH HOH . H 6 HOH F 107 463 107 HOH HOH . H 6 HOH F 108 464 108 HOH HOH . H 6 HOH F 109 465 109 HOH HOH . H 6 HOH F 110 466 110 HOH HOH . H 6 HOH F 111 467 111 HOH HOH . H 6 HOH F 112 468 112 HOH HOH . H 6 HOH F 113 469 113 HOH HOH . H 6 HOH F 114 470 114 HOH HOH . H 6 HOH F 115 471 115 HOH HOH . H 6 HOH F 116 472 116 HOH HOH . H 6 HOH F 117 473 117 HOH HOH . H 6 HOH F 118 474 118 HOH HOH . H 6 HOH F 119 475 119 HOH HOH . H 6 HOH F 120 476 120 HOH HOH . H 6 HOH F 121 477 121 HOH HOH . H 6 HOH F 122 478 122 HOH HOH . H 6 HOH F 123 479 123 HOH HOH . H 6 HOH F 124 480 124 HOH HOH . H 6 HOH F 125 481 125 HOH HOH . H 6 HOH F 126 482 126 HOH HOH . H 6 HOH F 127 483 127 HOH HOH . H 6 HOH F 128 484 128 HOH HOH . H 6 HOH F 129 485 129 HOH HOH . H 6 HOH F 130 486 130 HOH HOH . H 6 HOH F 131 487 131 HOH HOH . H 6 HOH F 132 488 132 HOH HOH . H 6 HOH F 133 489 133 HOH HOH . H 6 HOH F 134 490 134 HOH HOH . H 6 HOH F 135 491 135 HOH HOH . H 6 HOH F 136 492 136 HOH HOH . H 6 HOH F 137 493 137 HOH HOH . H 6 HOH F 138 494 138 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 3N5 . . . B 2 3.083 75.743 25.572 1 69.02 ? N1 3N5 1 F 1 HETATM 2 C C2 3N5 . . . B 2 4.517 75.963 25.57 1 68.13 ? C2 3N5 1 F 1 HETATM 3 C C4 3N5 . . . B 2 4.672 77.546 25.614 1 64.26 ? C4 3N5 1 F 1 HETATM 4 C C7 3N5 . . . B 2 3.244 78.022 25.493 1 67.38 ? C7 3N5 1 F 1 HETATM 5 C C8 3N5 . . . B 2 2.409 76.937 25.488 1 68.44 ? C8 3N5 1 F 1 HETATM 6 C C9 3N5 . . . B 2 1.011 77.057 25.408 1 69.96 ? C9 3N5 1 F 1 HETATM 7 C C11 3N5 . . . B 2 0.483 78.359 25.306 1 70.36 ? C11 3N5 1 F 1 HETATM 8 C C13 3N5 . . . B 2 1.345 79.482 25.284 1 71.98 ? C13 3N5 1 F 1 HETATM 9 C C15 3N5 . . . B 2 2.75 79.325 25.397 1 70.36 ? C15 3N5 1 F 1 HETATM 10 C C17 3N5 . . . B 2 5.059 75.37 24.26 1 68.57 ? C17 3N5 1 F 1 HETATM 11 O O18 3N5 . . . B 2 4.356 75.227 23.264 1 65.69 ? O18 3N5 1 F 1 HETATM 12 O O19 3N5 . . . B 2 6.339 74.998 24.268 1 70.49 ? O19 3N5 1 F 1 HETATM 13 C C21 3N5 . . . B 2 2.511 74.491 25.633 1 72.86 ? C21 3N5 1 F 1 HETATM 14 O O22 3N5 . . . B 2 1.304 74.276 25.561 1 73.28 ? O22 3N5 1 F 1 HETATM 15 O O23 3N5 . . . B 2 3.447 73.498 25.787 1 75.82 ? O23 3N5 1 F 1 HETATM 16 C C24 3N5 . . . B 2 2.888 72.179 25.982 1 77.28 ? C24 3N5 1 F 1 HETATM 17 C C27 3N5 . . . B 2 4.02 71.164 25.858 1 79.22 ? C27 3N5 1 F 1 HETATM 18 C C28 3N5 . . . B 2 5.175 71.279 26.653 1 79.94 ? C28 3N5 1 F 1 HETATM 19 C C30 3N5 . . . B 2 6.226 70.356 26.516 1 81.93 ? C30 3N5 1 F 1 HETATM 20 C C32 3N5 . . . B 2 6.112 69.298 25.585 1 84.78 ? C32 3N5 1 F 1 HETATM 21 C C34 3N5 . . . B 2 4.943 69.165 24.794 1 84.1 ? C34 3N5 1 F 1 HETATM 22 C C36 3N5 . . . B 2 3.9 70.109 24.931 1 81.51 ? C36 3N5 1 F 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 251 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 22 #