data_8CCL # _model_server_result.job_id kUUD6H3xqXA3T2aNObKe_Q _model_server_result.datetime_utc '2025-07-07 20:54:01' _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 8ccl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":404}' # _entry.id 8CCL # _exptl.entry_id 8CCL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 102.046 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'MALONATE ION' _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 120 _cell.entry_id 8CCL _cell.length_a 67.89 _cell.length_b 67.89 _cell.length_c 155.4 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8CCL _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall 'P 31 2"' _symmetry.space_group_name_H-M 'P 31 2 1' # _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,G,H,I _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' 5_554 x-y,-y,-z-1/3 1 0 0 0 -1 0 0 0 -1 0 0 -51.8 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 D N N ? 4 E 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 disulf ? disulf1 A SG CYS 145 A CYS 137 1_555 A SG CYS 148 A CYS 140 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? metalc ? metalc1 G MG MG . A MG 406 1_555 I O HOH . A HOH 562 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.108 ? metalc ? metalc2 G MG MG . A MG 406 1_555 I O HOH . A HOH 585 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.447 ? # _chem_comp.formula 'C3 H2 O4 -2' _chem_comp.formula_weight 102.046 _chem_comp.id MLI _chem_comp.mon_nstd_flag . _chem_comp.name 'MALONATE ION' _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 C2 MLI sing 341 n n C1 C3 MLI sing 342 n n C1 H11 MLI sing 343 n n C1 H12 MLI sing 344 n n C2 O6 MLI doub 345 n n C2 O7 MLI sing 346 n n C3 O8 MLI doub 347 n n C3 O9 MLI sing 348 n n # _atom_sites.entry_id 8CCL _atom_sites.fract_transf_matrix[1][1] 0.01473 _atom_sites.fract_transf_matrix[1][2] 0.008504 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.017008 _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] 0.006435 _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 FAD A 1 401 400 FAD FAD . C 3 GOL A 1 402 801 GOL GOL . D 4 MLI A 1 403 901 MLI MLI . E 4 MLI A 1 404 1001 MLI MLI . F 5 U8O A 1 405 1101 U8O LIG . G 6 MG A 1 406 1 MG MG . H 6 MG A 1 407 2 MG MG . I 7 HOH A 1 501 178 HOH HOH . I 7 HOH A 2 502 91 HOH HOH . I 7 HOH A 3 503 99 HOH HOH . I 7 HOH A 4 504 5 HOH HOH . I 7 HOH A 5 505 121 HOH HOH . I 7 HOH A 6 506 85 HOH HOH . I 7 HOH A 7 507 114 HOH HOH . I 7 HOH A 8 508 92 HOH HOH . I 7 HOH A 9 509 96 HOH HOH . I 7 HOH A 10 510 107 HOH HOH . I 7 HOH A 11 511 115 HOH HOH . I 7 HOH A 12 512 95 HOH HOH . I 7 HOH A 13 513 1 HOH HOH . I 7 HOH A 14 514 146 HOH HOH . I 7 HOH A 15 515 35 HOH HOH . I 7 HOH A 16 516 8 HOH HOH . I 7 HOH A 17 517 22 HOH HOH . I 7 HOH A 18 518 44 HOH HOH . I 7 HOH A 19 519 23 HOH HOH . I 7 HOH A 20 520 3 HOH HOH . I 7 HOH A 21 521 6 HOH HOH . I 7 HOH A 22 522 36 HOH HOH . I 7 HOH A 23 523 88 HOH HOH . I 7 HOH A 24 524 10 HOH HOH . I 7 HOH A 25 525 17 HOH HOH . I 7 HOH A 26 526 94 HOH HOH . I 7 HOH A 27 527 104 HOH HOH . I 7 HOH A 28 528 31 HOH HOH . I 7 HOH A 29 529 11 HOH HOH . I 7 HOH A 30 530 20 HOH HOH . I 7 HOH A 31 531 41 HOH HOH . I 7 HOH A 32 532 9 HOH HOH . I 7 HOH A 33 533 138 HOH HOH . I 7 HOH A 34 534 24 HOH HOH . I 7 HOH A 35 535 74 HOH HOH . I 7 HOH A 36 536 21 HOH HOH . I 7 HOH A 37 537 123 HOH HOH . I 7 HOH A 38 538 181 HOH HOH . I 7 HOH A 39 539 43 HOH HOH . I 7 HOH A 40 540 42 HOH HOH . I 7 HOH A 41 541 7 HOH HOH . I 7 HOH A 42 542 60 HOH HOH . I 7 HOH A 43 543 28 HOH HOH . I 7 HOH A 44 544 18 HOH HOH . I 7 HOH A 45 545 58 HOH HOH . I 7 HOH A 46 546 30 HOH HOH . I 7 HOH A 47 547 161 HOH HOH . I 7 HOH A 48 548 109 HOH HOH . I 7 HOH A 49 549 98 HOH HOH . I 7 HOH A 50 550 56 HOH HOH . I 7 HOH A 51 551 111 HOH HOH . I 7 HOH A 52 552 39 HOH HOH . I 7 HOH A 53 553 29 HOH HOH . I 7 HOH A 54 554 4 HOH HOH . I 7 HOH A 55 555 38 HOH HOH . I 7 HOH A 56 556 180 HOH HOH . I 7 HOH A 57 557 71 HOH HOH . I 7 HOH A 58 558 82 HOH HOH . I 7 HOH A 59 559 152 HOH HOH . I 7 HOH A 60 560 80 HOH HOH . I 7 HOH A 61 561 49 HOH HOH . I 7 HOH A 62 562 93 HOH HOH . I 7 HOH A 63 563 153 HOH HOH . I 7 HOH A 64 564 68 HOH HOH . I 7 HOH A 65 565 64 HOH HOH . I 7 HOH A 66 566 52 HOH HOH . I 7 HOH A 67 567 13 HOH HOH . I 7 HOH A 68 568 37 HOH HOH . I 7 HOH A 69 569 128 HOH HOH . I 7 HOH A 70 570 32 HOH HOH . I 7 HOH A 71 571 45 HOH HOH . I 7 HOH A 72 572 26 HOH HOH . I 7 HOH A 73 573 54 HOH HOH . I 7 HOH A 74 574 46 HOH HOH . I 7 HOH A 75 575 25 HOH HOH . I 7 HOH A 76 576 118 HOH HOH . I 7 HOH A 77 577 186 HOH HOH . I 7 HOH A 78 578 55 HOH HOH . I 7 HOH A 79 579 62 HOH HOH . I 7 HOH A 80 580 166 HOH HOH . I 7 HOH A 81 581 48 HOH HOH . I 7 HOH A 82 582 87 HOH HOH . I 7 HOH A 83 583 81 HOH HOH . I 7 HOH A 84 584 110 HOH HOH . I 7 HOH A 85 585 125 HOH HOH . I 7 HOH A 86 586 14 HOH HOH . I 7 HOH A 87 587 12 HOH HOH . I 7 HOH A 88 588 150 HOH HOH . I 7 HOH A 89 589 61 HOH HOH . I 7 HOH A 90 590 63 HOH HOH . I 7 HOH A 91 591 51 HOH HOH . I 7 HOH A 92 592 136 HOH HOH . I 7 HOH A 93 593 119 HOH HOH . I 7 HOH A 94 594 34 HOH HOH . I 7 HOH A 95 595 19 HOH HOH . I 7 HOH A 96 596 137 HOH HOH . I 7 HOH A 97 597 2 HOH HOH . I 7 HOH A 98 598 70 HOH HOH . I 7 HOH A 99 599 177 HOH HOH . I 7 HOH A 100 600 15 HOH HOH . I 7 HOH A 101 601 90 HOH HOH . I 7 HOH A 102 602 141 HOH HOH . I 7 HOH A 103 603 53 HOH HOH . I 7 HOH A 104 604 33 HOH HOH . I 7 HOH A 105 605 50 HOH HOH . I 7 HOH A 106 606 159 HOH HOH . I 7 HOH A 107 607 57 HOH HOH . I 7 HOH A 108 608 175 HOH HOH . I 7 HOH A 109 609 162 HOH HOH . I 7 HOH A 110 610 102 HOH HOH . I 7 HOH A 111 611 66 HOH HOH . I 7 HOH A 112 612 40 HOH HOH . I 7 HOH A 113 613 103 HOH HOH . I 7 HOH A 114 614 47 HOH HOH . I 7 HOH A 115 615 158 HOH HOH . I 7 HOH A 116 616 67 HOH HOH . I 7 HOH A 117 617 105 HOH HOH . I 7 HOH A 118 618 148 HOH HOH . I 7 HOH A 119 619 16 HOH HOH . I 7 HOH A 120 620 65 HOH HOH . I 7 HOH A 121 621 59 HOH HOH . I 7 HOH A 122 622 75 HOH HOH . I 7 HOH A 123 623 73 HOH HOH . I 7 HOH A 124 624 176 HOH HOH . I 7 HOH A 125 625 77 HOH HOH . I 7 HOH A 126 626 83 HOH HOH . I 7 HOH A 127 627 27 HOH HOH . I 7 HOH A 128 628 79 HOH HOH . I 7 HOH A 129 629 151 HOH HOH . I 7 HOH A 130 630 155 HOH HOH . I 7 HOH A 131 631 127 HOH HOH . I 7 HOH A 132 632 160 HOH HOH . I 7 HOH A 133 633 106 HOH HOH . I 7 HOH A 134 634 135 HOH HOH . I 7 HOH A 135 635 157 HOH HOH . I 7 HOH A 136 636 76 HOH HOH . I 7 HOH A 137 637 185 HOH HOH . I 7 HOH A 138 638 174 HOH HOH . I 7 HOH A 139 639 139 HOH HOH . I 7 HOH A 140 640 126 HOH HOH . I 7 HOH A 141 641 131 HOH HOH . I 7 HOH A 142 642 72 HOH HOH . I 7 HOH A 143 643 132 HOH HOH . I 7 HOH A 144 644 133 HOH HOH . I 7 HOH A 145 645 116 HOH HOH . I 7 HOH A 146 646 182 HOH HOH . I 7 HOH A 147 647 167 HOH HOH . I 7 HOH A 148 648 184 HOH HOH . I 7 HOH A 149 649 112 HOH HOH . I 7 HOH A 150 650 169 HOH HOH . I 7 HOH A 151 651 187 HOH HOH . I 7 HOH A 152 652 129 HOH HOH . I 7 HOH A 153 653 97 HOH HOH . I 7 HOH A 154 654 89 HOH HOH . I 7 HOH A 155 655 154 HOH HOH . I 7 HOH A 156 656 170 HOH HOH . I 7 HOH A 157 657 134 HOH HOH . I 7 HOH A 158 658 113 HOH HOH . I 7 HOH A 159 659 84 HOH HOH . I 7 HOH A 160 660 86 HOH HOH . I 7 HOH A 161 661 171 HOH HOH . I 7 HOH A 162 662 147 HOH HOH . I 7 HOH A 163 663 172 HOH HOH . I 7 HOH A 164 664 183 HOH HOH . I 7 HOH A 165 665 140 HOH HOH . I 7 HOH A 166 666 156 HOH HOH . I 7 HOH A 167 667 168 HOH HOH . I 7 HOH A 168 668 163 HOH HOH . I 7 HOH A 169 669 143 HOH HOH . I 7 HOH A 170 670 124 HOH HOH . I 7 HOH A 171 671 179 HOH HOH . I 7 HOH A 172 672 120 HOH HOH . I 7 HOH A 173 673 78 HOH HOH . I 7 HOH A 174 674 149 HOH HOH . I 7 HOH A 175 675 117 HOH HOH . I 7 HOH A 176 676 142 HOH HOH . I 7 HOH A 177 677 108 HOH HOH . I 7 HOH A 178 678 130 HOH HOH . I 7 HOH A 179 679 188 HOH HOH . I 7 HOH A 180 680 144 HOH HOH . I 7 HOH A 181 681 173 HOH HOH . I 7 HOH A 182 682 101 HOH HOH . I 7 HOH A 183 683 122 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 MLI . . . E 4 -2.185 5.175 -17.36 1 52.74 ? C1 MLI 404 A 1 HETATM 2 C C2 MLI . . . E 4 -1.333 6.42 -17.552 1 53.67 ? C2 MLI 404 A 1 HETATM 3 C C3 MLI . . . E 4 -1.847 4.188 -18.495 1 59.78 ? C3 MLI 404 A 1 HETATM 4 O O6 MLI . . . E 4 -0.122 6.194 -17.767 1 51.76 ? O6 MLI 404 A 1 HETATM 5 O O7 MLI . . . E 4 -1.877 7.548 -17.502 1 57.77 -1 O7 MLI 404 A 1 HETATM 6 O O8 MLI . . . E 4 -2.423 4.371 -19.602 1 72.45 -1 O8 MLI 404 A 1 HETATM 7 O O9 MLI . . . E 4 -1.018 3.288 -18.24 1 53.53 ? O9 MLI 404 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 328 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 7 #