data_8Q6D # _model_server_result.job_id Eaw6VIL7DsEDJqkkI-DCCw _model_server_result.datetime_utc '2024-10-15 15:24:35' _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 8q6d # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":502}' # _entry.id 8Q6D # _exptl.entry_id 8Q6D _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 146.098 _entity.id 4 _entity.src_method nat _entity.type non-polymer _entity.pdbx_description '2-OXOGLUTARIC ACID' _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 8Q6D _cell.length_a 38.07 _cell.length_b 42.63 _cell.length_c 130.75 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8Q6D _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 # 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 metalc ? metalc1 A NE2 HIS 139 A HIS 313 1_555 C FE FE . A FE 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.195 ? metalc ? metalc2 A OD1 ASP 141 A ASP 315 1_555 C FE FE . A FE 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.116 ? metalc ? metalc3 A NE2 HIS 200 A HIS 374 1_555 C FE FE . A FE 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.146 ? metalc ? metalc4 C FE FE . A FE 501 1_555 D O5 AKG . A AKG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.206 ? metalc ? metalc5 C FE FE . A FE 501 1_555 D O2 AKG . A AKG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? metalc ? metalc6 C FE FE . A FE 501 1_555 E O HOH . A HOH 622 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.195 ? # _chem_comp.formula 'C5 H6 O5' _chem_comp.formula_weight 146.098 _chem_comp.id AKG _chem_comp.mon_nstd_flag . _chem_comp.name '2-OXOGLUTARIC ACID' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 O1 AKG doub 1 n n C1 O2 AKG sing 2 n n C1 C2 AKG sing 3 n n O2 HO2 AKG sing 4 n n C2 O5 AKG doub 5 n n C2 C3 AKG sing 6 n n C3 C4 AKG sing 7 n n C3 H31 AKG sing 8 n n C3 H32 AKG sing 9 n n C4 C5 AKG sing 10 n n C4 H41 AKG sing 11 n n C4 H42 AKG sing 12 n n C5 O3 AKG doub 13 n n C5 O4 AKG sing 14 n n O4 HO4 AKG sing 15 n n # _atom_sites.entry_id 8Q6D _atom_sites.fract_transf_matrix[1][1] 0.026267 _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] 0.023458 _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] 0.007648 _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 FE A 1 501 1 FE FE . D 4 AKG A 1 502 802 AKG AKG . E 5 HOH A 1 601 94 HOH HOH . E 5 HOH A 2 602 176 HOH HOH . E 5 HOH A 3 603 98 HOH HOH . E 5 HOH A 4 604 179 HOH HOH . E 5 HOH A 5 605 220 HOH HOH . E 5 HOH A 6 606 177 HOH HOH . E 5 HOH A 7 607 208 HOH HOH . E 5 HOH A 8 608 29 HOH HOH . E 5 HOH A 9 609 79 HOH HOH . E 5 HOH A 10 610 62 HOH HOH . E 5 HOH A 11 611 117 HOH HOH . E 5 HOH A 12 612 165 HOH HOH . E 5 HOH A 13 613 144 HOH HOH . E 5 HOH A 14 614 104 HOH HOH . E 5 HOH A 15 615 243 HOH HOH . E 5 HOH A 16 616 160 HOH HOH . E 5 HOH A 17 617 203 HOH HOH . E 5 HOH A 18 618 142 HOH HOH . E 5 HOH A 19 619 27 HOH HOH . E 5 HOH A 20 620 213 HOH HOH . E 5 HOH A 21 621 146 HOH HOH . E 5 HOH A 22 622 2 HOH HOH . E 5 HOH A 23 623 178 HOH HOH . E 5 HOH A 24 624 59 HOH HOH . E 5 HOH A 25 625 121 HOH HOH . E 5 HOH A 26 626 110 HOH HOH . E 5 HOH A 27 627 9 HOH HOH . E 5 HOH A 28 628 86 HOH HOH . E 5 HOH A 29 629 56 HOH HOH . E 5 HOH A 30 630 5 HOH HOH . E 5 HOH A 31 631 81 HOH HOH . E 5 HOH A 32 632 126 HOH HOH . E 5 HOH A 33 633 35 HOH HOH . E 5 HOH A 34 634 183 HOH HOH . E 5 HOH A 35 635 116 HOH HOH . E 5 HOH A 36 636 157 HOH HOH . E 5 HOH A 37 637 19 HOH HOH . E 5 HOH A 38 638 87 HOH HOH . E 5 HOH A 39 639 60 HOH HOH . E 5 HOH A 40 640 57 HOH HOH . E 5 HOH A 41 641 64 HOH HOH . E 5 HOH A 42 642 38 HOH HOH . E 5 HOH A 43 643 92 HOH HOH . E 5 HOH A 44 644 71 HOH HOH . E 5 HOH A 45 645 174 HOH HOH . E 5 HOH A 46 646 97 HOH HOH . E 5 HOH A 47 647 73 HOH HOH . E 5 HOH A 48 648 21 HOH HOH . E 5 HOH A 49 649 7 HOH HOH . E 5 HOH A 50 650 18 HOH HOH . E 5 HOH A 51 651 63 HOH HOH . E 5 HOH A 52 652 36 HOH HOH . E 5 HOH A 53 653 118 HOH HOH . E 5 HOH A 54 654 210 HOH HOH . E 5 HOH A 55 655 102 HOH HOH . E 5 HOH A 56 656 168 HOH HOH . E 5 HOH A 57 657 137 HOH HOH . E 5 HOH A 58 658 11 HOH HOH . E 5 HOH A 59 659 31 HOH HOH . E 5 HOH A 60 660 58 HOH HOH . E 5 HOH A 61 661 128 HOH HOH . E 5 HOH A 62 662 12 HOH HOH . E 5 HOH A 63 663 107 HOH HOH . E 5 HOH A 64 664 44 HOH HOH . E 5 HOH A 65 665 120 HOH HOH . E 5 HOH A 66 666 42 HOH HOH . E 5 HOH A 67 667 25 HOH HOH . E 5 HOH A 68 668 52 HOH HOH . E 5 HOH A 69 669 163 HOH HOH . E 5 HOH A 70 670 124 HOH HOH . E 5 HOH A 71 671 106 HOH HOH . E 5 HOH A 72 672 91 HOH HOH . E 5 HOH A 73 673 139 HOH HOH . E 5 HOH A 74 674 228 HOH HOH . E 5 HOH A 75 675 132 HOH HOH . E 5 HOH A 76 676 3 HOH HOH . E 5 HOH A 77 677 80 HOH HOH . E 5 HOH A 78 678 16 HOH HOH . E 5 HOH A 79 679 46 HOH HOH . E 5 HOH A 80 680 182 HOH HOH . E 5 HOH A 81 681 123 HOH HOH . E 5 HOH A 82 682 82 HOH HOH . E 5 HOH A 83 683 112 HOH HOH . E 5 HOH A 84 684 69 HOH HOH . E 5 HOH A 85 685 187 HOH HOH . E 5 HOH A 86 686 246 HOH HOH . E 5 HOH A 87 687 51 HOH HOH . E 5 HOH A 88 688 39 HOH HOH . E 5 HOH A 89 689 66 HOH HOH . E 5 HOH A 90 690 40 HOH HOH . E 5 HOH A 91 691 4 HOH HOH . E 5 HOH A 92 692 219 HOH HOH . E 5 HOH A 93 693 49 HOH HOH . E 5 HOH A 94 694 28 HOH HOH . E 5 HOH A 95 695 125 HOH HOH . E 5 HOH A 96 696 154 HOH HOH . E 5 HOH A 97 697 223 HOH HOH . E 5 HOH A 98 698 53 HOH HOH . E 5 HOH A 99 699 20 HOH HOH . E 5 HOH A 100 700 34 HOH HOH . E 5 HOH A 101 701 45 HOH HOH . E 5 HOH A 102 702 1 HOH HOH . E 5 HOH A 103 703 111 HOH HOH . E 5 HOH A 104 704 83 HOH HOH . E 5 HOH A 105 705 50 HOH HOH . E 5 HOH A 106 706 127 HOH HOH . E 5 HOH A 107 707 54 HOH HOH . E 5 HOH A 108 708 189 HOH HOH . E 5 HOH A 109 709 103 HOH HOH . E 5 HOH A 110 710 162 HOH HOH . E 5 HOH A 111 711 151 HOH HOH . E 5 HOH A 112 712 115 HOH HOH . E 5 HOH A 113 713 72 HOH HOH . E 5 HOH A 114 714 171 HOH HOH . E 5 HOH A 115 715 100 HOH HOH . E 5 HOH A 116 716 96 HOH HOH . E 5 HOH A 117 717 99 HOH HOH . E 5 HOH A 118 718 236 HOH HOH . E 5 HOH A 119 719 158 HOH HOH . E 5 HOH A 120 720 150 HOH HOH . E 5 HOH A 121 721 89 HOH HOH . E 5 HOH A 122 722 109 HOH HOH . E 5 HOH A 123 723 47 HOH HOH . E 5 HOH A 124 724 129 HOH HOH . E 5 HOH A 125 725 8 HOH HOH . E 5 HOH A 126 726 61 HOH HOH . E 5 HOH A 127 727 130 HOH HOH . E 5 HOH A 128 728 67 HOH HOH . E 5 HOH A 129 729 24 HOH HOH . E 5 HOH A 130 730 17 HOH HOH . E 5 HOH A 131 731 13 HOH HOH . E 5 HOH A 132 732 206 HOH HOH . E 5 HOH A 133 733 77 HOH HOH . E 5 HOH A 134 734 114 HOH HOH . E 5 HOH A 135 735 231 HOH HOH . E 5 HOH A 136 736 198 HOH HOH . E 5 HOH A 137 737 134 HOH HOH . E 5 HOH A 138 738 84 HOH HOH . E 5 HOH A 139 739 37 HOH HOH . E 5 HOH A 140 740 55 HOH HOH . E 5 HOH A 141 741 140 HOH HOH . E 5 HOH A 142 742 239 HOH HOH . E 5 HOH A 143 743 242 HOH HOH . E 5 HOH A 144 744 101 HOH HOH . E 5 HOH A 145 745 143 HOH HOH . E 5 HOH A 146 746 191 HOH HOH . E 5 HOH A 147 747 172 HOH HOH . E 5 HOH A 148 748 32 HOH HOH . E 5 HOH A 149 749 22 HOH HOH . E 5 HOH A 150 750 167 HOH HOH . E 5 HOH A 151 751 75 HOH HOH . E 5 HOH A 152 752 224 HOH HOH . E 5 HOH A 153 753 23 HOH HOH . E 5 HOH A 154 754 173 HOH HOH . E 5 HOH A 155 755 70 HOH HOH . E 5 HOH A 156 756 74 HOH HOH . E 5 HOH A 157 757 145 HOH HOH . E 5 HOH A 158 758 196 HOH HOH . E 5 HOH A 159 759 192 HOH HOH . E 5 HOH A 160 760 232 HOH HOH . E 5 HOH A 161 761 207 HOH HOH . E 5 HOH A 162 762 244 HOH HOH . E 5 HOH A 163 763 186 HOH HOH . E 5 HOH A 164 764 141 HOH HOH . E 5 HOH A 165 765 161 HOH HOH . E 5 HOH A 166 766 136 HOH HOH . E 5 HOH A 167 767 156 HOH HOH . E 5 HOH A 168 768 202 HOH HOH . E 5 HOH A 169 769 217 HOH HOH . E 5 HOH A 170 770 200 HOH HOH . E 5 HOH A 171 771 185 HOH HOH . E 5 HOH A 172 772 85 HOH HOH . E 5 HOH A 173 773 193 HOH HOH . E 5 HOH A 174 774 235 HOH HOH . E 5 HOH A 175 775 215 HOH HOH . E 5 HOH A 176 776 240 HOH HOH . E 5 HOH A 177 777 233 HOH HOH . E 5 HOH A 178 778 194 HOH HOH . E 5 HOH A 179 779 170 HOH HOH . E 5 HOH A 180 780 212 HOH HOH . E 5 HOH A 181 781 48 HOH HOH . E 5 HOH A 182 782 211 HOH HOH . E 5 HOH A 183 783 245 HOH HOH . E 5 HOH A 184 784 237 HOH HOH . E 5 HOH A 185 785 238 HOH HOH . E 5 HOH A 186 786 149 HOH HOH . E 5 HOH A 187 787 184 HOH HOH . E 5 HOH A 188 788 164 HOH HOH . E 5 HOH A 189 789 221 HOH HOH . E 5 HOH A 190 790 181 HOH HOH . E 5 HOH A 191 791 241 HOH HOH . E 5 HOH A 192 792 152 HOH HOH . E 5 HOH A 193 793 188 HOH HOH . E 5 HOH A 194 794 68 HOH HOH . E 5 HOH A 195 795 169 HOH HOH . E 5 HOH A 196 796 147 HOH HOH . E 5 HOH A 197 797 230 HOH HOH . E 5 HOH A 198 798 216 HOH HOH . E 5 HOH A 199 799 222 HOH HOH . E 5 HOH A 200 800 119 HOH HOH . E 5 HOH A 201 801 209 HOH HOH . E 5 HOH A 202 802 133 HOH HOH . E 5 HOH A 203 803 201 HOH HOH . E 5 HOH A 204 804 226 HOH HOH . E 5 HOH A 205 805 199 HOH HOH . E 5 HOH A 206 806 78 HOH HOH . E 5 HOH A 207 807 227 HOH HOH . E 5 HOH A 208 808 108 HOH HOH . E 5 HOH A 209 809 225 HOH HOH . E 5 HOH A 210 810 175 HOH HOH . E 5 HOH A 211 811 153 HOH HOH . E 5 HOH A 212 812 95 HOH HOH . E 5 HOH A 213 813 155 HOH HOH . E 5 HOH A 214 814 197 HOH HOH . E 5 HOH A 215 815 229 HOH HOH . F 5 HOH B 1 601 90 HOH HOH . F 5 HOH B 2 602 135 HOH HOH . F 5 HOH B 3 603 190 HOH HOH . F 5 HOH B 4 604 10 HOH HOH . F 5 HOH B 5 605 14 HOH HOH . F 5 HOH B 6 606 6 HOH HOH . F 5 HOH B 7 607 33 HOH HOH . F 5 HOH B 8 608 76 HOH HOH . F 5 HOH B 9 609 105 HOH HOH . F 5 HOH B 10 610 15 HOH HOH . F 5 HOH B 11 611 138 HOH HOH . F 5 HOH B 12 612 159 HOH HOH . F 5 HOH B 13 613 65 HOH HOH . F 5 HOH B 14 614 26 HOH HOH . F 5 HOH B 15 615 131 HOH HOH . F 5 HOH B 16 616 41 HOH HOH . F 5 HOH B 17 617 214 HOH HOH . F 5 HOH B 18 618 195 HOH HOH . F 5 HOH B 19 619 166 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 AKG . . . D 4 12.692 -13.771 -21.964 1 14.56 ? C1 AKG 502 A 1 HETATM 2 O O1 AKG . . . D 4 13.583 -12.969 -21.726 1 15.21 ? O1 AKG 502 A 1 HETATM 3 O O2 AKG . . . D 4 12.612 -14.968 -21.446 1 14.83 ? O2 AKG 502 A 1 HETATM 4 C C2 AKG . . . D 4 11.552 -13.429 -22.935 1 12.97 ? C2 AKG 502 A 1 HETATM 5 O O5 AKG . . . D 4 10.855 -14.338 -23.368 1 14 ? O5 AKG 502 A 1 HETATM 6 C C3 AKG . . . D 4 11.318 -11.991 -23.311 1 14.98 ? C3 AKG 502 A 1 HETATM 7 C C4 AKG . . . D 4 9.874 -11.721 -23.692 1 15.18 ? C4 AKG 502 A 1 HETATM 8 C C5 AKG . . . D 4 9.608 -10.296 -24.084 1 14.87 ? C5 AKG 502 A 1 HETATM 9 O O3 AKG . . . D 4 8.448 -10.129 -24.654 1 15.42 ? O3 AKG 502 A 1 HETATM 10 O O4 AKG . . . D 4 10.406 -9.398 -23.894 1 18.06 ? O4 AKG 502 A 1 HETATM 11 H H31 AKG . . . D 4 11.886 -11.769 -24.065 1 17.97 ? H31 AKG 502 A 1 HETATM 12 H H32 AKG . . . D 4 11.55 -11.429 -22.555 1 17.97 ? H32 AKG 502 A 1 HETATM 13 H H41 AKG . . . D 4 9.311 -11.94 -22.933 1 18.22 ? H41 AKG 502 A 1 HETATM 14 H H42 AKG . . . D 4 9.644 -12.293 -24.441 1 18.22 ? H42 AKG 502 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 296 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #