data_7YXH # _model_server_result.job_id AhO97-aoscAAuQiK-Y4CQw _model_server_result.datetime_utc '2024-11-19 18:39:19' _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 7yxh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":502}' # _entry.id 7YXH # _exptl.entry_id 7YXH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 118.088 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SUCCINIC 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 101.73 _cell.angle_gamma 90 _cell.entry_id 7YXH _cell.length_a 54.63 _cell.length_b 65.334 _cell.length_c 103.671 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7YXH _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _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,G,H,I,J _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 3 _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 181 A HIS 175 1_555 C MN MN . A MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.16 ? metalc ? metalc2 A OD2 ASP 183 A ASP 177 1_555 C MN MN . A MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? metalc ? metalc3 A NE2 HIS 284 A HIS 278 1_555 C MN MN . A MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? metalc ? metalc4 C MN MN . A MN 501 1_555 D O1 SIN . A SIN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.26 ? metalc ? metalc5 C MN MN . A MN 501 1_555 D O2 SIN . A SIN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.121 ? metalc ? metalc6 C MN MN . A MN 501 1_555 I O HOH . A HOH 676 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.211 ? metalc ? metalc7 B NE2 HIS 181 B HIS 175 1_555 G MN MN . B MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.294 ? metalc ? metalc8 B OD2 ASP 183 B ASP 177 1_555 G MN MN . B MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? metalc ? metalc9 B NE2 HIS 284 B HIS 278 1_555 G MN MN . B MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.424 ? metalc ? metalc10 G MN MN . B MN 501 1_555 J O HOH . B HOH 622 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.229 ? metalc ? metalc11 G MN MN . B MN 501 1_555 J O HOH . B HOH 628 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.203 ? metalc ? metalc12 G MN MN . B MN 501 1_555 J O HOH . B HOH 631 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.369 ? # _chem_comp.formula 'C4 H6 O4' _chem_comp.formula_weight 118.088 _chem_comp.id SIN _chem_comp.mon_nstd_flag . _chem_comp.name 'SUCCINIC 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 SIN doub 299 n n C1 O2 SIN sing 300 n n C1 C2 SIN sing 301 n n O2 HO2 SIN sing 302 n n C2 C3 SIN sing 303 n n C2 H21 SIN sing 304 n n C2 H22 SIN sing 305 n n C3 C4 SIN sing 306 n n C3 H31 SIN sing 307 n n C3 H32 SIN sing 308 n n C4 O3 SIN doub 309 n n C4 O4 SIN sing 310 n n O4 HO4 SIN sing 311 n n # _atom_sites.entry_id 7YXH _atom_sites.fract_transf_matrix[1][1] 0.018305 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003801 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015306 _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] 0.009852 _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 MN A 1 501 501 MN MN . D 3 SIN A 1 502 601 SIN SIN . E 4 EDO A 1 503 701 EDO EDO . F 5 MG A 1 504 502 MG MG . G 2 MN B 1 501 501 MN MN . H 4 EDO B 1 502 701 EDO EDO . I 6 HOH A 1 601 26 HOH HOH . I 6 HOH A 2 602 47 HOH HOH . I 6 HOH A 3 603 104 HOH HOH . I 6 HOH A 4 604 73 HOH HOH . I 6 HOH A 5 605 45 HOH HOH . I 6 HOH A 6 606 89 HOH HOH . I 6 HOH A 7 607 88 HOH HOH . I 6 HOH A 8 608 87 HOH HOH . I 6 HOH A 9 609 67 HOH HOH . I 6 HOH A 10 610 66 HOH HOH . I 6 HOH A 11 611 53 HOH HOH . I 6 HOH A 12 612 120 HOH HOH . I 6 HOH A 13 613 57 HOH HOH . I 6 HOH A 14 614 13 HOH HOH . I 6 HOH A 15 615 23 HOH HOH . I 6 HOH A 16 616 105 HOH HOH . I 6 HOH A 17 617 39 HOH HOH . I 6 HOH A 18 618 62 HOH HOH . I 6 HOH A 19 619 9 HOH HOH . I 6 HOH A 20 620 1 HOH HOH . I 6 HOH A 21 621 113 HOH HOH . I 6 HOH A 22 622 110 HOH HOH . I 6 HOH A 23 623 54 HOH HOH . I 6 HOH A 24 624 5 HOH HOH . I 6 HOH A 25 625 96 HOH HOH . I 6 HOH A 26 626 15 HOH HOH . I 6 HOH A 27 627 22 HOH HOH . I 6 HOH A 28 628 37 HOH HOH . I 6 HOH A 29 629 11 HOH HOH . I 6 HOH A 30 630 32 HOH HOH . I 6 HOH A 31 631 97 HOH HOH . I 6 HOH A 32 632 6 HOH HOH . I 6 HOH A 33 633 83 HOH HOH . I 6 HOH A 34 634 20 HOH HOH . I 6 HOH A 35 635 91 HOH HOH . I 6 HOH A 36 636 79 HOH HOH . I 6 HOH A 37 637 10 HOH HOH . I 6 HOH A 38 638 77 HOH HOH . I 6 HOH A 39 639 72 HOH HOH . I 6 HOH A 40 640 94 HOH HOH . I 6 HOH A 41 641 3 HOH HOH . I 6 HOH A 42 642 14 HOH HOH . I 6 HOH A 43 643 38 HOH HOH . I 6 HOH A 44 644 60 HOH HOH . I 6 HOH A 45 645 8 HOH HOH . I 6 HOH A 46 646 95 HOH HOH . I 6 HOH A 47 647 85 HOH HOH . I 6 HOH A 48 648 21 HOH HOH . I 6 HOH A 49 649 16 HOH HOH . I 6 HOH A 50 650 40 HOH HOH . I 6 HOH A 51 651 30 HOH HOH . I 6 HOH A 52 652 76 HOH HOH . I 6 HOH A 53 653 41 HOH HOH . I 6 HOH A 54 654 27 HOH HOH . I 6 HOH A 55 655 42 HOH HOH . I 6 HOH A 56 656 34 HOH HOH . I 6 HOH A 57 657 56 HOH HOH . I 6 HOH A 58 658 106 HOH HOH . I 6 HOH A 59 659 44 HOH HOH . I 6 HOH A 60 660 58 HOH HOH . I 6 HOH A 61 661 68 HOH HOH . I 6 HOH A 62 662 35 HOH HOH . I 6 HOH A 63 663 18 HOH HOH . I 6 HOH A 64 664 70 HOH HOH . I 6 HOH A 65 665 109 HOH HOH . I 6 HOH A 66 666 61 HOH HOH . I 6 HOH A 67 667 51 HOH HOH . I 6 HOH A 68 668 7 HOH HOH . I 6 HOH A 69 669 75 HOH HOH . I 6 HOH A 70 670 74 HOH HOH . I 6 HOH A 71 671 124 HOH HOH . I 6 HOH A 72 672 31 HOH HOH . I 6 HOH A 73 673 71 HOH HOH . I 6 HOH A 74 674 28 HOH HOH . I 6 HOH A 75 675 101 HOH HOH . I 6 HOH A 76 676 80 HOH HOH . I 6 HOH A 77 677 36 HOH HOH . I 6 HOH A 78 678 123 HOH HOH . I 6 HOH A 79 679 12 HOH HOH . I 6 HOH A 80 680 99 HOH HOH . I 6 HOH A 81 681 50 HOH HOH . I 6 HOH A 82 682 122 HOH HOH . I 6 HOH A 83 683 78 HOH HOH . I 6 HOH A 84 684 118 HOH HOH . I 6 HOH A 85 685 52 HOH HOH . I 6 HOH A 86 686 98 HOH HOH . I 6 HOH A 87 687 115 HOH HOH . I 6 HOH A 88 688 29 HOH HOH . I 6 HOH A 89 689 114 HOH HOH . J 6 HOH B 1 601 90 HOH HOH . J 6 HOH B 2 602 107 HOH HOH . J 6 HOH B 3 603 102 HOH HOH . J 6 HOH B 4 604 103 HOH HOH . J 6 HOH B 5 605 63 HOH HOH . J 6 HOH B 6 606 4 HOH HOH . J 6 HOH B 7 607 48 HOH HOH . J 6 HOH B 8 608 46 HOH HOH . J 6 HOH B 9 609 55 HOH HOH . J 6 HOH B 10 610 2 HOH HOH . J 6 HOH B 11 611 82 HOH HOH . J 6 HOH B 12 612 108 HOH HOH . J 6 HOH B 13 613 17 HOH HOH . J 6 HOH B 14 614 116 HOH HOH . J 6 HOH B 15 615 65 HOH HOH . J 6 HOH B 16 616 84 HOH HOH . J 6 HOH B 17 617 24 HOH HOH . J 6 HOH B 18 618 69 HOH HOH . J 6 HOH B 19 619 93 HOH HOH . J 6 HOH B 20 620 92 HOH HOH . J 6 HOH B 21 621 33 HOH HOH . J 6 HOH B 22 622 81 HOH HOH . J 6 HOH B 23 623 19 HOH HOH . J 6 HOH B 24 624 59 HOH HOH . J 6 HOH B 25 625 25 HOH HOH . J 6 HOH B 26 626 117 HOH HOH . J 6 HOH B 27 627 43 HOH HOH . J 6 HOH B 28 628 111 HOH HOH . J 6 HOH B 29 629 100 HOH HOH . J 6 HOH B 30 630 49 HOH HOH . J 6 HOH B 31 631 86 HOH HOH . J 6 HOH B 32 632 112 HOH HOH . J 6 HOH B 33 633 64 HOH HOH . J 6 HOH B 34 634 119 HOH HOH . J 6 HOH B 35 635 121 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 SIN . . . D 3 -15.001 -1.607 8.06 1 47.22 ? C1 SIN 502 A 1 HETATM 2 O O1 SIN . . . D 3 -14.954 -0.703 7.199 1 44.48 ? O1 SIN 502 A 1 HETATM 3 O O2 SIN . . . D 3 -15.9 -2.476 7.966 1 39.95 ? O2 SIN 502 A 1 HETATM 4 C C2 SIN . . . D 3 -13.988 -1.639 9.183 1 48.56 ? C2 SIN 502 A 1 HETATM 5 C C3 SIN . . . D 3 -14.646 -2.392 10.33 1 52.52 ? C3 SIN 502 A 1 HETATM 6 C C4 SIN . . . D 3 -13.714 -2.572 11.502 1 51.93 ? C4 SIN 502 A 1 HETATM 7 O O3 SIN . . . D 3 -12.768 -1.782 11.685 1 51.32 ? O3 SIN 502 A 1 HETATM 8 O O4 SIN . . . D 3 -13.881 -3.51 12.311 1 50.03 ? O4 SIN 502 A 1 HETATM 9 H H21 SIN . . . D 3 -13.722 -0.627 9.49 1 58.18 ? H21 SIN 502 A 1 HETATM 10 H H22 SIN . . . D 3 -13.076 -2.143 8.865 1 58.18 ? H22 SIN 502 A 1 HETATM 11 H H31 SIN . . . D 3 -14.968 -3.371 9.976 1 62.94 ? H31 SIN 502 A 1 HETATM 12 H H32 SIN . . . D 3 -15.531 -1.846 10.656 1 62.94 ? H32 SIN 502 A 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 31 _model_server_stats.query_time_ms 308 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 12 #