data_5X5G # _model_server_result.job_id '_e6r9NUoaZ-0vVaKZNlfoA' _model_server_result.datetime_utc '2024-11-17 03:56:32' _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 5x5g # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":305}' # _entry.id 5X5G # _exptl.entry_id 5X5G _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 326.327 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (2S,5R)-N-(2-aminoethoxy)-1-formyl-5-[(sulfooxy)amino]piperidine-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 94.6 _cell.angle_gamma 90 _cell.entry_id 5X5G _cell.length_a 95.19 _cell.length_b 67.91 _cell.length_c 45.32 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5X5G _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _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,D,E,F,G _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_556 -x,y,-z+1 -1 0 0 0 1 0 0 0 -1 -3.634615 0 45.174019 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id F _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 OG SER 47 A SER 56 1_555 F C1 OP0 . A OP0 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.528 ? metalc ? metalc1 A O MET 150 A MET 159 1_555 E NA NA . A NA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.843 ? metalc ? metalc2 A O ALA 153 A ALA 162 1_555 E NA NA . A NA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.788 ? metalc ? metalc3 A O TRP 154 A TRP 163 1_555 E NA NA . A NA 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.934 ? metalc ? metalc4 E NA NA . A NA 304 1_555 G O HOH . A HOH 480 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.88 ? # _chem_comp.formula 'C9 H18 N4 O7 S' _chem_comp.formula_weight 326.327 _chem_comp.id OP0 _chem_comp.mon_nstd_flag . _chem_comp.name (2S,5R)-N-(2-aminoethoxy)-1-formyl-5-[(sulfooxy)amino]piperidine-2-carboxamide _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 C23 C22 OP0 sing 237 n n C23 O24 OP0 sing 238 n n C22 N21 OP0 sing 239 n n O24 N15 OP0 sing 240 n n N15 C3 OP0 sing 241 n n C3 O9 OP0 doub 242 n n C3 C2 OP0 sing 243 n n C2 C4 OP0 sing 244 n n C2 N14 OP0 sing 245 n n C4 C5 OP0 sing 246 n n O8 C1 OP0 doub 247 n n C1 N14 OP0 sing 248 n n N14 C7 OP0 sing 249 n n C5 C6 OP0 sing 250 n n C7 C6 OP0 sing 251 n n O12 S17 OP0 doub 252 n n C6 N16 OP0 sing 253 n n N16 O10 OP0 sing 254 n n O11 S17 OP0 doub 255 n n S17 O10 OP0 sing 256 n n S17 O13 OP0 sing 257 n n C1 H1 OP0 sing 258 n n C2 H2 OP0 sing 259 n n N15 H3 OP0 sing 260 n n C7 H4 OP0 sing 261 n n C7 H5 OP0 sing 262 n n C6 H6 OP0 sing 263 n n C5 H7 OP0 sing 264 n n C5 H8 OP0 sing 265 n n C4 H9 OP0 sing 266 n n C4 H10 OP0 sing 267 n n N16 H11 OP0 sing 268 n n N21 H12 OP0 sing 269 n n N21 H13 OP0 sing 270 n n C22 H15 OP0 sing 271 n n C22 H16 OP0 sing 272 n n C23 H17 OP0 sing 273 n n C23 H18 OP0 sing 274 n n O13 H19 OP0 sing 275 n n # _atom_sites.entry_id 5X5G _atom_sites.fract_transf_matrix[1][1] 0.010505 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000845 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014725 _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] 0.022137 _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 SO4 A 1 301 1 SO4 SO4 . C 2 SO4 A 1 302 2 SO4 SO4 . D 2 SO4 A 1 303 3 SO4 SO4 . E 3 NA A 1 304 1 NA NA . F 4 OP0 A 1 305 1 OP0 OP5 . G 5 HOH A 1 401 66 HOH HOH . G 5 HOH A 2 402 89 HOH HOH . G 5 HOH A 3 403 55 HOH HOH . G 5 HOH A 4 404 143 HOH HOH . G 5 HOH A 5 405 148 HOH HOH . G 5 HOH A 6 406 52 HOH HOH . G 5 HOH A 7 407 19 HOH HOH . G 5 HOH A 8 408 144 HOH HOH . G 5 HOH A 9 409 152 HOH HOH . G 5 HOH A 10 410 37 HOH HOH . G 5 HOH A 11 411 134 HOH HOH . G 5 HOH A 12 412 36 HOH HOH . G 5 HOH A 13 413 18 HOH HOH . G 5 HOH A 14 414 68 HOH HOH . G 5 HOH A 15 415 71 HOH HOH . G 5 HOH A 16 416 103 HOH HOH . G 5 HOH A 17 417 43 HOH HOH . G 5 HOH A 18 418 165 HOH HOH . G 5 HOH A 19 419 82 HOH HOH . G 5 HOH A 20 420 63 HOH HOH . G 5 HOH A 21 421 171 HOH HOH . G 5 HOH A 22 422 96 HOH HOH . G 5 HOH A 23 423 8 HOH HOH . G 5 HOH A 24 424 30 HOH HOH . G 5 HOH A 25 425 57 HOH HOH . G 5 HOH A 26 426 141 HOH HOH . G 5 HOH A 27 427 158 HOH HOH . G 5 HOH A 28 428 70 HOH HOH . G 5 HOH A 29 429 159 HOH HOH . G 5 HOH A 30 430 51 HOH HOH . G 5 HOH A 31 431 13 HOH HOH . G 5 HOH A 32 432 117 HOH HOH . G 5 HOH A 33 433 150 HOH HOH . G 5 HOH A 34 434 168 HOH HOH . G 5 HOH A 35 435 49 HOH HOH . G 5 HOH A 36 436 85 HOH HOH . G 5 HOH A 37 437 102 HOH HOH . G 5 HOH A 38 438 54 HOH HOH . G 5 HOH A 39 439 98 HOH HOH . G 5 HOH A 40 440 61 HOH HOH . G 5 HOH A 41 441 175 HOH HOH . G 5 HOH A 42 442 162 HOH HOH . G 5 HOH A 43 443 88 HOH HOH . G 5 HOH A 44 444 44 HOH HOH . G 5 HOH A 45 445 116 HOH HOH . G 5 HOH A 46 446 120 HOH HOH . G 5 HOH A 47 447 32 HOH HOH . G 5 HOH A 48 448 34 HOH HOH . G 5 HOH A 49 449 123 HOH HOH . G 5 HOH A 50 450 77 HOH HOH . G 5 HOH A 51 451 56 HOH HOH . G 5 HOH A 52 452 22 HOH HOH . G 5 HOH A 53 453 129 HOH HOH . G 5 HOH A 54 454 7 HOH HOH . G 5 HOH A 55 455 145 HOH HOH . G 5 HOH A 56 456 58 HOH HOH . G 5 HOH A 57 457 113 HOH HOH . G 5 HOH A 58 458 17 HOH HOH . G 5 HOH A 59 459 104 HOH HOH . G 5 HOH A 60 460 10 HOH HOH . G 5 HOH A 61 461 23 HOH HOH . G 5 HOH A 62 462 4 HOH HOH . G 5 HOH A 63 463 84 HOH HOH . G 5 HOH A 64 464 109 HOH HOH . G 5 HOH A 65 465 95 HOH HOH . G 5 HOH A 66 466 42 HOH HOH . G 5 HOH A 67 467 76 HOH HOH . G 5 HOH A 68 468 67 HOH HOH . G 5 HOH A 69 469 62 HOH HOH . G 5 HOH A 70 470 48 HOH HOH . G 5 HOH A 71 471 11 HOH HOH . G 5 HOH A 72 472 12 HOH HOH . G 5 HOH A 73 473 60 HOH HOH . G 5 HOH A 74 474 86 HOH HOH . G 5 HOH A 75 475 14 HOH HOH . G 5 HOH A 76 476 15 HOH HOH . G 5 HOH A 77 477 38 HOH HOH . G 5 HOH A 78 478 124 HOH HOH . G 5 HOH A 79 479 111 HOH HOH . G 5 HOH A 80 480 73 HOH HOH . G 5 HOH A 81 481 154 HOH HOH . G 5 HOH A 82 482 24 HOH HOH . G 5 HOH A 83 483 21 HOH HOH . G 5 HOH A 84 484 163 HOH HOH . G 5 HOH A 85 485 53 HOH HOH . G 5 HOH A 86 486 6 HOH HOH . G 5 HOH A 87 487 45 HOH HOH . G 5 HOH A 88 488 40 HOH HOH . G 5 HOH A 89 489 105 HOH HOH . G 5 HOH A 90 490 28 HOH HOH . G 5 HOH A 91 491 2 HOH HOH . G 5 HOH A 92 492 110 HOH HOH . G 5 HOH A 93 493 20 HOH HOH . G 5 HOH A 94 494 65 HOH HOH . G 5 HOH A 95 495 87 HOH HOH . G 5 HOH A 96 496 74 HOH HOH . G 5 HOH A 97 497 3 HOH HOH . G 5 HOH A 98 498 155 HOH HOH . G 5 HOH A 99 499 16 HOH HOH . G 5 HOH A 100 500 1 HOH HOH . G 5 HOH A 101 501 100 HOH HOH . G 5 HOH A 102 502 72 HOH HOH . G 5 HOH A 103 503 147 HOH HOH . G 5 HOH A 104 504 41 HOH HOH . G 5 HOH A 105 505 39 HOH HOH . G 5 HOH A 106 506 69 HOH HOH . G 5 HOH A 107 507 47 HOH HOH . G 5 HOH A 108 508 146 HOH HOH . G 5 HOH A 109 509 138 HOH HOH . G 5 HOH A 110 510 170 HOH HOH . G 5 HOH A 111 511 151 HOH HOH . G 5 HOH A 112 512 83 HOH HOH . G 5 HOH A 113 513 27 HOH HOH . G 5 HOH A 114 514 115 HOH HOH . G 5 HOH A 115 515 153 HOH HOH . G 5 HOH A 116 516 25 HOH HOH . G 5 HOH A 117 517 128 HOH HOH . G 5 HOH A 118 518 50 HOH HOH . G 5 HOH A 119 519 121 HOH HOH . G 5 HOH A 120 520 29 HOH HOH . G 5 HOH A 121 521 31 HOH HOH . G 5 HOH A 122 522 161 HOH HOH . G 5 HOH A 123 523 9 HOH HOH . G 5 HOH A 124 524 108 HOH HOH . G 5 HOH A 125 525 139 HOH HOH . G 5 HOH A 126 526 130 HOH HOH . G 5 HOH A 127 527 106 HOH HOH . G 5 HOH A 128 528 160 HOH HOH . G 5 HOH A 129 529 127 HOH HOH . G 5 HOH A 130 530 174 HOH HOH . G 5 HOH A 131 531 35 HOH HOH . G 5 HOH A 132 532 156 HOH HOH . G 5 HOH A 133 533 125 HOH HOH . G 5 HOH A 134 534 99 HOH HOH . G 5 HOH A 135 535 46 HOH HOH . G 5 HOH A 136 536 94 HOH HOH . G 5 HOH A 137 537 81 HOH HOH . G 5 HOH A 138 538 142 HOH HOH . G 5 HOH A 139 539 93 HOH HOH . G 5 HOH A 140 540 90 HOH HOH . G 5 HOH A 141 541 136 HOH HOH . G 5 HOH A 142 542 140 HOH HOH . G 5 HOH A 143 543 169 HOH HOH . G 5 HOH A 144 544 122 HOH HOH . G 5 HOH A 145 545 118 HOH HOH . G 5 HOH A 146 546 33 HOH HOH . G 5 HOH A 147 547 5 HOH HOH . G 5 HOH A 148 548 80 HOH HOH . G 5 HOH A 149 549 149 HOH HOH . G 5 HOH A 150 550 79 HOH HOH . G 5 HOH A 151 551 78 HOH HOH . G 5 HOH A 152 552 26 HOH HOH . G 5 HOH A 153 553 75 HOH HOH . G 5 HOH A 154 554 59 HOH HOH . G 5 HOH A 155 555 135 HOH HOH . G 5 HOH A 156 556 64 HOH HOH . G 5 HOH A 157 557 107 HOH HOH . G 5 HOH A 158 558 114 HOH HOH . G 5 HOH A 159 559 97 HOH HOH . G 5 HOH A 160 560 132 HOH HOH . G 5 HOH A 161 561 164 HOH HOH . G 5 HOH A 162 562 92 HOH HOH . G 5 HOH A 163 563 126 HOH HOH . G 5 HOH A 164 564 157 HOH HOH . G 5 HOH A 165 565 91 HOH HOH . G 5 HOH A 166 566 172 HOH HOH . G 5 HOH A 167 567 101 HOH HOH . G 5 HOH A 168 568 131 HOH HOH . G 5 HOH A 169 569 133 HOH HOH . G 5 HOH A 170 570 137 HOH HOH . G 5 HOH A 171 571 119 HOH HOH . G 5 HOH A 172 572 173 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 C1 OP0 . . . F 4 7.115 -1.889 21.351 1 27.4 ? C1 OP0 305 A 1 HETATM 2 O O8 OP0 . . . F 4 7.893 -2.632 21.954 1 24.39 ? O8 OP0 305 A 1 HETATM 3 N N14 OP0 . . . F 4 5.876 -1.916 21.521 1 27.29 ? N14 OP0 305 A 1 HETATM 4 C C2 OP0 . . . F 4 5.216 -2.872 22.391 1 32.36 ? C2 OP0 305 A 1 HETATM 5 C C3 OP0 . . . F 4 4.172 -3.578 21.603 1 37.1 ? C3 OP0 305 A 1 HETATM 6 N N15 OP0 . . . F 4 3.117 -3.992 22.288 1 35.53 ? N15 OP0 305 A 1 HETATM 7 O O9 OP0 . . . F 4 4.386 -3.788 20.393 1 29.21 ? O9 OP0 305 A 1 HETATM 8 C C7 OP0 . . . F 4 5.046 -0.859 21.032 1 22.52 ? C7 OP0 305 A 1 HETATM 9 C C6 OP0 . . . F 4 4.724 0.006 22.222 1 31.93 ? C6 OP0 305 A 1 HETATM 10 C C5 OP0 . . . F 4 3.926 -0.836 23.216 1 30.62 ? C5 OP0 305 A 1 HETATM 11 C C4 OP0 . . . F 4 4.681 -2.113 23.604 1 35.35 ? C4 OP0 305 A 1 HETATM 12 N N16 OP0 . . . F 4 5.952 0.674 22.756 1 33.91 ? N16 OP0 305 A 1 HETATM 13 S S17 OP0 . . . F 4 7.893 0.411 24.12 1 29.85 ? S17 OP0 305 A 1 HETATM 14 O O10 OP0 . . . F 4 6.463 0.062 23.825 1 38.53 ? O10 OP0 305 A 1 HETATM 15 O O13 OP0 . . . F 4 8.549 -0.456 25.039 1 41.73 ? O13 OP0 305 A 1 HETATM 16 O O12 OP0 . . . F 4 7.804 1.675 24.778 1 39.63 ? O12 OP0 305 A 1 HETATM 17 O O11 OP0 . . . F 4 8.667 0.44 22.712 1 30.77 ? O11 OP0 305 A 1 HETATM 18 N N21 OP0 . . . F 4 2.183 -7.999 20.49 1 36.98 ? N21 OP0 305 A 1 HETATM 19 C C22 OP0 . . . F 4 2.99 -7.153 21.408 1 40.06 ? C22 OP0 305 A 1 HETATM 20 C C23 OP0 . . . F 4 2.161 -6.158 22.222 1 44.89 ? C23 OP0 305 A 1 HETATM 21 O O24 OP0 . . . F 4 2.26 -4.83 21.706 1 45.98 ? O24 OP0 305 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 295 _model_server_stats.encode_time_ms 24 _model_server_stats.element_count 21 #