data_6BC3 # _model_server_result.job_id q30pOhxhNNWXRZLMQERlZA _model_server_result.datetime_utc '2024-10-10 12:22:15' _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 6bc3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":302}' # _entry.id 6BC3 # _exptl.entry_id 6BC3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 447.526 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(1S,2S,3R,4S,6R)-4,6-diamino-3-{[(2S,3R)-3-amino-6-(aminomethyl)-3,4-dihydro-2H-pyran-2-yl]oxy}-2-hydroxycyclohexyl 3-deoxy-4-C-methyl-3-(methylamino)-beta-L-arabinopyranoside' _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 120 _cell.entry_id 6BC3 _cell.length_a 77.534 _cell.length_b 77.534 _cell.length_c 83.89 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6BC3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 61' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C19 H37 N5 O7' _chem_comp.formula_weight 447.526 _chem_comp.id SIS _chem_comp.mon_nstd_flag . _chem_comp.name '(1S,2S,3R,4S,6R)-4,6-diamino-3-{[(2S,3R)-3-amino-6-(aminomethyl)-3,4-dihydro-2H-pyran-2-yl]oxy}-2-hydroxycyclohexyl 3-deoxy-4-C-methyl-3-(methylamino)-beta-L-arabinopyranoside' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms Sisomicin # 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 O43 C43 SIS sing 376 n n C83 C43 SIS sing 377 n n C43 C53 SIS sing 378 n n C43 C33 SIS sing 379 n n N33 C33 SIS sing 380 n n N33 C93 SIS sing 381 n n C53 O53 SIS sing 382 n n C33 C23 SIS sing 383 n n O53 C13 SIS sing 384 n n C23 C13 SIS sing 385 n n C23 O23 SIS sing 386 n n C13 O62 SIS sing 387 n n O62 C62 SIS sing 388 n n O52 C52 SIS sing 389 n n C62 C52 SIS sing 390 n n C62 C12 SIS sing 391 n n N12 C12 SIS sing 392 n n C52 C42 SIS sing 393 n n C12 C22 SIS sing 394 n n C42 O11 SIS sing 395 n n C42 C32 SIS sing 396 n n C22 C32 SIS sing 397 n n C11 O11 SIS sing 398 n n C11 O51 SIS sing 399 n n C11 C21 SIS sing 400 n n N21 C21 SIS sing 401 n n O51 C51 SIS sing 402 n n C32 N32 SIS sing 403 n n C21 C31 SIS sing 404 n n C51 C61 SIS sing 405 n n C51 C41 SIS doub 406 n n N61 C61 SIS sing 407 n n C31 C41 SIS sing 408 n n C11 H1 SIS sing 409 n n C12 H2 SIS sing 410 n n C13 H3 SIS sing 411 n n C21 H4 SIS sing 412 n n C22 H5 SIS sing 413 n n C22 H6 SIS sing 414 n n C23 H7 SIS sing 415 n n C31 H8 SIS sing 416 n n C31 H9 SIS sing 417 n n C32 H10 SIS sing 418 n n C33 H11 SIS sing 419 n n C41 H12 SIS sing 420 n n C42 H13 SIS sing 421 n n C52 H14 SIS sing 422 n n C53 H15 SIS sing 423 n n C53 H16 SIS sing 424 n n C61 H17 SIS sing 425 n n C61 H18 SIS sing 426 n n C62 H19 SIS sing 427 n n C83 H20 SIS sing 428 n n C83 H21 SIS sing 429 n n C83 H22 SIS sing 430 n n C93 H23 SIS sing 431 n n C93 H24 SIS sing 432 n n C93 H25 SIS sing 433 n n N12 H26 SIS sing 434 n n N12 H27 SIS sing 435 n n N21 H29 SIS sing 436 n n N21 H30 SIS sing 437 n n N32 H32 SIS sing 438 n n N32 H33 SIS sing 439 n n N33 H35 SIS sing 440 n n N61 H37 SIS sing 441 n n N61 H38 SIS sing 442 n n O23 H40 SIS sing 443 n n O43 H41 SIS sing 444 n n O52 H42 SIS sing 445 n n # _atom_sites.entry_id 6BC3 _atom_sites.fract_transf_matrix[1][1] 0.012898 _atom_sites.fract_transf_matrix[1][2] 0.007446 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014893 _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] 0.01192 _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 COA A 1 301 301 COA COA . C 3 SIS A 1 302 302 SIS SIS . D 4 HOH A 1 401 80 HOH HOH . D 4 HOH A 2 402 144 HOH HOH . D 4 HOH A 3 403 20 HOH HOH . D 4 HOH A 4 404 166 HOH HOH . D 4 HOH A 5 405 61 HOH HOH . D 4 HOH A 6 406 96 HOH HOH . D 4 HOH A 7 407 65 HOH HOH . D 4 HOH A 8 408 98 HOH HOH . D 4 HOH A 9 409 92 HOH HOH . D 4 HOH A 10 410 52 HOH HOH . D 4 HOH A 11 411 177 HOH HOH . D 4 HOH A 12 412 95 HOH HOH . D 4 HOH A 13 413 9 HOH HOH . D 4 HOH A 14 414 82 HOH HOH . D 4 HOH A 15 415 5 HOH HOH . D 4 HOH A 16 416 22 HOH HOH . D 4 HOH A 17 417 66 HOH HOH . D 4 HOH A 18 418 8 HOH HOH . D 4 HOH A 19 419 31 HOH HOH . D 4 HOH A 20 420 126 HOH HOH . D 4 HOH A 21 421 3 HOH HOH . D 4 HOH A 22 422 43 HOH HOH . D 4 HOH A 23 423 45 HOH HOH . D 4 HOH A 24 424 112 HOH HOH . D 4 HOH A 25 425 161 HOH HOH . D 4 HOH A 26 426 53 HOH HOH . D 4 HOH A 27 427 11 HOH HOH . D 4 HOH A 28 428 1 HOH HOH . D 4 HOH A 29 429 142 HOH HOH . D 4 HOH A 30 430 62 HOH HOH . D 4 HOH A 31 431 29 HOH HOH . D 4 HOH A 32 432 51 HOH HOH . D 4 HOH A 33 433 4 HOH HOH . D 4 HOH A 34 434 49 HOH HOH . D 4 HOH A 35 435 114 HOH HOH . D 4 HOH A 36 436 6 HOH HOH . D 4 HOH A 37 437 70 HOH HOH . D 4 HOH A 38 438 63 HOH HOH . D 4 HOH A 39 439 84 HOH HOH . D 4 HOH A 40 440 41 HOH HOH . D 4 HOH A 41 441 26 HOH HOH . D 4 HOH A 42 442 16 HOH HOH . D 4 HOH A 43 443 25 HOH HOH . D 4 HOH A 44 444 76 HOH HOH . D 4 HOH A 45 445 130 HOH HOH . D 4 HOH A 46 446 117 HOH HOH . D 4 HOH A 47 447 2 HOH HOH . D 4 HOH A 48 448 58 HOH HOH . D 4 HOH A 49 449 159 HOH HOH . D 4 HOH A 50 450 7 HOH HOH . D 4 HOH A 51 451 69 HOH HOH . D 4 HOH A 52 452 77 HOH HOH . D 4 HOH A 53 453 24 HOH HOH . D 4 HOH A 54 454 12 HOH HOH . D 4 HOH A 55 455 17 HOH HOH . D 4 HOH A 56 456 139 HOH HOH . D 4 HOH A 57 457 38 HOH HOH . D 4 HOH A 58 458 131 HOH HOH . D 4 HOH A 59 459 75 HOH HOH . D 4 HOH A 60 460 47 HOH HOH . D 4 HOH A 61 461 103 HOH HOH . D 4 HOH A 62 462 169 HOH HOH . D 4 HOH A 63 463 27 HOH HOH . D 4 HOH A 64 464 18 HOH HOH . D 4 HOH A 65 465 48 HOH HOH . D 4 HOH A 66 466 36 HOH HOH . D 4 HOH A 67 467 102 HOH HOH . D 4 HOH A 68 468 10 HOH HOH . D 4 HOH A 69 469 35 HOH HOH . D 4 HOH A 70 470 180 HOH HOH . D 4 HOH A 71 471 97 HOH HOH . D 4 HOH A 72 472 127 HOH HOH . D 4 HOH A 73 473 83 HOH HOH . D 4 HOH A 74 474 93 HOH HOH . D 4 HOH A 75 475 54 HOH HOH . D 4 HOH A 76 476 37 HOH HOH . D 4 HOH A 77 477 68 HOH HOH . D 4 HOH A 78 478 128 HOH HOH . D 4 HOH A 79 479 44 HOH HOH . D 4 HOH A 80 480 73 HOH HOH . D 4 HOH A 81 481 148 HOH HOH . D 4 HOH A 82 482 21 HOH HOH . D 4 HOH A 83 483 174 HOH HOH . D 4 HOH A 84 484 108 HOH HOH . D 4 HOH A 85 485 28 HOH HOH . D 4 HOH A 86 486 107 HOH HOH . D 4 HOH A 87 487 187 HOH HOH . D 4 HOH A 88 488 19 HOH HOH . D 4 HOH A 89 489 14 HOH HOH . D 4 HOH A 90 490 46 HOH HOH . D 4 HOH A 91 491 136 HOH HOH . D 4 HOH A 92 492 150 HOH HOH . D 4 HOH A 93 493 13 HOH HOH . D 4 HOH A 94 494 123 HOH HOH . D 4 HOH A 95 495 59 HOH HOH . D 4 HOH A 96 496 120 HOH HOH . D 4 HOH A 97 497 99 HOH HOH . D 4 HOH A 98 498 74 HOH HOH . D 4 HOH A 99 499 91 HOH HOH . D 4 HOH A 100 500 40 HOH HOH . D 4 HOH A 101 501 141 HOH HOH . D 4 HOH A 102 502 56 HOH HOH . D 4 HOH A 103 503 78 HOH HOH . D 4 HOH A 104 504 60 HOH HOH . D 4 HOH A 105 505 81 HOH HOH . D 4 HOH A 106 506 100 HOH HOH . D 4 HOH A 107 507 119 HOH HOH . D 4 HOH A 108 508 137 HOH HOH . D 4 HOH A 109 509 32 HOH HOH . D 4 HOH A 110 510 55 HOH HOH . D 4 HOH A 111 511 94 HOH HOH . D 4 HOH A 112 512 125 HOH HOH . D 4 HOH A 113 513 146 HOH HOH . D 4 HOH A 114 514 118 HOH HOH . D 4 HOH A 115 515 86 HOH HOH . D 4 HOH A 116 516 160 HOH HOH . D 4 HOH A 117 517 39 HOH HOH . D 4 HOH A 118 518 140 HOH HOH . D 4 HOH A 119 519 57 HOH HOH . D 4 HOH A 120 520 50 HOH HOH . D 4 HOH A 121 521 135 HOH HOH . D 4 HOH A 122 522 79 HOH HOH . D 4 HOH A 123 523 104 HOH HOH . D 4 HOH A 124 524 132 HOH HOH . D 4 HOH A 125 525 116 HOH HOH . D 4 HOH A 126 526 72 HOH HOH . D 4 HOH A 127 527 33 HOH HOH . D 4 HOH A 128 528 154 HOH HOH . D 4 HOH A 129 529 134 HOH HOH . D 4 HOH A 130 530 64 HOH HOH . D 4 HOH A 131 531 71 HOH HOH . D 4 HOH A 132 532 111 HOH HOH . D 4 HOH A 133 533 143 HOH HOH . D 4 HOH A 134 534 162 HOH HOH . D 4 HOH A 135 535 129 HOH HOH . D 4 HOH A 136 536 193 HOH HOH . D 4 HOH A 137 537 67 HOH HOH . D 4 HOH A 138 538 34 HOH HOH . D 4 HOH A 139 539 15 HOH HOH . D 4 HOH A 140 540 106 HOH HOH . D 4 HOH A 141 541 178 HOH HOH . D 4 HOH A 142 542 179 HOH HOH . D 4 HOH A 143 543 184 HOH HOH . D 4 HOH A 144 544 145 HOH HOH . D 4 HOH A 145 545 155 HOH HOH . D 4 HOH A 146 546 89 HOH HOH . D 4 HOH A 147 547 87 HOH HOH . D 4 HOH A 148 548 186 HOH HOH . D 4 HOH A 149 549 23 HOH HOH . D 4 HOH A 150 550 147 HOH HOH . D 4 HOH A 151 551 105 HOH HOH . D 4 HOH A 152 552 42 HOH HOH . D 4 HOH A 153 553 121 HOH HOH . D 4 HOH A 154 554 90 HOH HOH . D 4 HOH A 155 555 152 HOH HOH . D 4 HOH A 156 556 170 HOH HOH . D 4 HOH A 157 557 151 HOH HOH . D 4 HOH A 158 558 168 HOH HOH . D 4 HOH A 159 559 113 HOH HOH . D 4 HOH A 160 560 167 HOH HOH . D 4 HOH A 161 561 115 HOH HOH . D 4 HOH A 162 562 85 HOH HOH . D 4 HOH A 163 563 191 HOH HOH . D 4 HOH A 164 564 171 HOH HOH . D 4 HOH A 165 565 190 HOH HOH . D 4 HOH A 166 566 153 HOH HOH . D 4 HOH A 167 567 173 HOH HOH . D 4 HOH A 168 568 188 HOH HOH . D 4 HOH A 169 569 189 HOH HOH . D 4 HOH A 170 570 185 HOH HOH . D 4 HOH A 171 571 183 HOH HOH . D 4 HOH A 172 572 192 HOH HOH . D 4 HOH A 173 573 138 HOH HOH . D 4 HOH A 174 574 163 HOH HOH . D 4 HOH A 175 575 124 HOH HOH . D 4 HOH A 176 576 149 HOH HOH . D 4 HOH A 177 577 175 HOH HOH . D 4 HOH A 178 578 110 HOH HOH . D 4 HOH A 179 579 133 HOH HOH . D 4 HOH A 180 580 30 HOH HOH . D 4 HOH A 181 581 156 HOH HOH . D 4 HOH A 182 582 88 HOH HOH . D 4 HOH A 183 583 157 HOH HOH . D 4 HOH A 184 584 164 HOH HOH . D 4 HOH A 185 585 101 HOH HOH . D 4 HOH A 186 586 122 HOH HOH . D 4 HOH A 187 587 109 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 C11 SIS . . . C 3 24.381 28.785 9.505 1 29.45 ? C11 SIS 302 A 1 HETATM 2 C C12 SIS . . . C 3 20.894 27.08 13.018 1 28.01 ? C12 SIS 302 A 1 HETATM 3 C C13 SIS . . . C 3 23.001 25.301 14.713 1 29.09 ? C13 SIS 302 A 1 HETATM 4 C C21 SIS . . . C 3 24.722 29.933 8.969 1 30.59 ? C21 SIS 302 A 1 HETATM 5 C C22 SIS . . . C 3 20.257 27.132 11.591 1 27.9 ? C22 SIS 302 A 1 HETATM 6 C C23 SIS . . . C 3 22.854 25.381 16.235 1 27.94 ? C23 SIS 302 A 1 HETATM 7 C C31 SIS . . . C 3 26.09 29.847 8.033 1 33.41 ? C31 SIS 302 A 1 HETATM 8 C C32 SIS . . . C 3 20.986 28.226 10.724 1 27.67 ? C32 SIS 302 A 1 HETATM 9 C C33 SIS . . . C 3 23.897 26.291 16.787 1 28.41 ? C33 SIS 302 A 1 HETATM 10 C C41 SIS . . . C 3 26.132 28.783 7.19 1 35.03 ? C41 SIS 302 A 1 HETATM 11 C C42 SIS . . . C 3 22.496 27.848 10.657 1 29.06 ? C42 SIS 302 A 1 HETATM 12 C C43 SIS . . . C 3 25.269 25.82 16.427 1 29.82 ? C43 SIS 302 A 1 HETATM 13 C C51 SIS . . . C 3 25.336 27.489 7.626 1 34.06 ? C51 SIS 302 A 1 HETATM 14 C C52 SIS . . . C 3 23.134 27.406 12.025 1 29.2 ? C52 SIS 302 A 1 HETATM 15 C C53 SIS . . . C 3 25.431 25.579 14.907 1 28.19 ? C53 SIS 302 A 1 HETATM 16 C C61 SIS . . . C 3 25.798 26.14 7.209 1 32.97 ? C61 SIS 302 A 1 HETATM 17 C C62 SIS . . . C 3 22.268 26.555 12.925 1 27.81 ? C62 SIS 302 A 1 HETATM 18 C C83 SIS . . . C 3 26.33 26.884 16.852 1 28.01 ? C83 SIS 302 A 1 HETATM 19 C C93 SIS . . . C 3 23.428 27.69 18.739 1 27.82 ? C93 SIS 302 A 1 HETATM 20 N N12 SIS . . . C 3 20.064 26.268 13.932 1 26.77 ? N12 SIS 302 A 1 HETATM 21 N N21 SIS . . . C 3 23.59 30.496 8.107 1 30.58 ? N21 SIS 302 A 1 HETATM 22 N N32 SIS . . . C 3 20.47 28.241 9.431 1 29.17 ? N32 SIS 302 A 1 HETATM 23 N N33 SIS . . . C 3 23.745 26.326 18.305 1 29.85 ? N33 SIS 302 A 1 HETATM 24 N N61 SIS . . . C 3 24.784 25.079 7.428 1 34.2 ? N61 SIS 302 A 1 HETATM 25 O O11 SIS . . . C 3 23.12 29.013 10.212 1 29.88 ? O11 SIS 302 A 1 HETATM 26 O O23 SIS . . . C 3 21.56 25.9 16.542 1 29.89 ? O23 SIS 302 A 1 HETATM 27 O O43 SIS . . . C 3 25.535 24.598 17.119 1 30.17 ? O43 SIS 302 A 1 HETATM 28 O O51 SIS . . . C 3 24.186 27.618 8.431 1 31.12 ? O51 SIS 302 A 1 HETATM 29 O O52 SIS . . . C 3 24.337 26.714 11.784 1 29.51 ? O52 SIS 302 A 1 HETATM 30 O O53 SIS . . . C 3 24.329 24.766 14.326 1 27.07 ? O53 SIS 302 A 1 HETATM 31 O O62 SIS . . . C 3 22.878 26.568 14.26 1 29.54 ? O62 SIS 302 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 282 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 31 #