data_6ZBM # _model_server_result.job_id 4p7kHjDFZYuSo8TI_pC-iw _model_server_result.datetime_utc '2024-11-23 12:19:26' _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 6zbm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":403}' # _entry.id 6ZBM # _exptl.entry_id 6ZBM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 338.351 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (1~{R},2~{R},3~{R},4~{S},5~{R})-4-[[(1~{S},2~{S},3~{S},4~{R},5~{R})-5-(hydroxymethyl)-2,3,4-tris(oxidanyl)cyclohexyl]oxymethyl]cyclohexane-1,2,3,5-tetrol _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 100.23 _cell.angle_gamma 90 _cell.entry_id 6ZBM _cell.length_a 43.768 _cell.length_b 66.121 _cell.length_c 49.397 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6ZBM _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _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,E,F _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 D _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 OD2 ASP 111 A ASP 124 1_555 D C1 QE8 . A QE8 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale2 D O61 QE8 . A QE8 403 1_555 E C1 MAN . A MAN 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.348 ? # _chem_comp.formula 'C14 H26 O9' _chem_comp.formula_weight 338.351 _chem_comp.id QE8 _chem_comp.mon_nstd_flag . _chem_comp.name (1~{R},2~{R},3~{R},4~{S},5~{R})-4-[[(1~{S},2~{S},3~{S},4~{R},5~{R})-5-(hydroxymethyl)-2,3,4-tris(oxidanyl)cyclohexyl]oxymethyl]cyclohexane-1,2,3,5-tetrol _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 O3 C3 QE8 sing 310 n n O2 C2 QE8 sing 311 n n C2 C3 QE8 sing 312 n n C2 C1 QE8 sing 313 n n C3 C4 QE8 sing 314 n n C4 O41 QE8 sing 315 n n C4 C51 QE8 sing 316 n n C1 C71 QE8 sing 317 n n C71 C51 QE8 sing 318 n n C71 O8 QE8 sing 319 n n C51 C61 QE8 sing 320 n n C61 O6 QE8 sing 321 n n O6 C11 QE8 sing 322 n n C6 C5 QE8 sing 323 n n C6 O61 QE8 sing 324 n n C5 C7 QE8 sing 325 n n C5 C41 QE8 sing 326 n n C7 C11 QE8 sing 327 n n C11 C21 QE8 sing 328 n n O4 C41 QE8 sing 329 n n C41 C31 QE8 sing 330 n n C31 C21 QE8 sing 331 n n C31 O31 QE8 sing 332 n n C21 O21 QE8 sing 333 n n O3 H1 QE8 sing 334 n n C4 H2 QE8 sing 335 n n C5 H3 QE8 sing 336 n n O4 H4 QE8 sing 337 n n C6 H5 QE8 sing 338 n n C6 H6 QE8 sing 339 n n C7 H7 QE8 sing 340 n n C7 H8 QE8 sing 341 n n C11 H9 QE8 sing 342 n n O8 H10 QE8 sing 343 n n C1 H11 QE8 sing 344 n n C1 H12 QE8 sing 345 n n C51 H13 QE8 sing 346 n n C61 H14 QE8 sing 347 n n C61 H15 QE8 sing 348 n n O61 H16 QE8 sing 349 n n C41 H17 QE8 sing 350 n n O41 H18 QE8 sing 351 n n C3 H19 QE8 sing 352 n n C31 H20 QE8 sing 353 n n O31 H21 QE8 sing 354 n n C2 H22 QE8 sing 355 n n C21 H23 QE8 sing 356 n n O2 H24 QE8 sing 357 n n O21 H25 QE8 sing 358 n n C71 H26 QE8 sing 359 n n # _atom_sites.entry_id 6ZBM _atom_sites.fract_transf_matrix[1][1] 0.022848 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004124 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015124 _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] 0.020571 _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 EDO A 1 401 401 EDO EDO . C 2 EDO A 1 402 501 EDO EDO . D 3 QE8 A 1 403 601 QE8 XXX . E 4 MAN A 1 404 701 MAN MAN . F 5 HOH A 1 501 149 HOH HOH . F 5 HOH A 2 502 177 HOH HOH . F 5 HOH A 3 503 148 HOH HOH . F 5 HOH A 4 504 156 HOH HOH . F 5 HOH A 5 505 39 HOH HOH . F 5 HOH A 6 506 134 HOH HOH . F 5 HOH A 7 507 76 HOH HOH . F 5 HOH A 8 508 99 HOH HOH . F 5 HOH A 9 509 130 HOH HOH . F 5 HOH A 10 510 25 HOH HOH . F 5 HOH A 11 511 28 HOH HOH . F 5 HOH A 12 512 11 HOH HOH . F 5 HOH A 13 513 119 HOH HOH . F 5 HOH A 14 514 114 HOH HOH . F 5 HOH A 15 515 110 HOH HOH . F 5 HOH A 16 516 81 HOH HOH . F 5 HOH A 17 517 105 HOH HOH . F 5 HOH A 18 518 158 HOH HOH . F 5 HOH A 19 519 180 HOH HOH . F 5 HOH A 20 520 48 HOH HOH . F 5 HOH A 21 521 161 HOH HOH . F 5 HOH A 22 522 174 HOH HOH . F 5 HOH A 23 523 126 HOH HOH . F 5 HOH A 24 524 150 HOH HOH . F 5 HOH A 25 525 131 HOH HOH . F 5 HOH A 26 526 21 HOH HOH . F 5 HOH A 27 527 133 HOH HOH . F 5 HOH A 28 528 55 HOH HOH . F 5 HOH A 29 529 184 HOH HOH . F 5 HOH A 30 530 34 HOH HOH . F 5 HOH A 31 531 188 HOH HOH . F 5 HOH A 32 532 70 HOH HOH . F 5 HOH A 33 533 86 HOH HOH . F 5 HOH A 34 534 4 HOH HOH . F 5 HOH A 35 535 20 HOH HOH . F 5 HOH A 36 536 16 HOH HOH . F 5 HOH A 37 537 33 HOH HOH . F 5 HOH A 38 538 32 HOH HOH . F 5 HOH A 39 539 168 HOH HOH . F 5 HOH A 40 540 132 HOH HOH . F 5 HOH A 41 541 30 HOH HOH . F 5 HOH A 42 542 57 HOH HOH . F 5 HOH A 43 543 9 HOH HOH . F 5 HOH A 44 544 40 HOH HOH . F 5 HOH A 45 545 111 HOH HOH . F 5 HOH A 46 546 2 HOH HOH . F 5 HOH A 47 547 1 HOH HOH . F 5 HOH A 48 548 90 HOH HOH . F 5 HOH A 49 549 124 HOH HOH . F 5 HOH A 50 550 41 HOH HOH . F 5 HOH A 51 551 107 HOH HOH . F 5 HOH A 52 552 23 HOH HOH . F 5 HOH A 53 553 18 HOH HOH . F 5 HOH A 54 554 75 HOH HOH . F 5 HOH A 55 555 44 HOH HOH . F 5 HOH A 56 556 127 HOH HOH . F 5 HOH A 57 557 66 HOH HOH . F 5 HOH A 58 558 26 HOH HOH . F 5 HOH A 59 559 172 HOH HOH . F 5 HOH A 60 560 122 HOH HOH . F 5 HOH A 61 561 95 HOH HOH . F 5 HOH A 62 562 98 HOH HOH . F 5 HOH A 63 563 17 HOH HOH . F 5 HOH A 64 564 88 HOH HOH . F 5 HOH A 65 565 64 HOH HOH . F 5 HOH A 66 566 113 HOH HOH . F 5 HOH A 67 567 61 HOH HOH . F 5 HOH A 68 568 91 HOH HOH . F 5 HOH A 69 569 106 HOH HOH . F 5 HOH A 70 570 77 HOH HOH . F 5 HOH A 71 571 53 HOH HOH . F 5 HOH A 72 572 151 HOH HOH . F 5 HOH A 73 573 82 HOH HOH . F 5 HOH A 74 574 36 HOH HOH . F 5 HOH A 75 575 31 HOH HOH . F 5 HOH A 76 576 52 HOH HOH . F 5 HOH A 77 577 170 HOH HOH . F 5 HOH A 78 578 164 HOH HOH . F 5 HOH A 79 579 185 HOH HOH . F 5 HOH A 80 580 7 HOH HOH . F 5 HOH A 81 581 27 HOH HOH . F 5 HOH A 82 582 29 HOH HOH . F 5 HOH A 83 583 147 HOH HOH . F 5 HOH A 84 584 24 HOH HOH . F 5 HOH A 85 585 83 HOH HOH . F 5 HOH A 86 586 35 HOH HOH . F 5 HOH A 87 587 94 HOH HOH . F 5 HOH A 88 588 13 HOH HOH . F 5 HOH A 89 589 8 HOH HOH . F 5 HOH A 90 590 47 HOH HOH . F 5 HOH A 91 591 182 HOH HOH . F 5 HOH A 92 592 120 HOH HOH . F 5 HOH A 93 593 128 HOH HOH . F 5 HOH A 94 594 108 HOH HOH . F 5 HOH A 95 595 136 HOH HOH . F 5 HOH A 96 596 71 HOH HOH . F 5 HOH A 97 597 19 HOH HOH . F 5 HOH A 98 598 80 HOH HOH . F 5 HOH A 99 599 74 HOH HOH . F 5 HOH A 100 600 3 HOH HOH . F 5 HOH A 101 601 166 HOH HOH . F 5 HOH A 102 602 12 HOH HOH . F 5 HOH A 103 603 176 HOH HOH . F 5 HOH A 104 604 14 HOH HOH . F 5 HOH A 105 605 72 HOH HOH . F 5 HOH A 106 606 97 HOH HOH . F 5 HOH A 107 607 175 HOH HOH . F 5 HOH A 108 608 116 HOH HOH . F 5 HOH A 109 609 145 HOH HOH . F 5 HOH A 110 610 68 HOH HOH . F 5 HOH A 111 611 54 HOH HOH . F 5 HOH A 112 612 101 HOH HOH . F 5 HOH A 113 613 60 HOH HOH . F 5 HOH A 114 614 103 HOH HOH . F 5 HOH A 115 615 46 HOH HOH . F 5 HOH A 116 616 100 HOH HOH . F 5 HOH A 117 617 59 HOH HOH . F 5 HOH A 118 618 169 HOH HOH . F 5 HOH A 119 619 123 HOH HOH . F 5 HOH A 120 620 62 HOH HOH . F 5 HOH A 121 621 178 HOH HOH . F 5 HOH A 122 622 92 HOH HOH . F 5 HOH A 123 623 85 HOH HOH . F 5 HOH A 124 624 10 HOH HOH . F 5 HOH A 125 625 73 HOH HOH . F 5 HOH A 126 626 186 HOH HOH . F 5 HOH A 127 627 37 HOH HOH . F 5 HOH A 128 628 129 HOH HOH . F 5 HOH A 129 629 138 HOH HOH . F 5 HOH A 130 630 167 HOH HOH . F 5 HOH A 131 631 56 HOH HOH . F 5 HOH A 132 632 6 HOH HOH . F 5 HOH A 133 633 43 HOH HOH . F 5 HOH A 134 634 154 HOH HOH . F 5 HOH A 135 635 160 HOH HOH . F 5 HOH A 136 636 78 HOH HOH . F 5 HOH A 137 637 121 HOH HOH . F 5 HOH A 138 638 79 HOH HOH . F 5 HOH A 139 639 187 HOH HOH . F 5 HOH A 140 640 102 HOH HOH . F 5 HOH A 141 641 42 HOH HOH . F 5 HOH A 142 642 115 HOH HOH . F 5 HOH A 143 643 58 HOH HOH . F 5 HOH A 144 644 63 HOH HOH . F 5 HOH A 145 645 96 HOH HOH . F 5 HOH A 146 646 69 HOH HOH . F 5 HOH A 147 647 50 HOH HOH . F 5 HOH A 148 648 171 HOH HOH . F 5 HOH A 149 649 84 HOH HOH . F 5 HOH A 150 650 104 HOH HOH . F 5 HOH A 151 651 159 HOH HOH . F 5 HOH A 152 652 165 HOH HOH . F 5 HOH A 153 653 51 HOH HOH . F 5 HOH A 154 654 117 HOH HOH . F 5 HOH A 155 655 5 HOH HOH . F 5 HOH A 156 656 155 HOH HOH . F 5 HOH A 157 657 109 HOH HOH . F 5 HOH A 158 658 142 HOH HOH . F 5 HOH A 159 659 135 HOH HOH . F 5 HOH A 160 660 173 HOH HOH . F 5 HOH A 161 661 139 HOH HOH . F 5 HOH A 162 662 140 HOH HOH . F 5 HOH A 163 663 65 HOH HOH . F 5 HOH A 164 664 67 HOH HOH . F 5 HOH A 165 665 144 HOH HOH . F 5 HOH A 166 666 183 HOH HOH . F 5 HOH A 167 667 137 HOH HOH . F 5 HOH A 168 668 38 HOH HOH . F 5 HOH A 169 669 87 HOH HOH . F 5 HOH A 170 670 179 HOH HOH . F 5 HOH A 171 671 181 HOH HOH . F 5 HOH A 172 672 125 HOH HOH . F 5 HOH A 173 673 112 HOH HOH . F 5 HOH A 174 674 118 HOH HOH . F 5 HOH A 175 675 143 HOH HOH . F 5 HOH A 176 676 93 HOH HOH . F 5 HOH A 177 677 146 HOH HOH . F 5 HOH A 178 678 153 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 O O3 QE8 . . . D 3 20.167 1.852 16.827 1 11.41 ? O3 QE8 403 A 1 HETATM 2 C C4 QE8 . . . D 3 19.038 3.2 18.582 1 9.41 ? C4 QE8 403 A 1 HETATM 3 C C5 QE8 . . . D 3 15.441 6.938 21.864 1 9.65 ? C5 QE8 403 A 1 HETATM 4 O O4 QE8 . . . D 3 13.188 6.412 22.575 1 9.5 ? O4 QE8 403 A 1 HETATM 5 C C6 QE8 . . . D 3 15.2 8.409 21.751 1 11.26 ? C6 QE8 403 A 1 HETATM 6 C C7 QE8 . . . D 3 16.928 6.788 22.17 1 11.27 ? C7 QE8 403 A 1 HETATM 7 O O6 QE8 . . . D 3 17.046 4.508 21.473 1 11.45 ? O6 QE8 403 A 1 HETATM 8 C C11 QE8 . . . D 3 17.29 5.384 22.566 1 10.71 ? C11 QE8 403 A 1 HETATM 9 O O8 QE8 . . . D 3 16.566 1.976 21.156 1 9.39 ? O8 QE8 403 A 1 HETATM 10 C C1 QE8 . . . D 3 17.626 0.76 19.416 1 8.59 ? C1 QE8 403 A 1 HETATM 11 C C51 QE8 . . . D 3 18.305 3.184 19.943 1 8.94 ? C51 QE8 403 A 1 HETATM 12 C C61 QE8 . . . D 3 17.873 4.603 20.295 1 10.4 ? C61 QE8 403 A 1 HETATM 13 O O61 QE8 . . . D 3 15.581 9.097 22.938 1 10.28 ? O61 QE8 403 A 1 HETATM 14 C C41 QE8 . . . D 3 14.573 6.313 22.99 1 9.12 ? C41 QE8 403 A 1 HETATM 15 O O41 QE8 . . . D 3 20.226 3.982 18.748 1 10.5 ? O41 QE8 403 A 1 HETATM 16 C C3 QE8 . . . D 3 19.506 1.812 18.156 1 9.5 ? C3 QE8 403 A 1 HETATM 17 C C31 QE8 . . . D 3 14.961 4.877 23.327 1 8.18 ? C31 QE8 403 A 1 HETATM 18 O O31 QE8 . . . D 3 14.111 4.352 24.368 1 9.19 ? O31 QE8 403 A 1 HETATM 19 C C2 QE8 . . . D 3 18.319 0.85 18.055 1 9.46 ? C2 QE8 403 A 1 HETATM 20 C C21 QE8 . . . D 3 16.435 4.848 23.725 1 10.33 ? C21 QE8 403 A 1 HETATM 21 O O2 QE8 . . . D 3 17.401 1.224 17.069 1 9.29 ? O2 QE8 403 A 1 HETATM 22 O O21 QE8 . . . D 3 16.692 5.587 24.947 1 10.24 ? O21 QE8 403 A 1 HETATM 23 C C71 QE8 . . . D 3 17.174 2.161 19.854 1 7.85 ? C71 QE8 403 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 272 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 23 #