data_4RE4 # _model_server_result.job_id dYQH8EsotsYqZ1nY2vnnpQ _model_server_result.datetime_utc '2024-11-24 08:53:23' _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 4re4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 4RE4 # _exptl.entry_id 4RE4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 147.172 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 5-HYDROXYMETHYL-3,4-DIHYDROXYPIPERIDINE _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 4RE4 _cell.length_a 68.512 _cell.length_b 72.076 _cell.length_c 135.14 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4RE4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _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,F,G,H _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 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id disulf _struct_conn.details ? _struct_conn.id disulf1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 218 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 198 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id A _struct_conn.ptnr2_label_atom_id SG _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 221 _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 201 _struct_conn.ptnr2_symmetry 1_555 _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 2.059 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C6 H13 N O3' _chem_comp.formula_weight 147.172 _chem_comp.id IFM _chem_comp.mon_nstd_flag . _chem_comp.name 5-HYDROXYMETHYL-3,4-DIHYDROXYPIPERIDINE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms Afegostat;isofagomine;(3R,4R,5R)-5-(HYDROXYMETHYL)PIPERIDINE-3,4-DIOL # 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 O4 C4 IFM sing 198 n n O4 H4 IFM sing 199 n n C4 C3 IFM sing 200 n n C4 C5 IFM sing 201 n n C4 HA IFM sing 202 n n C3 O3 IFM sing 203 n n C3 C2 IFM sing 204 n n C3 H3 IFM sing 205 n n O3 HB IFM sing 206 n n C2 N IFM sing 207 n n C2 H2C1 IFM sing 208 n n C2 H2C2 IFM sing 209 n n N C1 IFM sing 210 n n N H IFM sing 211 n n C1 C5 IFM sing 212 n n C1 H1C1 IFM sing 213 n n C1 H1C2 IFM sing 214 n n C5 C6 IFM sing 215 n n C5 H5 IFM sing 216 n n C6 O6 IFM sing 217 n n C6 H6C1 IFM sing 218 n n C6 H6C2 IFM sing 219 n n O6 H6 IFM sing 220 n n # _atom_sites.entry_id 4RE4 _atom_sites.fract_transf_matrix[1][1] 0.014596 _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] 0.013874 _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] 0.0074 _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 IFM A 1 501 1 IFM IFM . C 3 GOL A 1 502 2 GOL GOL . D 3 GOL A 1 503 3 GOL GOL . E 3 GOL A 1 504 4 GOL GOL . F 3 GOL A 1 505 1 GOL GOL . G 4 EPE A 1 506 5 EPE EPE . H 5 HOH A 1 601 224 HOH HOH . H 5 HOH A 2 602 225 HOH HOH . H 5 HOH A 3 603 226 HOH HOH . H 5 HOH A 4 604 227 HOH HOH . H 5 HOH A 5 605 1 HOH HOH . H 5 HOH A 6 606 2 HOH HOH . H 5 HOH A 7 607 3 HOH HOH . H 5 HOH A 8 608 4 HOH HOH . H 5 HOH A 9 609 5 HOH HOH . H 5 HOH A 10 610 6 HOH HOH . H 5 HOH A 11 611 7 HOH HOH . H 5 HOH A 12 612 8 HOH HOH . H 5 HOH A 13 613 9 HOH HOH . H 5 HOH A 14 614 10 HOH HOH . H 5 HOH A 15 615 11 HOH HOH . H 5 HOH A 16 616 12 HOH HOH . H 5 HOH A 17 617 13 HOH HOH . H 5 HOH A 18 618 14 HOH HOH . H 5 HOH A 19 619 15 HOH HOH . H 5 HOH A 20 620 16 HOH HOH . H 5 HOH A 21 621 17 HOH HOH . H 5 HOH A 22 622 18 HOH HOH . H 5 HOH A 23 623 19 HOH HOH . H 5 HOH A 24 624 20 HOH HOH . H 5 HOH A 25 625 21 HOH HOH . H 5 HOH A 26 626 22 HOH HOH . H 5 HOH A 27 627 23 HOH HOH . H 5 HOH A 28 628 24 HOH HOH . H 5 HOH A 29 629 25 HOH HOH . H 5 HOH A 30 630 26 HOH HOH . H 5 HOH A 31 631 27 HOH HOH . H 5 HOH A 32 632 28 HOH HOH . H 5 HOH A 33 633 29 HOH HOH . H 5 HOH A 34 634 30 HOH HOH . H 5 HOH A 35 635 31 HOH HOH . H 5 HOH A 36 636 32 HOH HOH . H 5 HOH A 37 637 33 HOH HOH . H 5 HOH A 38 638 34 HOH HOH . H 5 HOH A 39 639 35 HOH HOH . H 5 HOH A 40 640 36 HOH HOH . H 5 HOH A 41 641 37 HOH HOH . H 5 HOH A 42 642 38 HOH HOH . H 5 HOH A 43 643 39 HOH HOH . H 5 HOH A 44 644 40 HOH HOH . H 5 HOH A 45 645 41 HOH HOH . H 5 HOH A 46 646 42 HOH HOH . H 5 HOH A 47 647 43 HOH HOH . H 5 HOH A 48 648 45 HOH HOH . H 5 HOH A 49 649 46 HOH HOH . H 5 HOH A 50 650 47 HOH HOH . H 5 HOH A 51 651 48 HOH HOH . H 5 HOH A 52 652 49 HOH HOH . H 5 HOH A 53 653 50 HOH HOH . H 5 HOH A 54 654 51 HOH HOH . H 5 HOH A 55 655 52 HOH HOH . H 5 HOH A 56 656 53 HOH HOH . H 5 HOH A 57 657 54 HOH HOH . H 5 HOH A 58 658 55 HOH HOH . H 5 HOH A 59 659 56 HOH HOH . H 5 HOH A 60 660 57 HOH HOH . H 5 HOH A 61 661 58 HOH HOH . H 5 HOH A 62 662 59 HOH HOH . H 5 HOH A 63 663 60 HOH HOH . H 5 HOH A 64 664 61 HOH HOH . H 5 HOH A 65 665 62 HOH HOH . H 5 HOH A 66 666 63 HOH HOH . H 5 HOH A 67 667 64 HOH HOH . H 5 HOH A 68 668 65 HOH HOH . H 5 HOH A 69 669 66 HOH HOH . H 5 HOH A 70 670 67 HOH HOH . H 5 HOH A 71 671 68 HOH HOH . H 5 HOH A 72 672 69 HOH HOH . H 5 HOH A 73 673 70 HOH HOH . H 5 HOH A 74 674 71 HOH HOH . H 5 HOH A 75 675 72 HOH HOH . H 5 HOH A 76 676 73 HOH HOH . H 5 HOH A 77 677 74 HOH HOH . H 5 HOH A 78 678 75 HOH HOH . H 5 HOH A 79 679 76 HOH HOH . H 5 HOH A 80 680 77 HOH HOH . H 5 HOH A 81 681 78 HOH HOH . H 5 HOH A 82 682 79 HOH HOH . H 5 HOH A 83 683 80 HOH HOH . H 5 HOH A 84 684 81 HOH HOH . H 5 HOH A 85 685 82 HOH HOH . H 5 HOH A 86 686 83 HOH HOH . H 5 HOH A 87 687 84 HOH HOH . H 5 HOH A 88 688 85 HOH HOH . H 5 HOH A 89 689 86 HOH HOH . H 5 HOH A 90 690 87 HOH HOH . H 5 HOH A 91 691 88 HOH HOH . H 5 HOH A 92 692 89 HOH HOH . H 5 HOH A 93 693 90 HOH HOH . H 5 HOH A 94 694 91 HOH HOH . H 5 HOH A 95 695 92 HOH HOH . H 5 HOH A 96 696 93 HOH HOH . H 5 HOH A 97 697 94 HOH HOH . H 5 HOH A 98 698 95 HOH HOH . H 5 HOH A 99 699 96 HOH HOH . H 5 HOH A 100 700 97 HOH HOH . H 5 HOH A 101 701 98 HOH HOH . H 5 HOH A 102 702 99 HOH HOH . H 5 HOH A 103 703 100 HOH HOH . H 5 HOH A 104 704 101 HOH HOH . H 5 HOH A 105 705 102 HOH HOH . H 5 HOH A 106 706 103 HOH HOH . H 5 HOH A 107 707 104 HOH HOH . H 5 HOH A 108 708 105 HOH HOH . H 5 HOH A 109 709 106 HOH HOH . H 5 HOH A 110 710 107 HOH HOH . H 5 HOH A 111 711 108 HOH HOH . H 5 HOH A 112 712 109 HOH HOH . H 5 HOH A 113 713 110 HOH HOH . H 5 HOH A 114 714 111 HOH HOH . H 5 HOH A 115 715 112 HOH HOH . H 5 HOH A 116 716 113 HOH HOH . H 5 HOH A 117 717 114 HOH HOH . H 5 HOH A 118 718 115 HOH HOH . H 5 HOH A 119 719 116 HOH HOH . H 5 HOH A 120 720 117 HOH HOH . H 5 HOH A 121 721 118 HOH HOH . H 5 HOH A 122 722 119 HOH HOH . H 5 HOH A 123 723 120 HOH HOH . H 5 HOH A 124 724 121 HOH HOH . H 5 HOH A 125 725 122 HOH HOH . H 5 HOH A 126 726 123 HOH HOH . H 5 HOH A 127 727 125 HOH HOH . H 5 HOH A 128 728 126 HOH HOH . H 5 HOH A 129 729 127 HOH HOH . H 5 HOH A 130 730 128 HOH HOH . H 5 HOH A 131 731 129 HOH HOH . H 5 HOH A 132 732 130 HOH HOH . H 5 HOH A 133 733 131 HOH HOH . H 5 HOH A 134 734 132 HOH HOH . H 5 HOH A 135 735 133 HOH HOH . H 5 HOH A 136 736 134 HOH HOH . H 5 HOH A 137 737 135 HOH HOH . H 5 HOH A 138 738 136 HOH HOH . H 5 HOH A 139 739 137 HOH HOH . H 5 HOH A 140 740 138 HOH HOH . H 5 HOH A 141 741 139 HOH HOH . H 5 HOH A 142 742 140 HOH HOH . H 5 HOH A 143 743 141 HOH HOH . H 5 HOH A 144 744 142 HOH HOH . H 5 HOH A 145 745 143 HOH HOH . H 5 HOH A 146 746 144 HOH HOH . H 5 HOH A 147 747 145 HOH HOH . H 5 HOH A 148 748 146 HOH HOH . H 5 HOH A 149 749 147 HOH HOH . H 5 HOH A 150 750 148 HOH HOH . H 5 HOH A 151 751 149 HOH HOH . H 5 HOH A 152 752 150 HOH HOH . H 5 HOH A 153 753 151 HOH HOH . H 5 HOH A 154 754 152 HOH HOH . H 5 HOH A 155 755 153 HOH HOH . H 5 HOH A 156 756 154 HOH HOH . H 5 HOH A 157 757 155 HOH HOH . H 5 HOH A 158 758 156 HOH HOH . H 5 HOH A 159 759 157 HOH HOH . H 5 HOH A 160 760 159 HOH HOH . H 5 HOH A 161 761 160 HOH HOH . H 5 HOH A 162 762 161 HOH HOH . H 5 HOH A 163 763 162 HOH HOH . H 5 HOH A 164 764 163 HOH HOH . H 5 HOH A 165 765 164 HOH HOH . H 5 HOH A 166 766 165 HOH HOH . H 5 HOH A 167 767 166 HOH HOH . H 5 HOH A 168 768 167 HOH HOH . H 5 HOH A 169 769 168 HOH HOH . H 5 HOH A 170 770 169 HOH HOH . H 5 HOH A 171 771 170 HOH HOH . H 5 HOH A 172 772 171 HOH HOH . H 5 HOH A 173 773 172 HOH HOH . H 5 HOH A 174 774 173 HOH HOH . H 5 HOH A 175 775 174 HOH HOH . H 5 HOH A 176 776 175 HOH HOH . H 5 HOH A 177 777 176 HOH HOH . H 5 HOH A 178 778 177 HOH HOH . H 5 HOH A 179 779 178 HOH HOH . H 5 HOH A 180 780 180 HOH HOH . H 5 HOH A 181 781 181 HOH HOH . H 5 HOH A 182 782 182 HOH HOH . H 5 HOH A 183 783 183 HOH HOH . H 5 HOH A 184 784 184 HOH HOH . H 5 HOH A 185 785 185 HOH HOH . H 5 HOH A 186 786 187 HOH HOH . H 5 HOH A 187 787 188 HOH HOH . H 5 HOH A 188 788 189 HOH HOH . H 5 HOH A 189 789 191 HOH HOH . H 5 HOH A 190 790 192 HOH HOH . H 5 HOH A 191 791 193 HOH HOH . H 5 HOH A 192 792 194 HOH HOH . H 5 HOH A 193 793 195 HOH HOH . H 5 HOH A 194 794 196 HOH HOH . H 5 HOH A 195 795 197 HOH HOH . H 5 HOH A 196 796 198 HOH HOH . H 5 HOH A 197 797 199 HOH HOH . H 5 HOH A 198 798 200 HOH HOH . H 5 HOH A 199 799 201 HOH HOH . H 5 HOH A 200 800 202 HOH HOH . H 5 HOH A 201 801 203 HOH HOH . H 5 HOH A 202 802 205 HOH HOH . H 5 HOH A 203 803 206 HOH HOH . H 5 HOH A 204 804 207 HOH HOH . H 5 HOH A 205 805 209 HOH HOH . H 5 HOH A 206 806 210 HOH HOH . H 5 HOH A 207 807 211 HOH HOH . H 5 HOH A 208 808 212 HOH HOH . H 5 HOH A 209 809 213 HOH HOH . H 5 HOH A 210 810 214 HOH HOH . H 5 HOH A 211 811 215 HOH HOH . H 5 HOH A 212 812 216 HOH HOH . H 5 HOH A 213 813 217 HOH HOH . H 5 HOH A 214 814 218 HOH HOH . H 5 HOH A 215 815 219 HOH HOH . H 5 HOH A 216 816 221 HOH HOH . H 5 HOH A 217 817 222 HOH HOH . H 5 HOH A 218 818 223 HOH HOH . H 5 HOH A 219 819 228 HOH HOH . H 5 HOH A 220 820 230 HOH HOH . H 5 HOH A 221 821 231 HOH HOH . H 5 HOH A 222 822 232 HOH HOH . H 5 HOH A 223 823 233 HOH HOH . H 5 HOH A 224 824 234 HOH HOH . H 5 HOH A 225 825 235 HOH HOH . H 5 HOH A 226 826 236 HOH HOH . H 5 HOH A 227 827 237 HOH HOH . H 5 HOH A 228 828 238 HOH HOH . H 5 HOH A 229 829 239 HOH HOH . H 5 HOH A 230 830 240 HOH HOH . H 5 HOH A 231 831 241 HOH HOH . H 5 HOH A 232 832 242 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 O4 IFM . . . B 2 9.928 10.665 10.212 1 25.37 ? O4 IFM 501 A 1 HETATM 2 C C4 IFM . . . B 2 9.083 11.262 11.21 1 28.59 ? C4 IFM 501 A 1 HETATM 3 C C3 IFM . . . B 2 8.923 10.307 12.408 1 29.1 ? C3 IFM 501 A 1 HETATM 4 O O3 IFM . . . B 2 8.259 9.118 11.973 1 28.98 ? O3 IFM 501 A 1 HETATM 5 C C2 IFM . . . B 2 8.152 10.921 13.585 1 28.61 ? C2 IFM 501 A 1 HETATM 6 N N IFM . . . B 2 8.528 12.31 13.833 1 28.96 ? N IFM 501 A 1 HETATM 7 C C1 IFM . . . B 2 8.707 13.256 12.725 1 29.19 ? C1 IFM 501 A 1 HETATM 8 C C5 IFM . . . B 2 9.615 12.644 11.643 1 28.46 ? C5 IFM 501 A 1 HETATM 9 C C6 IFM . . . B 2 9.833 13.633 10.487 1 28.64 ? C6 IFM 501 A 1 HETATM 10 O O6 IFM . . . B 2 8.776 13.557 9.511 1 27.2 ? O6 IFM 501 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 339 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 10 #