data_2FD8
#
_model_server_result.job_id            5CSmR5MNYdTcwLtNDBlnhw 
_model_server_result.datetime_utc      '2024-12-11 07:21:02' 
_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          2fd8 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":400}' 
#
_entry.id    2FD8 
#
_exptl.entry_id    2FD8 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              146.098 
_entity.id                          4 
_entity.src_method                  syn 
_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            2FD8 
_cell.length_a            40.746 
_cell.length_b            40.746 
_cell.length_c            118.304 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2FD8 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        78 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 43' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_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
covale ? covale1 A O3' DT 1 B DT 501 1_555 A P MA7 2 B MA7 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.593 ? 
covale ? covale2 A O3' MA7 2 B MA7 502 1_555 A P DT 3 B DT 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.611 ? 
metalc ? metalc1 B NE2 HIS 121 A HIS 131 1_555 C FE FE2 . A FE2 300 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.293 ? 
metalc ? metalc2 B OD1 ASP 123 A ASP 133 1_555 C FE FE2 . A FE2 300 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.195 ? 
metalc ? metalc3 B NE2 HIS 177 A HIS 187 1_555 C FE FE2 . A FE2 300 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.409 ? 
metalc ? metalc4 C FE FE2 . A FE2 300 1_555 D O5 AKG . A AKG 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.42 ? 
metalc ? metalc5 C FE FE2 . A FE2 300 1_555 D O2 AKG . A AKG 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.097 ? 
#
_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                     2FD8 
_atom_sites.fract_transf_matrix[1][1]    0.024542 
_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]    0.024542 
_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]    0.008453 
_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 FE2 A 1 300 300 FE2 FE2 . 
D 4 AKG A 1 400 400 AKG AKG . 
E 5 HOH B 1 602 602 HOH HOH . 
E 5 HOH B 2 607 607 HOH HOH . 
E 5 HOH B 3 627 627 HOH HOH . 
E 5 HOH B 4 632 632 HOH HOH . 
E 5 HOH B 5 633 633 HOH HOH . 
E 5 HOH B 6 652 652 HOH HOH . 
E 5 HOH B 7 680 680 HOH HOH . 
E 5 HOH B 8 687 687 HOH HOH . 
E 5 HOH B 9 698 698 HOH HOH . 
E 5 HOH B 10 708 708 HOH HOH . 
E 5 HOH B 11 733 733 HOH HOH . 
E 5 HOH B 12 736 736 HOH HOH . 
E 5 HOH B 13 752 752 HOH HOH . 
E 5 HOH B 14 757 757 HOH HOH . 
E 5 HOH B 15 758 758 HOH HOH . 
E 5 HOH B 16 767 767 HOH HOH . 
E 5 HOH B 17 774 774 HOH HOH . 
E 5 HOH B 18 800 800 HOH HOH . 
F 5 HOH A 1 601 601 HOH HOH . 
F 5 HOH A 2 603 603 HOH HOH . 
F 5 HOH A 3 604 604 HOH HOH . 
F 5 HOH A 4 605 605 HOH HOH . 
F 5 HOH A 5 606 606 HOH HOH . 
F 5 HOH A 6 608 608 HOH HOH . 
F 5 HOH A 7 609 609 HOH HOH . 
F 5 HOH A 8 610 610 HOH HOH . 
F 5 HOH A 9 611 611 HOH HOH . 
F 5 HOH A 10 612 612 HOH HOH . 
F 5 HOH A 11 613 613 HOH HOH . 
F 5 HOH A 12 614 614 HOH HOH . 
F 5 HOH A 13 615 615 HOH HOH . 
F 5 HOH A 14 616 616 HOH HOH . 
F 5 HOH A 15 617 617 HOH HOH . 
F 5 HOH A 16 618 618 HOH HOH . 
F 5 HOH A 17 619 619 HOH HOH . 
F 5 HOH A 18 620 620 HOH HOH . 
F 5 HOH A 19 621 621 HOH HOH . 
F 5 HOH A 20 622 622 HOH HOH . 
F 5 HOH A 21 623 623 HOH HOH . 
F 5 HOH A 22 624 624 HOH HOH . 
F 5 HOH A 23 625 625 HOH HOH . 
F 5 HOH A 24 626 626 HOH HOH . 
F 5 HOH A 25 628 628 HOH HOH . 
F 5 HOH A 26 629 629 HOH HOH . 
F 5 HOH A 27 630 630 HOH HOH . 
F 5 HOH A 28 631 631 HOH HOH . 
F 5 HOH A 29 634 634 HOH HOH . 
F 5 HOH A 30 635 635 HOH HOH . 
F 5 HOH A 31 636 636 HOH HOH . 
F 5 HOH A 32 637 637 HOH HOH . 
F 5 HOH A 33 638 638 HOH HOH . 
F 5 HOH A 34 639 639 HOH HOH . 
F 5 HOH A 35 640 640 HOH HOH . 
F 5 HOH A 36 641 641 HOH HOH . 
F 5 HOH A 37 642 642 HOH HOH . 
F 5 HOH A 38 643 643 HOH HOH . 
F 5 HOH A 39 644 644 HOH HOH . 
F 5 HOH A 40 645 645 HOH HOH . 
F 5 HOH A 41 646 646 HOH HOH . 
F 5 HOH A 42 647 647 HOH HOH . 
F 5 HOH A 43 648 648 HOH HOH . 
F 5 HOH A 44 649 649 HOH HOH . 
F 5 HOH A 45 650 650 HOH HOH . 
F 5 HOH A 46 651 651 HOH HOH . 
F 5 HOH A 47 653 653 HOH HOH . 
F 5 HOH A 48 654 654 HOH HOH . 
F 5 HOH A 49 655 655 HOH HOH . 
F 5 HOH A 50 656 656 HOH HOH . 
F 5 HOH A 51 657 657 HOH HOH . 
F 5 HOH A 52 658 658 HOH HOH . 
F 5 HOH A 53 659 659 HOH HOH . 
F 5 HOH A 54 660 660 HOH HOH . 
F 5 HOH A 55 661 661 HOH HOH . 
F 5 HOH A 56 662 662 HOH HOH . 
F 5 HOH A 57 663 663 HOH HOH . 
F 5 HOH A 58 664 664 HOH HOH . 
F 5 HOH A 59 665 665 HOH HOH . 
F 5 HOH A 60 666 666 HOH HOH . 
F 5 HOH A 61 667 667 HOH HOH . 
F 5 HOH A 62 668 668 HOH HOH . 
F 5 HOH A 63 669 669 HOH HOH . 
F 5 HOH A 64 670 670 HOH HOH . 
F 5 HOH A 65 671 671 HOH HOH . 
F 5 HOH A 66 672 672 HOH HOH . 
F 5 HOH A 67 673 673 HOH HOH . 
F 5 HOH A 68 674 674 HOH HOH . 
F 5 HOH A 69 675 675 HOH HOH . 
F 5 HOH A 70 676 676 HOH HOH . 
F 5 HOH A 71 677 677 HOH HOH . 
F 5 HOH A 72 678 678 HOH HOH . 
F 5 HOH A 73 679 679 HOH HOH . 
F 5 HOH A 74 681 681 HOH HOH . 
F 5 HOH A 75 682 682 HOH HOH . 
F 5 HOH A 76 683 683 HOH HOH . 
F 5 HOH A 77 684 684 HOH HOH . 
F 5 HOH A 78 685 685 HOH HOH . 
F 5 HOH A 79 686 686 HOH HOH . 
F 5 HOH A 80 688 688 HOH HOH . 
F 5 HOH A 81 689 689 HOH HOH . 
F 5 HOH A 82 690 690 HOH HOH . 
F 5 HOH A 83 691 691 HOH HOH . 
F 5 HOH A 84 692 692 HOH HOH . 
F 5 HOH A 85 693 693 HOH HOH . 
F 5 HOH A 86 694 694 HOH HOH . 
F 5 HOH A 87 695 695 HOH HOH . 
F 5 HOH A 88 696 696 HOH HOH . 
F 5 HOH A 89 697 697 HOH HOH . 
F 5 HOH A 90 699 699 HOH HOH . 
F 5 HOH A 91 700 700 HOH HOH . 
F 5 HOH A 92 701 701 HOH HOH . 
F 5 HOH A 93 702 702 HOH HOH . 
F 5 HOH A 94 703 703 HOH HOH . 
F 5 HOH A 95 704 704 HOH HOH . 
F 5 HOH A 96 705 705 HOH HOH . 
F 5 HOH A 97 706 706 HOH HOH . 
F 5 HOH A 98 707 707 HOH HOH . 
F 5 HOH A 99 709 709 HOH HOH . 
F 5 HOH A 100 710 710 HOH HOH . 
F 5 HOH A 101 711 711 HOH HOH . 
F 5 HOH A 102 712 712 HOH HOH . 
F 5 HOH A 103 713 713 HOH HOH . 
F 5 HOH A 104 714 714 HOH HOH . 
F 5 HOH A 105 715 715 HOH HOH . 
F 5 HOH A 106 716 716 HOH HOH . 
F 5 HOH A 107 717 717 HOH HOH . 
F 5 HOH A 108 718 718 HOH HOH . 
F 5 HOH A 109 719 719 HOH HOH . 
F 5 HOH A 110 720 720 HOH HOH . 
F 5 HOH A 111 721 721 HOH HOH . 
F 5 HOH A 112 722 722 HOH HOH . 
F 5 HOH A 113 723 723 HOH HOH . 
F 5 HOH A 114 724 724 HOH HOH . 
F 5 HOH A 115 725 725 HOH HOH . 
F 5 HOH A 116 726 726 HOH HOH . 
F 5 HOH A 117 727 727 HOH HOH . 
F 5 HOH A 118 728 728 HOH HOH . 
F 5 HOH A 119 729 729 HOH HOH . 
F 5 HOH A 120 730 730 HOH HOH . 
F 5 HOH A 121 731 731 HOH HOH . 
F 5 HOH A 122 732 732 HOH HOH . 
F 5 HOH A 123 734 734 HOH HOH . 
F 5 HOH A 124 735 735 HOH HOH . 
F 5 HOH A 125 737 737 HOH HOH . 
F 5 HOH A 126 738 738 HOH HOH . 
F 5 HOH A 127 739 739 HOH HOH . 
F 5 HOH A 128 740 740 HOH HOH . 
F 5 HOH A 129 741 741 HOH HOH . 
F 5 HOH A 130 742 742 HOH HOH . 
F 5 HOH A 131 743 743 HOH HOH . 
F 5 HOH A 132 744 744 HOH HOH . 
F 5 HOH A 133 745 745 HOH HOH . 
F 5 HOH A 134 746 746 HOH HOH . 
F 5 HOH A 135 747 747 HOH HOH . 
F 5 HOH A 136 748 748 HOH HOH . 
F 5 HOH A 137 749 749 HOH HOH . 
F 5 HOH A 138 750 750 HOH HOH . 
F 5 HOH A 139 751 751 HOH HOH . 
F 5 HOH A 140 753 753 HOH HOH . 
F 5 HOH A 141 754 754 HOH HOH . 
F 5 HOH A 142 755 755 HOH HOH . 
F 5 HOH A 143 756 756 HOH HOH . 
F 5 HOH A 144 759 759 HOH HOH . 
F 5 HOH A 145 760 760 HOH HOH . 
F 5 HOH A 146 761 761 HOH HOH . 
F 5 HOH A 147 762 762 HOH HOH . 
F 5 HOH A 148 763 763 HOH HOH . 
F 5 HOH A 149 764 764 HOH HOH . 
F 5 HOH A 150 765 765 HOH HOH . 
F 5 HOH A 151 766 766 HOH HOH . 
F 5 HOH A 152 768 768 HOH HOH . 
F 5 HOH A 153 769 769 HOH HOH . 
F 5 HOH A 154 770 770 HOH HOH . 
F 5 HOH A 155 771 771 HOH HOH . 
F 5 HOH A 156 772 772 HOH HOH . 
F 5 HOH A 157 773 773 HOH HOH . 
F 5 HOH A 158 775 775 HOH HOH . 
F 5 HOH A 159 776 776 HOH HOH . 
F 5 HOH A 160 777 777 HOH HOH . 
F 5 HOH A 161 778 778 HOH HOH . 
F 5 HOH A 162 779 779 HOH HOH . 
F 5 HOH A 163 780 780 HOH HOH . 
F 5 HOH A 164 781 781 HOH HOH . 
F 5 HOH A 165 782 782 HOH HOH . 
F 5 HOH A 166 783 783 HOH HOH . 
F 5 HOH A 167 784 784 HOH HOH . 
F 5 HOH A 168 785 785 HOH HOH . 
F 5 HOH A 169 786 786 HOH HOH . 
F 5 HOH A 170 787 787 HOH HOH . 
F 5 HOH A 171 788 788 HOH HOH . 
F 5 HOH A 172 789 789 HOH HOH . 
F 5 HOH A 173 790 790 HOH HOH . 
F 5 HOH A 174 791 791 HOH HOH . 
F 5 HOH A 175 792 792 HOH HOH . 
F 5 HOH A 176 793 793 HOH HOH . 
F 5 HOH A 177 794 794 HOH HOH . 
F 5 HOH A 178 795 795 HOH HOH . 
F 5 HOH A 179 796 796 HOH HOH . 
F 5 HOH A 180 797 797 HOH HOH . 
F 5 HOH A 181 798 798 HOH HOH . 
F 5 HOH A 182 799 799 HOH HOH . 
F 5 HOH A 183 801 801 HOH HOH . 
F 5 HOH A 184 802 802 HOH HOH . 
F 5 HOH A 185 803 803 HOH HOH . 
F 5 HOH A 186 804 804 HOH HOH . 
F 5 HOH A 187 805 805 HOH HOH . 
F 5 HOH A 188 806 806 HOH HOH . 
F 5 HOH A 189 807 807 HOH HOH . 
F 5 HOH A 190 808 808 HOH HOH . 
F 5 HOH A 191 809 809 HOH HOH . 
F 5 HOH A 192 810 810 HOH HOH . 
F 5 HOH A 193 811 811 HOH HOH . 
F 5 HOH A 194 812 812 HOH HOH . 
F 5 HOH A 195 813 813 HOH HOH . 
F 5 HOH A 196 814 814 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 24.722 36.994 58.636 1 21.51 ? C1 AKG 400 A 1 
HETATM 2 O O1 AKG . . . D 4 25.508 36.072 58.663 1 18.32 ? O1 AKG 400 A 1 
HETATM 3 O O2 AKG . . . D 4 25.137 38.232 58.955 1 18.84 ? O2 AKG 400 A 1 
HETATM 4 C C2 AKG . . . D 4 23.271 36.747 58.362 1 22.74 ? C2 AKG 400 A 1 
HETATM 5 O O5 AKG . . . D 4 22.477 37.645 58.539 1 25.9 ? O5 AKG 400 A 1 
HETATM 6 C C3 AKG . . . D 4 22.807 35.382 57.878 1 20.91 ? C3 AKG 400 A 1 
HETATM 7 C C4 AKG . . . D 4 21.279 35.312 57.781 1 20.07 ? C4 AKG 400 A 1 
HETATM 8 C C5 AKG . . . D 4 20.831 33.935 57.338 1 21.32 ? C5 AKG 400 A 1 
HETATM 9 O O3 AKG . . . D 4 21.422 32.942 57.701 1 16.52 ? O3 AKG 400 A 1 
HETATM 10 O O4 AKG . . . D 4 19.856 33.819 56.432 1 21.35 ? O4 AKG 400 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           321 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           10 
#