data_8FUW # _model_server_result.job_id asG_1bVrau5NFX1e6L7BsQ _model_server_result.datetime_utc '2024-11-13 06:13:32' _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 8fuw # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":503}' # _entry.id 8FUW # _exptl.entry_id 8FUW _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 238.192 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '3-deoxy-alpha-D-manno-oct-2-ulopyranosonic acid' _entity.pdbx_number_of_molecules 2 _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 8FUW _cell.length_a 64.38 _cell.length_b 64.38 _cell.length_c 139.2 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8FUW _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall 'P 31 2"' _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 C N N ? 3 D N N # _chem_comp.formula 'C8 H14 O8' _chem_comp.formula_weight 238.192 _chem_comp.id KDO _chem_comp.mon_nstd_flag . _chem_comp.name '3-deoxy-alpha-D-manno-oct-2-ulopyranosonic acid' _chem_comp.type 'd-saccharide, alpha linking' _chem_comp.pdbx_synonyms '3-deoxy-d-manno-oct-2-ulopyranosonic acid;2-keto-3-deoxy-D-mannooctanoic acid;3-deoxy-alpha-D-manno-oct-2-ulosonic acid;3-deoxy-D-manno-oct-2-ulosonic acid;3-deoxy-manno-oct-2-ulosonic acid' # 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 C1 O1A KDO doub 209 n n C1 O1B KDO sing 210 n n C1 C2 KDO sing 211 n n O1B HO1B KDO sing 212 n n C2 O2 KDO sing 213 n n C2 C3 KDO sing 214 n n C2 O6 KDO sing 215 n n O2 HO2 KDO sing 216 n n C3 C4 KDO sing 217 n n C3 H31 KDO sing 218 n n C3 H32 KDO sing 219 n n C4 O4 KDO sing 220 n n C4 C5 KDO sing 221 n n C4 H4 KDO sing 222 n n O4 HO4 KDO sing 223 n n C5 O5 KDO sing 224 n n C5 C6 KDO sing 225 n n C5 H5 KDO sing 226 n n O5 HO5 KDO sing 227 n n C6 O6 KDO sing 228 n n C6 C7 KDO sing 229 n n C6 H6 KDO sing 230 n n C7 O7 KDO sing 231 n n C7 C8 KDO sing 232 n n C7 H7 KDO sing 233 n n O7 HO7 KDO sing 234 n n C8 O8 KDO sing 235 n n C8 H81 KDO sing 236 n n C8 H82 KDO sing 237 n n O8 HO8 KDO sing 238 n n # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.identifier _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version KDO DKdopa 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 KDO a-D-Kdop 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 KDO Kdo 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 8FUW _atom_sites.fract_transf_matrix[1][1] 0.015533 _atom_sites.fract_transf_matrix[1][2] 0.008968 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.017936 _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] 0.007184 _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 C5P A 1 501 501 C5P C5P . C 3 KDO A 1 502 1 KDO KDO . D 3 KDO A 1 503 3 KDO KDO . E 4 CL A 1 504 1 CL CL . F 5 HOH A 1 601 69 HOH HOH . F 5 HOH A 2 602 51 HOH HOH . F 5 HOH A 3 603 93 HOH HOH . F 5 HOH A 4 604 98 HOH HOH . F 5 HOH A 5 605 29 HOH HOH . F 5 HOH A 6 606 21 HOH HOH . F 5 HOH A 7 607 68 HOH HOH . F 5 HOH A 8 608 55 HOH HOH . F 5 HOH A 9 609 90 HOH HOH . F 5 HOH A 10 610 40 HOH HOH . F 5 HOH A 11 611 36 HOH HOH . F 5 HOH A 12 612 47 HOH HOH . F 5 HOH A 13 613 64 HOH HOH . F 5 HOH A 14 614 37 HOH HOH . F 5 HOH A 15 615 91 HOH HOH . F 5 HOH A 16 616 100 HOH HOH . F 5 HOH A 17 617 14 HOH HOH . F 5 HOH A 18 618 59 HOH HOH . F 5 HOH A 19 619 48 HOH HOH . F 5 HOH A 20 620 46 HOH HOH . F 5 HOH A 21 621 17 HOH HOH . F 5 HOH A 22 622 79 HOH HOH . F 5 HOH A 23 623 7 HOH HOH . F 5 HOH A 24 624 77 HOH HOH . F 5 HOH A 25 625 108 HOH HOH . F 5 HOH A 26 626 42 HOH HOH . F 5 HOH A 27 627 52 HOH HOH . F 5 HOH A 28 628 65 HOH HOH . F 5 HOH A 29 629 106 HOH HOH . F 5 HOH A 30 630 35 HOH HOH . F 5 HOH A 31 631 19 HOH HOH . F 5 HOH A 32 632 60 HOH HOH . F 5 HOH A 33 633 28 HOH HOH . F 5 HOH A 34 634 31 HOH HOH . F 5 HOH A 35 635 34 HOH HOH . F 5 HOH A 36 636 26 HOH HOH . F 5 HOH A 37 637 61 HOH HOH . F 5 HOH A 38 638 94 HOH HOH . F 5 HOH A 39 639 2 HOH HOH . F 5 HOH A 40 640 80 HOH HOH . F 5 HOH A 41 641 38 HOH HOH . F 5 HOH A 42 642 75 HOH HOH . F 5 HOH A 43 643 63 HOH HOH . F 5 HOH A 44 644 95 HOH HOH . F 5 HOH A 45 645 20 HOH HOH . F 5 HOH A 46 646 30 HOH HOH . F 5 HOH A 47 647 5 HOH HOH . F 5 HOH A 48 648 72 HOH HOH . F 5 HOH A 49 649 70 HOH HOH . F 5 HOH A 50 650 8 HOH HOH . F 5 HOH A 51 651 104 HOH HOH . F 5 HOH A 52 652 3 HOH HOH . F 5 HOH A 53 653 1 HOH HOH . F 5 HOH A 54 654 67 HOH HOH . F 5 HOH A 55 655 49 HOH HOH . F 5 HOH A 56 656 27 HOH HOH . F 5 HOH A 57 657 15 HOH HOH . F 5 HOH A 58 658 24 HOH HOH . F 5 HOH A 59 659 10 HOH HOH . F 5 HOH A 60 660 41 HOH HOH . F 5 HOH A 61 661 12 HOH HOH . F 5 HOH A 62 662 6 HOH HOH . F 5 HOH A 63 663 43 HOH HOH . F 5 HOH A 64 664 22 HOH HOH . F 5 HOH A 65 665 9 HOH HOH . F 5 HOH A 66 666 39 HOH HOH . F 5 HOH A 67 667 23 HOH HOH . F 5 HOH A 68 668 76 HOH HOH . F 5 HOH A 69 669 32 HOH HOH . F 5 HOH A 70 670 25 HOH HOH . F 5 HOH A 71 671 105 HOH HOH . F 5 HOH A 72 672 82 HOH HOH . F 5 HOH A 73 673 18 HOH HOH . F 5 HOH A 74 674 83 HOH HOH . F 5 HOH A 75 675 4 HOH HOH . F 5 HOH A 76 676 13 HOH HOH . F 5 HOH A 77 677 92 HOH HOH . F 5 HOH A 78 678 45 HOH HOH . F 5 HOH A 79 679 57 HOH HOH . F 5 HOH A 80 680 16 HOH HOH . F 5 HOH A 81 681 103 HOH HOH . F 5 HOH A 82 682 11 HOH HOH . F 5 HOH A 83 683 85 HOH HOH . F 5 HOH A 84 684 81 HOH HOH . F 5 HOH A 85 685 62 HOH HOH . F 5 HOH A 86 686 89 HOH HOH . F 5 HOH A 87 687 33 HOH HOH . F 5 HOH A 88 688 102 HOH HOH . F 5 HOH A 89 689 96 HOH HOH . F 5 HOH A 90 690 97 HOH HOH . F 5 HOH A 91 691 88 HOH HOH . F 5 HOH A 92 692 87 HOH HOH . F 5 HOH A 93 693 53 HOH HOH . F 5 HOH A 94 694 44 HOH HOH . F 5 HOH A 95 695 71 HOH HOH . F 5 HOH A 96 696 109 HOH HOH . F 5 HOH A 97 697 74 HOH HOH . F 5 HOH A 98 698 56 HOH HOH . F 5 HOH A 99 699 54 HOH HOH . F 5 HOH A 100 700 107 HOH HOH . F 5 HOH A 101 701 66 HOH HOH . F 5 HOH A 102 702 78 HOH HOH . F 5 HOH A 103 703 50 HOH HOH . F 5 HOH A 104 704 101 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 KDO . . . D 3 36.862 -9.589 16.97 0.79 75.33 ? C1 KDO 503 A 1 HETATM 2 O O1A KDO . . . D 3 36.52 -8.81 16.061 0.79 84.66 ? O1A KDO 503 A 1 HETATM 3 O O1B KDO . . . D 3 37.894 -10.321 16.833 0.79 85.87 ? O1B KDO 503 A 1 HETATM 4 C C2 KDO . . . D 3 36.034 -9.618 18.25 0.79 79.25 ? C2 KDO 503 A 1 HETATM 5 O O2 KDO . . . D 3 36.701 -10.345 19.196 0.79 87.67 ? O2 KDO 503 A 1 HETATM 6 C C3 KDO . . . D 3 35.957 -8.188 18.737 0.79 80.39 ? C3 KDO 503 A 1 HETATM 7 C C4 KDO . . . D 3 34.726 -7.553 18.226 0.79 79.77 ? C4 KDO 503 A 1 HETATM 8 O O4 KDO . . . D 3 34.703 -7.769 16.773 0.79 67.03 ? O4 KDO 503 A 1 HETATM 9 C C5 KDO . . . D 3 33.481 -8.166 18.81 0.79 74.64 ? C5 KDO 503 A 1 HETATM 10 O O5 KDO . . . D 3 32.388 -7.937 17.906 0.79 71.93 ? O5 KDO 503 A 1 HETATM 11 C C6 KDO . . . D 3 33.712 -9.678 19.022 0.79 79.55 ? C6 KDO 503 A 1 HETATM 12 O O6 KDO . . . D 3 34.639 -10.195 17.995 0.79 72.3 ? O6 KDO 503 A 1 HETATM 13 C C7 KDO . . . D 3 32.379 -10.353 19.097 0.79 75.42 ? C7 KDO 503 A 1 HETATM 14 O O7 KDO . . . D 3 32.504 -11.455 20.001 0.79 80.29 ? O7 KDO 503 A 1 HETATM 15 C C8 KDO . . . D 3 31.882 -10.846 17.759 0.79 54.75 ? C8 KDO 503 A 1 HETATM 16 O O8 KDO . . . D 3 30.679 -10.182 17.571 0.79 53.08 ? O8 KDO 503 A 1 HETATM 17 H HO2 KDO . . . D 3 36.787 -11.15 18.924 0.79 105.41 ? HO2 KDO 503 A 1 HETATM 18 H H31 KDO . . . D 3 36.731 -7.697 18.418 0.79 96.66 ? H31 KDO 503 A 1 HETATM 19 H H32 KDO . . . D 3 35.949 -8.177 19.707 0.79 96.66 ? H32 KDO 503 A 1 HETATM 20 H H4 KDO . . . D 3 34.734 -6.607 18.442 0.79 95.93 ? H4 KDO 503 A 1 HETATM 21 H HO4 KDO . . . D 3 34.619 -7.013 16.38 0.79 80.64 ? HO4 KDO 503 A 1 HETATM 22 H H5 KDO . . . D 3 33.241 -7.754 19.654 0.79 89.77 ? H5 KDO 503 A 1 HETATM 23 H HO5 KDO . . . D 3 32.026 -7.189 18.094 0.79 86.51 ? HO5 KDO 503 A 1 HETATM 24 H H6 KDO . . . D 3 34.127 -9.888 19.873 0.79 95.66 ? H6 KDO 503 A 1 HETATM 25 H H7 KDO . . . D 3 31.726 -9.704 19.403 0.79 90.71 ? H7 KDO 503 A 1 HETATM 26 H HO7 KDO . . . D 3 31.938 -11.394 20.626 0.79 96.55 ? HO7 KDO 503 A 1 HETATM 27 H H81 KDO . . . D 3 32.511 -10.622 17.055 0.79 65.9 ? H81 KDO 503 A 1 HETATM 28 H H82 KDO . . . D 3 31.745 -11.806 17.776 0.79 65.9 ? H82 KDO 503 A 1 HETATM 29 H HO8 KDO . . . D 3 30.174 -10.664 17.08 0.79 63.89 ? HO8 KDO 503 A 1 # _model_server_stats.io_time_ms 23 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 230 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 29 #