data_8ST5 # _model_server_result.job_id 1_TTCtKEOf4nWZ6eQznn-w _model_server_result.datetime_utc '2024-10-11 05:19:59' _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 8st5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":501}' # _entry.id 8ST5 # _exptl.entry_id 8ST5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SODIUM ION' _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 90 _cell.entry_id 8ST5 _cell.length_a 46.067 _cell.length_b 57.695 _cell.length_c 75.952 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8ST5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall 'P 2ac 2ab' _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details ? _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 # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 SIA _pdbx_entity_branch_link.comp_id_2 GAL _pdbx_entity_branch_link.atom_id_1 C2 _pdbx_entity_branch_link.leaving_atom_id_1 O2 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O3 _pdbx_entity_branch_link.leaving_atom_id_2 HO3 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n B GAL 1 K 1 GAL K 2 GAL 2 n B SIA 2 K 2 SIA K 1 SIA # 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 B O3 GAL . K GAL 1 1_555 B C2 SIA . K SIA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.389 ? metalc ? metalc1 A O ASN 155 A ASN 374 1_555 C NA NA . A NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.383 ? metalc ? metalc2 A O TYR 158 A TYR 377 1_555 C NA NA . A NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.227 ? metalc ? metalc3 A OD1 ASP 217 A ASP 436 1_555 C NA NA . A NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.629 ? metalc ? metalc4 A OD2 ASP 217 A ASP 436 1_555 C NA NA . A NA 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.375 ? metalc ? metalc5 C NA NA . A NA 501 1_555 D O HOH . A HOH 808 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.328 ? metalc ? metalc6 C NA NA . A NA 501 1_555 D O HOH . A HOH 812 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.563 ? # _chem_comp.formula 'Na 1' _chem_comp.formula_weight 22.99 _chem_comp.id NA _chem_comp.mon_nstd_flag . _chem_comp.name 'SODIUM ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 8ST5 _atom_sites.fract_transf_matrix[1][1] 0.021708 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.017333 _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] 0.013166 _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 C 3 NA A 1 501 502 NA NA . D 4 HOH A 1 601 252 HOH HOH . D 4 HOH A 2 602 169 HOH HOH . D 4 HOH A 3 603 118 HOH HOH . D 4 HOH A 4 604 189 HOH HOH . D 4 HOH A 5 605 205 HOH HOH . D 4 HOH A 6 606 269 HOH HOH . D 4 HOH A 7 607 215 HOH HOH . D 4 HOH A 8 608 37 HOH HOH . D 4 HOH A 9 609 68 HOH HOH . D 4 HOH A 10 610 239 HOH HOH . D 4 HOH A 11 611 64 HOH HOH . D 4 HOH A 12 612 98 HOH HOH . D 4 HOH A 13 613 232 HOH HOH . D 4 HOH A 14 614 58 HOH HOH . D 4 HOH A 15 615 213 HOH HOH . D 4 HOH A 16 616 183 HOH HOH . D 4 HOH A 17 617 249 HOH HOH . D 4 HOH A 18 618 125 HOH HOH . D 4 HOH A 19 619 220 HOH HOH . D 4 HOH A 20 620 137 HOH HOH . D 4 HOH A 21 621 196 HOH HOH . D 4 HOH A 22 622 106 HOH HOH . D 4 HOH A 23 623 23 HOH HOH . D 4 HOH A 24 624 162 HOH HOH . D 4 HOH A 25 625 71 HOH HOH . D 4 HOH A 26 626 29 HOH HOH . D 4 HOH A 27 627 262 HOH HOH . D 4 HOH A 28 628 159 HOH HOH . D 4 HOH A 29 629 1 HOH HOH . D 4 HOH A 30 630 13 HOH HOH . D 4 HOH A 31 631 18 HOH HOH . D 4 HOH A 32 632 203 HOH HOH . D 4 HOH A 33 633 167 HOH HOH . D 4 HOH A 34 634 92 HOH HOH . D 4 HOH A 35 635 50 HOH HOH . D 4 HOH A 36 636 48 HOH HOH . D 4 HOH A 37 637 86 HOH HOH . D 4 HOH A 38 638 219 HOH HOH . D 4 HOH A 39 639 265 HOH HOH . D 4 HOH A 40 640 32 HOH HOH . D 4 HOH A 41 641 65 HOH HOH . D 4 HOH A 42 642 45 HOH HOH . D 4 HOH A 43 643 74 HOH HOH . D 4 HOH A 44 644 143 HOH HOH . D 4 HOH A 45 645 245 HOH HOH . D 4 HOH A 46 646 25 HOH HOH . D 4 HOH A 47 647 214 HOH HOH . D 4 HOH A 48 648 275 HOH HOH . D 4 HOH A 49 649 16 HOH HOH . D 4 HOH A 50 650 24 HOH HOH . D 4 HOH A 51 651 56 HOH HOH . D 4 HOH A 52 652 100 HOH HOH . D 4 HOH A 53 653 146 HOH HOH . D 4 HOH A 54 654 124 HOH HOH . D 4 HOH A 55 655 70 HOH HOH . D 4 HOH A 56 656 110 HOH HOH . D 4 HOH A 57 657 9 HOH HOH . D 4 HOH A 58 658 7 HOH HOH . D 4 HOH A 59 659 31 HOH HOH . D 4 HOH A 60 660 21 HOH HOH . D 4 HOH A 61 661 51 HOH HOH . D 4 HOH A 62 662 133 HOH HOH . D 4 HOH A 63 663 127 HOH HOH . D 4 HOH A 64 664 178 HOH HOH . D 4 HOH A 65 665 254 HOH HOH . D 4 HOH A 66 666 35 HOH HOH . D 4 HOH A 67 667 19 HOH HOH . D 4 HOH A 68 668 132 HOH HOH . D 4 HOH A 69 669 5 HOH HOH . D 4 HOH A 70 670 10 HOH HOH . D 4 HOH A 71 671 57 HOH HOH . D 4 HOH A 72 672 273 HOH HOH . D 4 HOH A 73 673 190 HOH HOH . D 4 HOH A 74 674 218 HOH HOH . D 4 HOH A 75 675 160 HOH HOH . D 4 HOH A 76 676 43 HOH HOH . D 4 HOH A 77 677 96 HOH HOH . D 4 HOH A 78 678 38 HOH HOH . D 4 HOH A 79 679 39 HOH HOH . D 4 HOH A 80 680 157 HOH HOH . D 4 HOH A 81 681 4 HOH HOH . D 4 HOH A 82 682 136 HOH HOH . D 4 HOH A 83 683 66 HOH HOH . D 4 HOH A 84 684 93 HOH HOH . D 4 HOH A 85 685 15 HOH HOH . D 4 HOH A 86 686 158 HOH HOH . D 4 HOH A 87 687 209 HOH HOH . D 4 HOH A 88 688 33 HOH HOH . D 4 HOH A 89 689 126 HOH HOH . D 4 HOH A 90 690 121 HOH HOH . D 4 HOH A 91 691 2 HOH HOH . D 4 HOH A 92 692 20 HOH HOH . D 4 HOH A 93 693 42 HOH HOH . D 4 HOH A 94 694 147 HOH HOH . D 4 HOH A 95 695 12 HOH HOH . D 4 HOH A 96 696 135 HOH HOH . D 4 HOH A 97 697 108 HOH HOH . D 4 HOH A 98 698 166 HOH HOH . D 4 HOH A 99 699 259 HOH HOH . D 4 HOH A 100 700 80 HOH HOH . D 4 HOH A 101 701 8 HOH HOH . D 4 HOH A 102 702 129 HOH HOH . D 4 HOH A 103 703 97 HOH HOH . D 4 HOH A 104 704 44 HOH HOH . D 4 HOH A 105 705 27 HOH HOH . D 4 HOH A 106 706 168 HOH HOH . D 4 HOH A 107 707 67 HOH HOH . D 4 HOH A 108 708 181 HOH HOH . D 4 HOH A 109 709 46 HOH HOH . D 4 HOH A 110 710 94 HOH HOH . D 4 HOH A 111 711 17 HOH HOH . D 4 HOH A 112 712 85 HOH HOH . D 4 HOH A 113 713 235 HOH HOH . D 4 HOH A 114 714 171 HOH HOH . D 4 HOH A 115 715 142 HOH HOH . D 4 HOH A 116 716 81 HOH HOH . D 4 HOH A 117 717 102 HOH HOH . D 4 HOH A 118 718 251 HOH HOH . D 4 HOH A 119 719 62 HOH HOH . D 4 HOH A 120 720 134 HOH HOH . D 4 HOH A 121 721 175 HOH HOH . D 4 HOH A 122 722 270 HOH HOH . D 4 HOH A 123 723 79 HOH HOH . D 4 HOH A 124 724 161 HOH HOH . D 4 HOH A 125 725 41 HOH HOH . D 4 HOH A 126 726 163 HOH HOH . D 4 HOH A 127 727 34 HOH HOH . D 4 HOH A 128 728 112 HOH HOH . D 4 HOH A 129 729 140 HOH HOH . D 4 HOH A 130 730 155 HOH HOH . D 4 HOH A 131 731 227 HOH HOH . D 4 HOH A 132 732 30 HOH HOH . D 4 HOH A 133 733 116 HOH HOH . D 4 HOH A 134 734 231 HOH HOH . D 4 HOH A 135 735 82 HOH HOH . D 4 HOH A 136 736 193 HOH HOH . D 4 HOH A 137 737 36 HOH HOH . D 4 HOH A 138 738 153 HOH HOH . D 4 HOH A 139 739 72 HOH HOH . D 4 HOH A 140 740 26 HOH HOH . D 4 HOH A 141 741 130 HOH HOH . D 4 HOH A 142 742 22 HOH HOH . D 4 HOH A 143 743 87 HOH HOH . D 4 HOH A 144 744 152 HOH HOH . D 4 HOH A 145 745 266 HOH HOH . D 4 HOH A 146 746 14 HOH HOH . D 4 HOH A 147 747 76 HOH HOH . D 4 HOH A 148 748 211 HOH HOH . D 4 HOH A 149 749 164 HOH HOH . D 4 HOH A 150 750 201 HOH HOH . D 4 HOH A 151 751 6 HOH HOH . D 4 HOH A 152 752 150 HOH HOH . D 4 HOH A 153 753 200 HOH HOH . D 4 HOH A 154 754 60 HOH HOH . D 4 HOH A 155 755 192 HOH HOH . D 4 HOH A 156 756 216 HOH HOH . D 4 HOH A 157 757 195 HOH HOH . D 4 HOH A 158 758 210 HOH HOH . D 4 HOH A 159 759 237 HOH HOH . D 4 HOH A 160 760 138 HOH HOH . D 4 HOH A 161 761 117 HOH HOH . D 4 HOH A 162 762 3 HOH HOH . D 4 HOH A 163 763 123 HOH HOH . D 4 HOH A 164 764 170 HOH HOH . D 4 HOH A 165 765 104 HOH HOH . D 4 HOH A 166 766 274 HOH HOH . D 4 HOH A 167 767 177 HOH HOH . D 4 HOH A 168 768 59 HOH HOH . D 4 HOH A 169 769 52 HOH HOH . D 4 HOH A 170 770 206 HOH HOH . D 4 HOH A 171 771 240 HOH HOH . D 4 HOH A 172 772 75 HOH HOH . D 4 HOH A 173 773 69 HOH HOH . D 4 HOH A 174 774 141 HOH HOH . D 4 HOH A 175 775 111 HOH HOH . D 4 HOH A 176 776 63 HOH HOH . D 4 HOH A 177 777 222 HOH HOH . D 4 HOH A 178 778 95 HOH HOH . D 4 HOH A 179 779 204 HOH HOH . D 4 HOH A 180 780 241 HOH HOH . D 4 HOH A 181 781 61 HOH HOH . D 4 HOH A 182 782 229 HOH HOH . D 4 HOH A 183 783 207 HOH HOH . D 4 HOH A 184 784 115 HOH HOH . D 4 HOH A 185 785 247 HOH HOH . D 4 HOH A 186 786 145 HOH HOH . D 4 HOH A 187 787 267 HOH HOH . D 4 HOH A 188 788 11 HOH HOH . D 4 HOH A 189 789 114 HOH HOH . D 4 HOH A 190 790 88 HOH HOH . D 4 HOH A 191 791 89 HOH HOH . D 4 HOH A 192 792 148 HOH HOH . D 4 HOH A 193 793 230 HOH HOH . D 4 HOH A 194 794 221 HOH HOH . D 4 HOH A 195 795 91 HOH HOH . D 4 HOH A 196 796 256 HOH HOH . D 4 HOH A 197 797 101 HOH HOH . D 4 HOH A 198 798 217 HOH HOH . D 4 HOH A 199 799 258 HOH HOH . D 4 HOH A 200 800 55 HOH HOH . D 4 HOH A 201 801 268 HOH HOH . D 4 HOH A 202 802 248 HOH HOH . D 4 HOH A 203 803 234 HOH HOH . D 4 HOH A 204 804 223 HOH HOH . D 4 HOH A 205 805 253 HOH HOH . D 4 HOH A 206 806 199 HOH HOH . D 4 HOH A 207 807 151 HOH HOH . D 4 HOH A 208 808 84 HOH HOH . D 4 HOH A 209 809 225 HOH HOH . D 4 HOH A 210 810 242 HOH HOH . D 4 HOH A 211 811 53 HOH HOH . D 4 HOH A 212 812 187 HOH HOH . D 4 HOH A 213 813 261 HOH HOH . D 4 HOH A 214 814 179 HOH HOH . D 4 HOH A 215 815 184 HOH HOH . D 4 HOH A 216 816 264 HOH HOH . D 4 HOH A 217 817 144 HOH HOH . D 4 HOH A 218 818 194 HOH HOH . D 4 HOH A 219 819 188 HOH HOH . D 4 HOH A 220 820 233 HOH HOH . D 4 HOH A 221 821 185 HOH HOH . D 4 HOH A 222 822 246 HOH HOH . D 4 HOH A 223 823 107 HOH HOH . D 4 HOH A 224 824 174 HOH HOH . D 4 HOH A 225 825 186 HOH HOH . D 4 HOH A 226 826 198 HOH HOH . D 4 HOH A 227 827 49 HOH HOH . D 4 HOH A 228 828 180 HOH HOH . D 4 HOH A 229 829 113 HOH HOH . D 4 HOH A 230 830 109 HOH HOH . D 4 HOH A 231 831 90 HOH HOH . D 4 HOH A 232 832 47 HOH HOH . D 4 HOH A 233 833 139 HOH HOH . D 4 HOH A 234 834 263 HOH HOH . D 4 HOH A 235 835 250 HOH HOH . D 4 HOH A 236 836 226 HOH HOH . D 4 HOH A 237 837 191 HOH HOH . D 4 HOH A 238 838 197 HOH HOH . D 4 HOH A 239 839 238 HOH HOH . D 4 HOH A 240 840 257 HOH HOH . D 4 HOH A 241 841 173 HOH HOH . D 4 HOH A 242 842 131 HOH HOH . D 4 HOH A 243 843 78 HOH HOH . D 4 HOH A 244 844 149 HOH HOH . D 4 HOH A 245 845 128 HOH HOH . D 4 HOH A 246 846 73 HOH HOH . D 4 HOH A 247 847 228 HOH HOH . D 4 HOH A 248 848 182 HOH HOH . D 4 HOH A 249 849 83 HOH HOH . D 4 HOH A 250 850 236 HOH HOH . D 4 HOH A 251 851 156 HOH HOH . D 4 HOH A 252 852 272 HOH HOH . D 4 HOH A 253 853 105 HOH HOH . D 4 HOH A 254 854 176 HOH HOH . D 4 HOH A 255 855 224 HOH HOH . D 4 HOH A 256 856 276 HOH HOH . D 4 HOH A 257 857 54 HOH HOH . D 4 HOH A 258 858 202 HOH HOH . D 4 HOH A 259 859 77 HOH HOH . D 4 HOH A 260 860 28 HOH HOH . D 4 HOH A 261 861 260 HOH HOH . D 4 HOH A 262 862 103 HOH HOH . D 4 HOH A 263 863 40 HOH HOH . D 4 HOH A 264 864 122 HOH HOH . D 4 HOH A 265 865 243 HOH HOH . D 4 HOH A 266 866 99 HOH HOH . D 4 HOH A 267 867 271 HOH HOH . D 4 HOH A 268 868 154 HOH HOH . D 4 HOH A 269 869 208 HOH HOH . D 4 HOH A 270 870 172 HOH HOH . D 4 HOH A 271 871 255 HOH HOH . D 4 HOH A 272 872 165 HOH HOH . D 4 HOH A 273 873 119 HOH HOH . D 4 HOH A 274 874 212 HOH HOH . D 4 HOH A 275 875 120 HOH HOH . D 4 HOH A 276 876 244 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol NA _atom_site.label_atom_id NA _atom_site.label_comp_id NA _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id C _atom_site.label_entity_id 3 _atom_site.Cartn_x 5.238 _atom_site.Cartn_y 10.604 _atom_site.Cartn_z 6.696 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 26.3 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 501 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 74 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #