data_5HGC # _model_server_result.job_id reBwAboPzAFIEqREIDb81w _model_server_result.datetime_utc '2024-11-27 08:25:00' _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 5hgc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":505}' # _entry.id 5HGC # _exptl.entry_id 5HGC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 178.186 _entity.id 4 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2,6-diamino-2,6-dideoxy-alpha-D-glucopyranose _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 5HGC _cell.length_a 116.15 _cell.length_b 116.15 _cell.length_c 72.73 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5HGC _symmetry.cell_setting ? _symmetry.Int_Tables_number 173 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 63' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 PISA trimeric 3 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H 1 1 A,B,C,D,E,F,G,H 2 1,2,3 # 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_665 -y+1,x-y+1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 58.075 100.588851 0 3 'crystal symmetry operation' 3_565 -x+y,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -58.075 100.588851 0 # _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 # _chem_comp.formula 'C6 H14 N2 O4' _chem_comp.formula_weight 178.186 _chem_comp.id BDG _chem_comp.mon_nstd_flag . _chem_comp.name 2,6-diamino-2,6-dideoxy-alpha-D-glucopyranose _chem_comp.type 'd-saccharide, alpha linking' _chem_comp.pdbx_synonyms O-2,6-DIAMINO-2,6-DIDEOXY-ALPHA-D-GLUCOPYRANOSE;2,6-diamino-2,6-dideoxy-alpha-D-glucose;2,6-diamino-2,6-dideoxy-D-glucose;2,6-diamino-2,6-dideoxy-glucose # 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 C5 O5 BDG sing 70 n n C5 C4 BDG sing 71 n n C5 C6 BDG sing 72 n n C5 H5 BDG sing 73 n n O5 C1 BDG sing 74 n n C1 O1 BDG sing 75 n n C1 C2 BDG sing 76 n n C1 H1 BDG sing 77 n n O1 HO1 BDG sing 78 n n C2 N2 BDG sing 79 n n C2 C3 BDG sing 80 n n C2 H2 BDG sing 81 n n N2 HN21 BDG sing 82 n n N2 HN22 BDG sing 83 n n C3 O3 BDG sing 84 n n C3 C4 BDG sing 85 n n C3 H3 BDG sing 86 n n O3 HO3 BDG sing 87 n n C4 O4 BDG sing 88 n n C4 H4 BDG sing 89 n n O4 HO4 BDG sing 90 n n C6 N6 BDG sing 91 n n C6 H61 BDG sing 92 n n C6 H62 BDG sing 93 n n N6 HN61 BDG sing 94 n n N6 HN62 BDG sing 95 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 BDG DGlcpN[6N]a 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 BDG a-D-GlcpN6N 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 # _atom_sites.entry_id 5HGC _atom_sites.fract_transf_matrix[1][1] 0.00861 _atom_sites.fract_transf_matrix[1][2] 0.004971 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009941 _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] 0.013749 _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 HCY A 1 501 1 HCY HCY . C 3 SO4 A 1 502 501 SO4 SO4 . D 3 SO4 A 1 503 502 SO4 SO4 . E 3 SO4 A 1 504 503 SO4 SO4 . F 4 BDG A 1 505 504 BDG BDG . G 3 SO4 A 1 506 505 SO4 SO4 . H 5 HOH A 1 601 89 HOH HOH . H 5 HOH A 2 602 110 HOH HOH . H 5 HOH A 3 603 66 HOH HOH . H 5 HOH A 4 604 122 HOH HOH . H 5 HOH A 5 605 70 HOH HOH . H 5 HOH A 6 606 32 HOH HOH . H 5 HOH A 7 607 115 HOH HOH . H 5 HOH A 8 608 129 HOH HOH . H 5 HOH A 9 609 75 HOH HOH . H 5 HOH A 10 610 48 HOH HOH . H 5 HOH A 11 611 140 HOH HOH . H 5 HOH A 12 612 72 HOH HOH . H 5 HOH A 13 613 20 HOH HOH . H 5 HOH A 14 614 59 HOH HOH . H 5 HOH A 15 615 4 HOH HOH . H 5 HOH A 16 616 8 HOH HOH . H 5 HOH A 17 617 71 HOH HOH . H 5 HOH A 18 618 27 HOH HOH . H 5 HOH A 19 619 50 HOH HOH . H 5 HOH A 20 620 18 HOH HOH . H 5 HOH A 21 621 29 HOH HOH . H 5 HOH A 22 622 78 HOH HOH . H 5 HOH A 23 623 41 HOH HOH . H 5 HOH A 24 624 95 HOH HOH . H 5 HOH A 25 625 99 HOH HOH . H 5 HOH A 26 626 79 HOH HOH . H 5 HOH A 27 627 61 HOH HOH . H 5 HOH A 28 628 49 HOH HOH . H 5 HOH A 29 629 31 HOH HOH . H 5 HOH A 30 630 68 HOH HOH . H 5 HOH A 31 631 14 HOH HOH . H 5 HOH A 32 632 87 HOH HOH . H 5 HOH A 33 633 19 HOH HOH . H 5 HOH A 34 634 55 HOH HOH . H 5 HOH A 35 635 94 HOH HOH . H 5 HOH A 36 636 112 HOH HOH . H 5 HOH A 37 637 37 HOH HOH . H 5 HOH A 38 638 114 HOH HOH . H 5 HOH A 39 639 35 HOH HOH . H 5 HOH A 40 640 34 HOH HOH . H 5 HOH A 41 641 69 HOH HOH . H 5 HOH A 42 642 74 HOH HOH . H 5 HOH A 43 643 17 HOH HOH . H 5 HOH A 44 644 65 HOH HOH . H 5 HOH A 45 645 109 HOH HOH . H 5 HOH A 46 646 107 HOH HOH . H 5 HOH A 47 647 1 HOH HOH . H 5 HOH A 48 648 10 HOH HOH . H 5 HOH A 49 649 136 HOH HOH . H 5 HOH A 50 650 85 HOH HOH . H 5 HOH A 51 651 125 HOH HOH . H 5 HOH A 52 652 86 HOH HOH . H 5 HOH A 53 653 51 HOH HOH . H 5 HOH A 54 654 25 HOH HOH . H 5 HOH A 55 655 143 HOH HOH . H 5 HOH A 56 656 124 HOH HOH . H 5 HOH A 57 657 2 HOH HOH . H 5 HOH A 58 658 80 HOH HOH . H 5 HOH A 59 659 28 HOH HOH . H 5 HOH A 60 660 139 HOH HOH . H 5 HOH A 61 661 76 HOH HOH . H 5 HOH A 62 662 3 HOH HOH . H 5 HOH A 63 663 23 HOH HOH . H 5 HOH A 64 664 5 HOH HOH . H 5 HOH A 65 665 77 HOH HOH . H 5 HOH A 66 666 47 HOH HOH . H 5 HOH A 67 667 97 HOH HOH . H 5 HOH A 68 668 57 HOH HOH . H 5 HOH A 69 669 9 HOH HOH . H 5 HOH A 70 670 45 HOH HOH . H 5 HOH A 71 671 15 HOH HOH . H 5 HOH A 72 672 58 HOH HOH . H 5 HOH A 73 673 82 HOH HOH . H 5 HOH A 74 674 83 HOH HOH . H 5 HOH A 75 675 7 HOH HOH . H 5 HOH A 76 676 33 HOH HOH . H 5 HOH A 77 677 104 HOH HOH . H 5 HOH A 78 678 113 HOH HOH . H 5 HOH A 79 679 16 HOH HOH . H 5 HOH A 80 680 167 HOH HOH . H 5 HOH A 81 681 111 HOH HOH . H 5 HOH A 82 682 63 HOH HOH . H 5 HOH A 83 683 22 HOH HOH . H 5 HOH A 84 684 141 HOH HOH . H 5 HOH A 85 685 120 HOH HOH . H 5 HOH A 86 686 40 HOH HOH . H 5 HOH A 87 687 142 HOH HOH . H 5 HOH A 88 688 92 HOH HOH . H 5 HOH A 89 689 12 HOH HOH . H 5 HOH A 90 690 60 HOH HOH . H 5 HOH A 91 691 91 HOH HOH . H 5 HOH A 92 692 118 HOH HOH . H 5 HOH A 93 693 185 HOH HOH . H 5 HOH A 94 694 138 HOH HOH . H 5 HOH A 95 695 21 HOH HOH . H 5 HOH A 96 696 38 HOH HOH . H 5 HOH A 97 697 36 HOH HOH . H 5 HOH A 98 698 42 HOH HOH . H 5 HOH A 99 699 101 HOH HOH . H 5 HOH A 100 700 46 HOH HOH . H 5 HOH A 101 701 184 HOH HOH . H 5 HOH A 102 702 116 HOH HOH . H 5 HOH A 103 703 64 HOH HOH . H 5 HOH A 104 704 96 HOH HOH . H 5 HOH A 105 705 67 HOH HOH . H 5 HOH A 106 706 53 HOH HOH . H 5 HOH A 107 707 119 HOH HOH . H 5 HOH A 108 708 26 HOH HOH . H 5 HOH A 109 709 179 HOH HOH . H 5 HOH A 110 710 44 HOH HOH . H 5 HOH A 111 711 54 HOH HOH . H 5 HOH A 112 712 39 HOH HOH . H 5 HOH A 113 713 93 HOH HOH . H 5 HOH A 114 714 102 HOH HOH . H 5 HOH A 115 715 117 HOH HOH . H 5 HOH A 116 716 43 HOH HOH . H 5 HOH A 117 717 146 HOH HOH . H 5 HOH A 118 718 173 HOH HOH . H 5 HOH A 119 719 174 HOH HOH . H 5 HOH A 120 720 137 HOH HOH . H 5 HOH A 121 721 13 HOH HOH . H 5 HOH A 122 722 123 HOH HOH . H 5 HOH A 123 723 121 HOH HOH . H 5 HOH A 124 724 98 HOH HOH . H 5 HOH A 125 725 180 HOH HOH . H 5 HOH A 126 726 126 HOH HOH . H 5 HOH A 127 727 135 HOH HOH . H 5 HOH A 128 728 133 HOH HOH . H 5 HOH A 129 729 131 HOH HOH . H 5 HOH A 130 730 6 HOH HOH . H 5 HOH A 131 731 148 HOH HOH . H 5 HOH A 132 732 24 HOH HOH . H 5 HOH A 133 733 130 HOH HOH . H 5 HOH A 134 734 100 HOH HOH . H 5 HOH A 135 735 11 HOH HOH . H 5 HOH A 136 736 127 HOH HOH . H 5 HOH A 137 737 73 HOH HOH . H 5 HOH A 138 738 164 HOH HOH . H 5 HOH A 139 739 170 HOH HOH . H 5 HOH A 140 740 162 HOH HOH . H 5 HOH A 141 741 186 HOH HOH . H 5 HOH A 142 742 154 HOH HOH . H 5 HOH A 143 743 165 HOH HOH . H 5 HOH A 144 744 155 HOH HOH . H 5 HOH A 145 745 171 HOH HOH . H 5 HOH A 146 746 106 HOH HOH . H 5 HOH A 147 747 181 HOH HOH . H 5 HOH A 148 748 147 HOH HOH . H 5 HOH A 149 749 163 HOH HOH . H 5 HOH A 150 750 183 HOH HOH . H 5 HOH A 151 751 152 HOH HOH . H 5 HOH A 152 752 166 HOH HOH . H 5 HOH A 153 753 176 HOH HOH . H 5 HOH A 154 754 105 HOH HOH . H 5 HOH A 155 755 128 HOH HOH . H 5 HOH A 156 756 145 HOH HOH . H 5 HOH A 157 757 178 HOH HOH . H 5 HOH A 158 758 156 HOH HOH . H 5 HOH A 159 759 157 HOH HOH . H 5 HOH A 160 760 84 HOH HOH . H 5 HOH A 161 761 108 HOH HOH . H 5 HOH A 162 762 81 HOH HOH . H 5 HOH A 163 763 160 HOH HOH . H 5 HOH A 164 764 149 HOH HOH . H 5 HOH A 165 765 161 HOH HOH . H 5 HOH A 166 766 168 HOH HOH . H 5 HOH A 167 767 52 HOH HOH . H 5 HOH A 168 768 153 HOH HOH . H 5 HOH A 169 769 169 HOH HOH . H 5 HOH A 170 770 30 HOH HOH . H 5 HOH A 171 771 88 HOH HOH . H 5 HOH A 172 772 182 HOH HOH . H 5 HOH A 173 773 62 HOH HOH . H 5 HOH A 174 774 151 HOH HOH . H 5 HOH A 175 775 158 HOH HOH . H 5 HOH A 176 776 90 HOH HOH . H 5 HOH A 177 777 144 HOH HOH . H 5 HOH A 178 778 172 HOH HOH . H 5 HOH A 179 779 132 HOH HOH . H 5 HOH A 180 780 56 HOH HOH . H 5 HOH A 181 781 150 HOH HOH . H 5 HOH A 182 782 134 HOH HOH . H 5 HOH A 183 783 177 HOH HOH . H 5 HOH A 184 784 103 HOH HOH . H 5 HOH A 185 785 159 HOH HOH . H 5 HOH A 186 786 175 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 C5 BDG . . . F 4 5.171 67.092 41.967 1 87.4 ? C5 BDG 505 A 1 HETATM 2 O O5 BDG . . . F 4 5.664 68.343 42.543 1 84.21 ? O5 BDG 505 A 1 HETATM 3 C C1 BDG . . . F 4 4.922 68.951 43.662 1 88.77 ? C1 BDG 505 A 1 HETATM 4 O O1 BDG . . . F 4 5.647 70.081 44.228 1 77.76 ? O1 BDG 505 A 1 HETATM 5 C C2 BDG . . . F 4 4.381 67.905 44.711 1 80.45 ? C2 BDG 505 A 1 HETATM 6 N N2 BDG . . . F 4 4.444 68.389 46.086 1 72.32 ? N2 BDG 505 A 1 HETATM 7 C C3 BDG . . . F 4 4.944 66.453 44.514 1 76.83 ? C3 BDG 505 A 1 HETATM 8 O O3 BDG . . . F 4 4.424 65.481 45.477 1 53.6 ? O3 BDG 505 A 1 HETATM 9 C C4 BDG . . . F 4 4.761 66.023 43.018 1 79.69 ? C4 BDG 505 A 1 HETATM 10 O O4 BDG . . . F 4 5.406 64.797 42.662 1 61.58 ? O4 BDG 505 A 1 HETATM 11 C C6 BDG . . . F 4 3.984 67.29 40.994 1 93.9 ? C6 BDG 505 A 1 HETATM 12 N N6 BDG . . . F 4 4.123 68.467 40.148 1 85.29 ? N6 BDG 505 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 1423 _model_server_stats.encode_time_ms 15 _model_server_stats.element_count 12 #