data_8FVD # _model_server_result.job_id 3HOyGaCfte-RYAXYmH23SA _model_server_result.datetime_utc '2024-11-05 06:53:38' _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 8fvd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":703}' # _entry.id 8FVD # _exptl.entry_id 8FVD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 104.061 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'MALONIC ACID' _entity.pdbx_number_of_molecules 2 _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 8FVD _cell.length_a 161.069 _cell.length_b 110.013 _cell.length_c 129.511 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8FVD _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall 'P 2 2ab' _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,I,J _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_455 -x-1,-y,z -1 0 0 0 -1 0 0 0 1 -161.069 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 H N 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 D O1B GTF . A GTF 602 1_555 E MG MG . A MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.402 ? metalc ? metalc2 D O2A GTF . A GTF 602 1_555 E MG MG . A MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.525 ? metalc ? metalc3 D O3G GTF . A GTF 602 1_555 E MG MG . A MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.427 ? metalc ? metalc4 F O1A GTF . B GTF 701 1_555 G MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.555 ? metalc ? metalc5 F O2B GTF . B GTF 701 1_555 G MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.72 ? metalc ? metalc6 F O2G GTF . B GTF 701 1_555 G MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.486 ? metalc ? metalc7 G MG MG . B MG 702 1_555 J O HOH . B HOH 813 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.446 ? # _chem_comp.formula 'C3 H4 O4' _chem_comp.formula_weight 104.061 _chem_comp.id MLA _chem_comp.mon_nstd_flag . _chem_comp.name 'MALONIC ACID' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'DICARBOXYLIC ACID C3;PROPANEDIOLIC ACID;METHANEDICARBOXYLIC ACID' # 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 O1A MLA sing 282 n n C1 O1B MLA doub 283 n n C1 C2 MLA sing 284 n n O1A H1A MLA sing 285 n n C2 C3 MLA sing 286 n n C2 HC21 MLA sing 287 n n C2 HC22 MLA sing 288 n n C3 O3A MLA doub 289 n n C3 O3B MLA sing 290 n n O3B H3B MLA sing 291 n n # _atom_sites.entry_id 8FVD _atom_sites.fract_transf_matrix[1][1] 0.006209 _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] 0.00909 _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] 0.007721 _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 2 MLA A 1 601 601 MLA MLA . D 3 GTF A 1 602 701 GTF GTF . E 4 MG A 1 603 801 MG MG . F 3 GTF B 1 701 701 GTF GTF . G 4 MG B 1 702 801 MG MG . H 2 MLA B 1 703 601 MLA MLA . I 5 HOH A 1 701 26 HOH HOH . I 5 HOH A 2 702 225 HOH HOH . I 5 HOH A 3 703 19 HOH HOH . I 5 HOH A 4 704 227 HOH HOH . I 5 HOH A 5 705 81 HOH HOH . I 5 HOH A 6 706 201 HOH HOH . I 5 HOH A 7 707 106 HOH HOH . I 5 HOH A 8 708 85 HOH HOH . I 5 HOH A 9 709 72 HOH HOH . I 5 HOH A 10 710 14 HOH HOH . I 5 HOH A 11 711 121 HOH HOH . I 5 HOH A 12 712 138 HOH HOH . I 5 HOH A 13 713 223 HOH HOH . I 5 HOH A 14 714 215 HOH HOH . I 5 HOH A 15 715 118 HOH HOH . I 5 HOH A 16 716 112 HOH HOH . I 5 HOH A 17 717 96 HOH HOH . I 5 HOH A 18 718 30 HOH HOH . I 5 HOH A 19 719 191 HOH HOH . I 5 HOH A 20 720 202 HOH HOH . I 5 HOH A 21 721 147 HOH HOH . I 5 HOH A 22 722 115 HOH HOH . I 5 HOH A 23 723 20 HOH HOH . I 5 HOH A 24 724 6 HOH HOH . I 5 HOH A 25 725 160 HOH HOH . I 5 HOH A 26 726 140 HOH HOH . I 5 HOH A 27 727 69 HOH HOH . I 5 HOH A 28 728 5 HOH HOH . I 5 HOH A 29 729 80 HOH HOH . I 5 HOH A 30 730 88 HOH HOH . I 5 HOH A 31 731 40 HOH HOH . I 5 HOH A 32 732 39 HOH HOH . I 5 HOH A 33 733 130 HOH HOH . I 5 HOH A 34 734 210 HOH HOH . I 5 HOH A 35 735 36 HOH HOH . I 5 HOH A 36 736 8 HOH HOH . I 5 HOH A 37 737 68 HOH HOH . I 5 HOH A 38 738 28 HOH HOH . I 5 HOH A 39 739 169 HOH HOH . I 5 HOH A 40 740 180 HOH HOH . I 5 HOH A 41 741 51 HOH HOH . I 5 HOH A 42 742 181 HOH HOH . I 5 HOH A 43 743 54 HOH HOH . I 5 HOH A 44 744 157 HOH HOH . I 5 HOH A 45 745 101 HOH HOH . I 5 HOH A 46 746 92 HOH HOH . I 5 HOH A 47 747 175 HOH HOH . I 5 HOH A 48 748 63 HOH HOH . I 5 HOH A 49 749 13 HOH HOH . I 5 HOH A 50 750 103 HOH HOH . I 5 HOH A 51 751 163 HOH HOH . I 5 HOH A 52 752 87 HOH HOH . I 5 HOH A 53 753 29 HOH HOH . I 5 HOH A 54 754 212 HOH HOH . I 5 HOH A 55 755 9 HOH HOH . I 5 HOH A 56 756 220 HOH HOH . I 5 HOH A 57 757 24 HOH HOH . I 5 HOH A 58 758 52 HOH HOH . I 5 HOH A 59 759 135 HOH HOH . I 5 HOH A 60 760 77 HOH HOH . I 5 HOH A 61 761 59 HOH HOH . I 5 HOH A 62 762 133 HOH HOH . I 5 HOH A 63 763 113 HOH HOH . I 5 HOH A 64 764 78 HOH HOH . I 5 HOH A 65 765 162 HOH HOH . I 5 HOH A 66 766 43 HOH HOH . I 5 HOH A 67 767 122 HOH HOH . I 5 HOH A 68 768 170 HOH HOH . I 5 HOH A 69 769 42 HOH HOH . I 5 HOH A 70 770 204 HOH HOH . I 5 HOH A 71 771 177 HOH HOH . I 5 HOH A 72 772 12 HOH HOH . I 5 HOH A 73 773 73 HOH HOH . I 5 HOH A 74 774 185 HOH HOH . I 5 HOH A 75 775 111 HOH HOH . I 5 HOH A 76 776 134 HOH HOH . I 5 HOH A 77 777 91 HOH HOH . I 5 HOH A 78 778 195 HOH HOH . I 5 HOH A 79 779 84 HOH HOH . I 5 HOH A 80 780 114 HOH HOH . I 5 HOH A 81 781 23 HOH HOH . I 5 HOH A 82 782 167 HOH HOH . I 5 HOH A 83 783 99 HOH HOH . I 5 HOH A 84 784 150 HOH HOH . I 5 HOH A 85 785 159 HOH HOH . I 5 HOH A 86 786 67 HOH HOH . I 5 HOH A 87 787 108 HOH HOH . I 5 HOH A 88 788 110 HOH HOH . I 5 HOH A 89 789 192 HOH HOH . I 5 HOH A 90 790 221 HOH HOH . I 5 HOH A 91 791 149 HOH HOH . I 5 HOH A 92 792 151 HOH HOH . I 5 HOH A 93 793 193 HOH HOH . I 5 HOH A 94 794 194 HOH HOH . I 5 HOH A 95 795 187 HOH HOH . J 5 HOH B 1 801 144 HOH HOH . J 5 HOH B 2 802 132 HOH HOH . J 5 HOH B 3 803 136 HOH HOH . J 5 HOH B 4 804 155 HOH HOH . J 5 HOH B 5 805 1 HOH HOH . J 5 HOH B 6 806 3 HOH HOH . J 5 HOH B 7 807 21 HOH HOH . J 5 HOH B 8 808 217 HOH HOH . J 5 HOH B 9 809 205 HOH HOH . J 5 HOH B 10 810 203 HOH HOH . J 5 HOH B 11 811 98 HOH HOH . J 5 HOH B 12 812 116 HOH HOH . J 5 HOH B 13 813 226 HOH HOH . J 5 HOH B 14 814 154 HOH HOH . J 5 HOH B 15 815 183 HOH HOH . J 5 HOH B 16 816 4 HOH HOH . J 5 HOH B 17 817 184 HOH HOH . J 5 HOH B 18 818 166 HOH HOH . J 5 HOH B 19 819 27 HOH HOH . J 5 HOH B 20 820 131 HOH HOH . J 5 HOH B 21 821 76 HOH HOH . J 5 HOH B 22 822 75 HOH HOH . J 5 HOH B 23 823 2 HOH HOH . J 5 HOH B 24 824 100 HOH HOH . J 5 HOH B 25 825 218 HOH HOH . J 5 HOH B 26 826 49 HOH HOH . J 5 HOH B 27 827 105 HOH HOH . J 5 HOH B 28 828 61 HOH HOH . J 5 HOH B 29 829 34 HOH HOH . J 5 HOH B 30 830 213 HOH HOH . J 5 HOH B 31 831 216 HOH HOH . J 5 HOH B 32 832 206 HOH HOH . J 5 HOH B 33 833 90 HOH HOH . J 5 HOH B 34 834 142 HOH HOH . J 5 HOH B 35 835 129 HOH HOH . J 5 HOH B 36 836 17 HOH HOH . J 5 HOH B 37 837 82 HOH HOH . J 5 HOH B 38 838 97 HOH HOH . J 5 HOH B 39 839 171 HOH HOH . J 5 HOH B 40 840 47 HOH HOH . J 5 HOH B 41 841 46 HOH HOH . J 5 HOH B 42 842 56 HOH HOH . J 5 HOH B 43 843 128 HOH HOH . J 5 HOH B 44 844 33 HOH HOH . J 5 HOH B 45 845 66 HOH HOH . J 5 HOH B 46 846 146 HOH HOH . J 5 HOH B 47 847 211 HOH HOH . J 5 HOH B 48 848 15 HOH HOH . J 5 HOH B 49 849 10 HOH HOH . J 5 HOH B 50 850 219 HOH HOH . J 5 HOH B 51 851 127 HOH HOH . J 5 HOH B 52 852 50 HOH HOH . J 5 HOH B 53 853 11 HOH HOH . J 5 HOH B 54 854 71 HOH HOH . J 5 HOH B 55 855 109 HOH HOH . J 5 HOH B 56 856 41 HOH HOH . J 5 HOH B 57 857 25 HOH HOH . J 5 HOH B 58 858 156 HOH HOH . J 5 HOH B 59 859 32 HOH HOH . J 5 HOH B 60 860 37 HOH HOH . J 5 HOH B 61 861 188 HOH HOH . J 5 HOH B 62 862 95 HOH HOH . J 5 HOH B 63 863 44 HOH HOH . J 5 HOH B 64 864 7 HOH HOH . J 5 HOH B 65 865 31 HOH HOH . J 5 HOH B 66 866 62 HOH HOH . J 5 HOH B 67 867 174 HOH HOH . J 5 HOH B 68 868 45 HOH HOH . J 5 HOH B 69 869 165 HOH HOH . J 5 HOH B 70 870 89 HOH HOH . J 5 HOH B 71 871 178 HOH HOH . J 5 HOH B 72 872 64 HOH HOH . J 5 HOH B 73 873 94 HOH HOH . J 5 HOH B 74 874 53 HOH HOH . J 5 HOH B 75 875 224 HOH HOH . J 5 HOH B 76 876 18 HOH HOH . J 5 HOH B 77 877 104 HOH HOH . J 5 HOH B 78 878 93 HOH HOH . J 5 HOH B 79 879 214 HOH HOH . J 5 HOH B 80 880 139 HOH HOH . J 5 HOH B 81 881 152 HOH HOH . J 5 HOH B 82 882 222 HOH HOH . J 5 HOH B 83 883 173 HOH HOH . J 5 HOH B 84 884 123 HOH HOH . J 5 HOH B 85 885 208 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 MLA . . . H 2 -60.698 -5.138 -75.274 1 68.37 ? C1 MLA 703 B 1 HETATM 2 O O1A MLA . . . H 2 -61.444 -5.74 -74.474 1 63.78 ? O1A MLA 703 B 1 HETATM 3 O O1B MLA . . . H 2 -59.647 -4.526 -74.975 1 69.17 ? O1B MLA 703 B 1 HETATM 4 C C2 MLA . . . H 2 -61.078 -5.137 -76.763 1 79.14 ? C2 MLA 703 B 1 HETATM 5 C C3 MLA . . . H 2 -61.644 -3.767 -77.189 1 89.13 ? C3 MLA 703 B 1 HETATM 6 O O3A MLA . . . H 2 -62.526 -3.745 -78.076 1 88.15 ? O3A MLA 703 B 1 HETATM 7 O O3B MLA . . . H 2 -61.165 -2.768 -76.605 1 79.04 ? O3B MLA 703 B 1 # _model_server_stats.io_time_ms 30 _model_server_stats.parse_time_ms 28 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 271 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 7 #