data_8W4X # _model_server_result.job_id wVfNYG_ijXXkKJdpkBTdRg _model_server_result.datetime_utc '2025-04-23 14:31:05' _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 8w4x # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":502}' # _entry.id 8W4X # loop_ _exptl.entry_id _exptl.method 8W4X 'X-RAY DIFFRACTION' 8W4X 'NEUTRON DIFFRACTION' # _entity.details ? _entity.formula_weight 22.99 _entity.id 4 _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 8W4X _cell.length_a 54.73 _cell.length_b 68.26 _cell.length_c 89.77 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8W4X _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 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 _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 4 _struct_asym.id D _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 BGC _pdbx_entity_branch_link.comp_id_2 GLC _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _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 GLC 1 C 1 GLC C 1 AC2 2 n B BGC 2 C 2 BGC C 1 AC2 # 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 disulf ? disulf1 A SG CYS 90 A CYS 171 1_555 A SG CYS 149 A CYS 230 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf2 A SG CYS 280 A CYS 361 1_555 A SG CYS 327 A CYS 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? covale ? covale1 B O4 GLC . C GLC 1 1_555 B C1 BGC . C BGC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.403 ? metalc ? metalc1 D NA NA . A NA 502 1_555 B O3 BGC . C BGC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.736 ? metalc ? metalc2 D NA NA . A NA 502 1_555 B O4 BGC . C BGC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.347 ? # _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 8W4X _atom_sites.fract_transf_matrix[1][1] 0.018272 _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] 0.01465 _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] 0.01114 _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 BGC A 1 501 1 BGC BGC . D 4 NA A 1 502 1 NA NA . E 5 HOH A 1 601 251 HOH HOH . E 5 HOH A 2 602 252 HOH HOH . E 5 HOH A 3 603 177 HOH HOH . E 5 HOH A 4 604 250 HOH HOH . E 5 HOH A 5 605 110 HOH HOH . E 5 HOH A 6 606 155 HOH HOH . E 5 HOH A 7 607 253 HOH HOH . E 5 HOH A 8 608 156 HOH HOH . E 5 HOH A 9 609 153 HOH HOH . E 5 HOH A 10 610 267 HOH HOH . E 5 HOH A 11 611 268 HOH HOH . E 5 HOH A 12 612 266 HOH HOH . E 5 HOH A 13 613 202 HOH HOH . E 5 HOH A 14 614 200 HOH HOH . E 5 HOH A 15 615 185 HOH HOH . E 5 HOH A 16 616 136 HOH HOH . E 5 HOH A 17 617 258 HOH HOH . E 5 HOH A 18 618 159 HOH HOH . E 5 HOH A 19 619 169 HOH HOH . E 5 HOH A 20 620 32 HOH HOH . E 5 HOH A 21 621 132 HOH HOH . E 5 HOH A 22 622 77 HOH HOH . E 5 HOH A 23 623 237 HOH HOH . E 5 HOH A 24 624 63 HOH HOH . E 5 HOH A 25 625 206 HOH HOH . E 5 HOH A 26 626 255 HOH HOH . E 5 HOH A 27 627 131 HOH HOH . E 5 HOH A 28 628 120 HOH HOH . E 5 HOH A 29 629 189 HOH HOH . E 5 HOH A 30 630 93 HOH HOH . E 5 HOH A 31 631 194 HOH HOH . E 5 HOH A 32 632 83 HOH HOH . E 5 HOH A 33 633 67 HOH HOH . E 5 HOH A 34 634 58 HOH HOH . E 5 HOH A 35 635 193 HOH HOH . E 5 HOH A 36 636 30 HOH HOH . E 5 HOH A 37 637 221 HOH HOH . E 5 HOH A 38 638 9 HOH HOH . E 5 HOH A 39 639 100 HOH HOH . E 5 HOH A 40 640 116 HOH HOH . E 5 HOH A 41 641 216 HOH HOH . E 5 HOH A 42 642 49 HOH HOH . E 5 HOH A 43 643 166 HOH HOH . E 5 HOH A 44 644 4 HOH HOH . E 5 HOH A 45 645 214 HOH HOH . E 5 HOH A 46 646 94 HOH HOH . E 5 HOH A 47 647 219 HOH HOH . E 5 HOH A 48 648 137 HOH HOH . E 5 HOH A 49 649 183 HOH HOH . E 5 HOH A 50 650 154 HOH HOH . E 5 HOH A 51 651 172 HOH HOH . E 5 HOH A 52 652 41 HOH HOH . E 5 HOH A 53 653 12 HOH HOH . E 5 HOH A 54 654 64 HOH HOH . E 5 HOH A 55 655 98 HOH HOH . E 5 HOH A 56 656 50 HOH HOH . E 5 HOH A 57 657 181 HOH HOH . E 5 HOH A 58 658 6 HOH HOH . E 5 HOH A 59 659 133 HOH HOH . E 5 HOH A 60 660 145 HOH HOH . E 5 HOH A 61 661 35 HOH HOH . E 5 HOH A 62 662 117 HOH HOH . E 5 HOH A 63 663 82 HOH HOH . E 5 HOH A 64 664 65 HOH HOH . E 5 HOH A 65 665 158 HOH HOH . E 5 HOH A 66 666 123 HOH HOH . E 5 HOH A 67 667 47 HOH HOH . E 5 HOH A 68 668 27 HOH HOH . E 5 HOH A 69 669 261 HOH HOH . E 5 HOH A 70 670 101 HOH HOH . E 5 HOH A 71 671 140 HOH HOH . E 5 HOH A 72 672 99 HOH HOH . E 5 HOH A 73 673 42 HOH HOH . E 5 HOH A 74 674 109 HOH HOH . E 5 HOH A 75 675 61 HOH HOH . E 5 HOH A 76 676 135 HOH HOH . E 5 HOH A 77 677 241 HOH HOH . E 5 HOH A 78 678 31 HOH HOH . E 5 HOH A 79 679 208 HOH HOH . E 5 HOH A 80 680 14 HOH HOH . E 5 HOH A 81 681 197 HOH HOH . E 5 HOH A 82 682 33 HOH HOH . E 5 HOH A 83 683 11 HOH HOH . E 5 HOH A 84 684 2 HOH HOH . E 5 HOH A 85 685 114 HOH HOH . E 5 HOH A 86 686 29 HOH HOH . E 5 HOH A 87 687 161 HOH HOH . E 5 HOH A 88 688 143 HOH HOH . E 5 HOH A 89 689 38 HOH HOH . E 5 HOH A 90 690 21 HOH HOH . E 5 HOH A 91 691 48 HOH HOH . E 5 HOH A 92 692 187 HOH HOH . E 5 HOH A 93 693 46 HOH HOH . E 5 HOH A 94 694 55 HOH HOH . E 5 HOH A 95 695 105 HOH HOH . E 5 HOH A 96 696 23 HOH HOH . E 5 HOH A 97 697 207 HOH HOH . E 5 HOH A 98 698 37 HOH HOH . E 5 HOH A 99 699 119 HOH HOH . E 5 HOH A 100 700 115 HOH HOH . E 5 HOH A 101 701 146 HOH HOH . E 5 HOH A 102 702 39 HOH HOH . E 5 HOH A 103 703 209 HOH HOH . E 5 HOH A 104 704 104 HOH HOH . E 5 HOH A 105 705 84 HOH HOH . E 5 HOH A 106 706 10 HOH HOH . E 5 HOH A 107 707 160 HOH HOH . E 5 HOH A 108 708 149 HOH HOH . E 5 HOH A 109 709 91 HOH HOH . E 5 HOH A 110 710 34 HOH HOH . E 5 HOH A 111 711 244 HOH HOH . E 5 HOH A 112 712 170 HOH HOH . E 5 HOH A 113 713 129 HOH HOH . E 5 HOH A 114 714 18 HOH HOH . E 5 HOH A 115 715 60 HOH HOH . E 5 HOH A 116 716 71 HOH HOH . E 5 HOH A 117 717 5 HOH HOH . E 5 HOH A 118 718 184 HOH HOH . E 5 HOH A 119 719 76 HOH HOH . E 5 HOH A 120 720 142 HOH HOH . E 5 HOH A 121 721 173 HOH HOH . E 5 HOH A 122 722 20 HOH HOH . E 5 HOH A 123 723 204 HOH HOH . E 5 HOH A 124 724 44 HOH HOH . E 5 HOH A 125 725 201 HOH HOH . E 5 HOH A 126 726 16 HOH HOH . E 5 HOH A 127 727 17 HOH HOH . E 5 HOH A 128 728 57 HOH HOH . E 5 HOH A 129 729 51 HOH HOH . E 5 HOH A 130 730 15 HOH HOH . E 5 HOH A 131 731 24 HOH HOH . E 5 HOH A 132 732 270 HOH HOH . E 5 HOH A 133 733 162 HOH HOH . E 5 HOH A 134 734 108 HOH HOH . E 5 HOH A 135 735 36 HOH HOH . E 5 HOH A 136 736 43 HOH HOH . E 5 HOH A 137 737 28 HOH HOH . E 5 HOH A 138 738 192 HOH HOH . E 5 HOH A 139 739 3 HOH HOH . E 5 HOH A 140 740 22 HOH HOH . E 5 HOH A 141 741 68 HOH HOH . E 5 HOH A 142 742 73 HOH HOH . E 5 HOH A 143 743 19 HOH HOH . E 5 HOH A 144 744 26 HOH HOH . E 5 HOH A 145 745 126 HOH HOH . E 5 HOH A 146 746 89 HOH HOH . E 5 HOH A 147 747 191 HOH HOH . E 5 HOH A 148 748 178 HOH HOH . E 5 HOH A 149 749 224 HOH HOH . E 5 HOH A 150 750 13 HOH HOH . E 5 HOH A 151 751 203 HOH HOH . E 5 HOH A 152 752 97 HOH HOH . E 5 HOH A 153 753 107 HOH HOH . E 5 HOH A 154 754 1 HOH HOH . E 5 HOH A 155 755 7 HOH HOH . E 5 HOH A 156 756 182 HOH HOH . E 5 HOH A 157 757 130 HOH HOH . E 5 HOH A 158 758 139 HOH HOH . E 5 HOH A 159 759 147 HOH HOH . E 5 HOH A 160 760 235 HOH HOH . E 5 HOH A 161 761 188 HOH HOH . E 5 HOH A 162 762 148 HOH HOH . E 5 HOH A 163 763 205 HOH HOH . E 5 HOH A 164 764 8 HOH HOH . E 5 HOH A 165 765 78 HOH HOH . E 5 HOH A 166 766 72 HOH HOH . E 5 HOH A 167 767 196 HOH HOH . E 5 HOH A 168 768 56 HOH HOH . E 5 HOH A 169 769 124 HOH HOH . E 5 HOH A 170 770 69 HOH HOH . E 5 HOH A 171 771 167 HOH HOH . E 5 HOH A 172 772 79 HOH HOH . E 5 HOH A 173 773 81 HOH HOH . E 5 HOH A 174 774 264 HOH HOH . E 5 HOH A 175 775 257 HOH HOH . E 5 HOH A 176 776 52 HOH HOH . E 5 HOH A 177 777 74 HOH HOH . E 5 HOH A 178 778 144 HOH HOH . E 5 HOH A 179 779 186 HOH HOH . E 5 HOH A 180 780 243 HOH HOH . E 5 HOH A 181 781 75 HOH HOH . E 5 HOH A 182 782 90 HOH HOH . E 5 HOH A 183 783 62 HOH HOH . E 5 HOH A 184 784 174 HOH HOH . E 5 HOH A 185 785 122 HOH HOH . E 5 HOH A 186 786 92 HOH HOH . E 5 HOH A 187 787 102 HOH HOH . E 5 HOH A 188 788 269 HOH HOH . E 5 HOH A 189 789 176 HOH HOH . E 5 HOH A 190 790 263 HOH HOH . E 5 HOH A 191 791 80 HOH HOH . E 5 HOH A 192 792 215 HOH HOH . E 5 HOH A 193 793 59 HOH HOH . E 5 HOH A 194 794 179 HOH HOH . E 5 HOH A 195 795 175 HOH HOH . E 5 HOH A 196 796 150 HOH HOH . E 5 HOH A 197 797 40 HOH HOH . E 5 HOH A 198 798 121 HOH HOH . E 5 HOH A 199 799 245 HOH HOH . E 5 HOH A 200 800 113 HOH HOH . E 5 HOH A 201 801 66 HOH HOH . E 5 HOH A 202 802 54 HOH HOH . E 5 HOH A 203 803 95 HOH HOH . E 5 HOH A 204 804 217 HOH HOH . E 5 HOH A 205 805 103 HOH HOH . E 5 HOH A 206 806 138 HOH HOH . E 5 HOH A 207 807 134 HOH HOH . E 5 HOH A 208 808 248 HOH HOH . E 5 HOH A 209 809 165 HOH HOH . E 5 HOH A 210 810 190 HOH HOH . E 5 HOH A 211 811 210 HOH HOH . E 5 HOH A 212 812 111 HOH HOH . E 5 HOH A 213 813 86 HOH HOH . E 5 HOH A 214 814 171 HOH HOH . E 5 HOH A 215 815 141 HOH HOH . E 5 HOH A 216 816 246 HOH HOH . E 5 HOH A 217 817 232 HOH HOH . E 5 HOH A 218 818 254 HOH HOH . E 5 HOH A 219 819 112 HOH HOH . E 5 HOH A 220 820 265 HOH HOH . E 5 HOH A 221 821 96 HOH HOH . E 5 HOH A 222 822 128 HOH HOH . E 5 HOH A 223 823 125 HOH HOH . E 5 HOH A 224 824 70 HOH HOH . E 5 HOH A 225 825 85 HOH HOH . E 5 HOH A 226 826 25 HOH HOH . E 5 HOH A 227 827 127 HOH HOH . E 5 HOH A 228 828 195 HOH HOH . E 5 HOH A 229 829 157 HOH HOH . E 5 HOH A 230 830 213 HOH HOH . E 5 HOH A 231 831 118 HOH HOH . E 5 HOH A 232 832 53 HOH HOH . E 5 HOH A 233 833 212 HOH HOH . E 5 HOH A 234 834 223 HOH HOH . E 5 HOH A 235 835 259 HOH HOH . E 5 HOH A 236 836 238 HOH HOH . E 5 HOH A 237 837 168 HOH HOH . E 5 HOH A 238 838 242 HOH HOH . E 5 HOH A 239 839 151 HOH HOH . E 5 HOH A 240 840 234 HOH HOH . E 5 HOH A 241 841 256 HOH HOH . E 5 HOH A 242 842 88 HOH HOH . E 5 HOH A 243 843 249 HOH HOH . E 5 HOH A 244 844 106 HOH HOH . E 5 HOH A 245 845 45 HOH HOH . E 5 HOH A 246 846 199 HOH HOH . E 5 HOH A 247 847 247 HOH HOH . E 5 HOH A 248 848 222 HOH HOH . E 5 HOH A 249 849 211 HOH HOH . E 5 HOH A 250 850 180 HOH HOH . E 5 HOH A 251 851 218 HOH HOH . E 5 HOH A 252 852 262 HOH HOH . E 5 HOH A 253 853 87 HOH HOH . E 5 HOH A 254 854 239 HOH HOH . E 5 HOH A 255 855 220 HOH HOH . E 5 HOH A 256 856 198 HOH HOH . E 5 HOH A 257 857 260 HOH HOH . E 5 HOH A 258 858 229 HOH HOH . E 5 HOH A 259 859 152 HOH HOH . E 5 HOH A 260 860 163 HOH HOH . E 5 HOH A 261 861 233 HOH HOH . E 5 HOH A 262 862 228 HOH HOH . E 5 HOH A 263 863 230 HOH HOH . E 5 HOH A 264 864 164 HOH HOH . E 5 HOH A 265 865 226 HOH HOH . E 5 HOH A 266 866 231 HOH HOH . E 5 HOH A 267 867 227 HOH HOH . E 5 HOH A 268 868 225 HOH HOH . E 5 HOH A 269 869 236 HOH HOH . E 5 HOH A 270 870 240 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 D _atom_site.label_entity_id 4 _atom_site.Cartn_x 15.036 _atom_site.Cartn_y -0.554 _atom_site.Cartn_z -15.655 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 10.45 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id NA _atom_site.auth_comp_id NA _atom_site.auth_seq_id 502 _atom_site.auth_asym_id A _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 26 _model_server_stats.parse_time_ms 24 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 276 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 1 #