data_6DB2 # _model_server_result.job_id wmE5qR8uHRcIKf5erU851Q _model_server_result.datetime_utc '2024-10-22 09:31:41' _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 6db2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 6DB2 # _exptl.entry_id 6DB2 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 118.088 _entity.id 2 _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 109.47 _cell.angle_gamma 90 _cell.entry_id 6DB2 _cell.length_a 81.025 _cell.length_b 66.637 _cell.length_c 63.224 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6DB2 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 2 _struct_asym.id B _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 146 A HIS 168 1_555 D V1 VVO . A VVO 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.243 ? metalc ? metalc2 A OE1 GLU 148 A GLU 170 1_555 D V1 VVO . A VVO 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? metalc ? metalc3 A NE2 HIS 294 A HIS 316 1_555 D V1 VVO . A VVO 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.178 ? metalc ? metalc4 B O3 SIN . A SIN 401 1_555 D V1 VVO . A VVO 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.465 ? metalc ? metalc5 B O4 SIN . A SIN 401 1_555 D V1 VVO . A VVO 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.147 ? # _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 327 n n C1 O2 SIN sing 328 n n C1 C2 SIN sing 329 n n O2 HO2 SIN sing 330 n n C2 C3 SIN sing 331 n n C2 H21 SIN sing 332 n n C2 H22 SIN sing 333 n n C3 C4 SIN sing 334 n n C3 H31 SIN sing 335 n n C3 H32 SIN sing 336 n n C4 O3 SIN doub 337 n n C4 O4 SIN sing 338 n n O4 HO4 SIN sing 339 n n # _atom_sites.entry_id 6DB2 _atom_sites.fract_transf_matrix[1][1] 0.012342 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004363 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015007 _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] 0.016776 _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 SIN A 1 401 1 SIN SIN . C 3 HRG A 1 402 1 HRG HOM . D 4 VVO A 1 403 1 VVO VNY . E 5 EDO A 1 404 1 EDO EDO . F 5 EDO A 1 405 2 EDO EDO . G 5 EDO A 1 406 3 EDO EDO . H 6 HOH A 1 501 209 HOH HOH . H 6 HOH A 2 502 206 HOH HOH . H 6 HOH A 3 503 219 HOH HOH . H 6 HOH A 4 504 145 HOH HOH . H 6 HOH A 5 505 211 HOH HOH . H 6 HOH A 6 506 26 HOH HOH . H 6 HOH A 7 507 210 HOH HOH . H 6 HOH A 8 508 101 HOH HOH . H 6 HOH A 9 509 155 HOH HOH . H 6 HOH A 10 510 16 HOH HOH . H 6 HOH A 11 511 142 HOH HOH . H 6 HOH A 12 512 164 HOH HOH . H 6 HOH A 13 513 33 HOH HOH . H 6 HOH A 14 514 143 HOH HOH . H 6 HOH A 15 515 71 HOH HOH . H 6 HOH A 16 516 176 HOH HOH . H 6 HOH A 17 517 80 HOH HOH . H 6 HOH A 18 518 207 HOH HOH . H 6 HOH A 19 519 122 HOH HOH . H 6 HOH A 20 520 68 HOH HOH . H 6 HOH A 21 521 170 HOH HOH . H 6 HOH A 22 522 74 HOH HOH . H 6 HOH A 23 523 10 HOH HOH . H 6 HOH A 24 524 94 HOH HOH . H 6 HOH A 25 525 108 HOH HOH . H 6 HOH A 26 526 15 HOH HOH . H 6 HOH A 27 527 4 HOH HOH . H 6 HOH A 28 528 171 HOH HOH . H 6 HOH A 29 529 5 HOH HOH . H 6 HOH A 30 530 65 HOH HOH . H 6 HOH A 31 531 60 HOH HOH . H 6 HOH A 32 532 113 HOH HOH . H 6 HOH A 33 533 21 HOH HOH . H 6 HOH A 34 534 203 HOH HOH . H 6 HOH A 35 535 159 HOH HOH . H 6 HOH A 36 536 35 HOH HOH . H 6 HOH A 37 537 189 HOH HOH . H 6 HOH A 38 538 214 HOH HOH . H 6 HOH A 39 539 17 HOH HOH . H 6 HOH A 40 540 175 HOH HOH . H 6 HOH A 41 541 169 HOH HOH . H 6 HOH A 42 542 200 HOH HOH . H 6 HOH A 43 543 64 HOH HOH . H 6 HOH A 44 544 178 HOH HOH . H 6 HOH A 45 545 25 HOH HOH . H 6 HOH A 46 546 131 HOH HOH . H 6 HOH A 47 547 78 HOH HOH . H 6 HOH A 48 548 180 HOH HOH . H 6 HOH A 49 549 41 HOH HOH . H 6 HOH A 50 550 6 HOH HOH . H 6 HOH A 51 551 190 HOH HOH . H 6 HOH A 52 552 215 HOH HOH . H 6 HOH A 53 553 42 HOH HOH . H 6 HOH A 54 554 19 HOH HOH . H 6 HOH A 55 555 67 HOH HOH . H 6 HOH A 56 556 53 HOH HOH . H 6 HOH A 57 557 47 HOH HOH . H 6 HOH A 58 558 83 HOH HOH . H 6 HOH A 59 559 158 HOH HOH . H 6 HOH A 60 560 84 HOH HOH . H 6 HOH A 61 561 22 HOH HOH . H 6 HOH A 62 562 119 HOH HOH . H 6 HOH A 63 563 93 HOH HOH . H 6 HOH A 64 564 213 HOH HOH . H 6 HOH A 65 565 77 HOH HOH . H 6 HOH A 66 566 109 HOH HOH . H 6 HOH A 67 567 1 HOH HOH . H 6 HOH A 68 568 49 HOH HOH . H 6 HOH A 69 569 156 HOH HOH . H 6 HOH A 70 570 57 HOH HOH . H 6 HOH A 71 571 45 HOH HOH . H 6 HOH A 72 572 110 HOH HOH . H 6 HOH A 73 573 52 HOH HOH . H 6 HOH A 74 574 62 HOH HOH . H 6 HOH A 75 575 28 HOH HOH . H 6 HOH A 76 576 212 HOH HOH . H 6 HOH A 77 577 221 HOH HOH . H 6 HOH A 78 578 183 HOH HOH . H 6 HOH A 79 579 132 HOH HOH . H 6 HOH A 80 580 160 HOH HOH . H 6 HOH A 81 581 23 HOH HOH . H 6 HOH A 82 582 2 HOH HOH . H 6 HOH A 83 583 95 HOH HOH . H 6 HOH A 84 584 39 HOH HOH . H 6 HOH A 85 585 9 HOH HOH . H 6 HOH A 86 586 167 HOH HOH . H 6 HOH A 87 587 38 HOH HOH . H 6 HOH A 88 588 81 HOH HOH . H 6 HOH A 89 589 220 HOH HOH . H 6 HOH A 90 590 146 HOH HOH . H 6 HOH A 91 591 165 HOH HOH . H 6 HOH A 92 592 54 HOH HOH . H 6 HOH A 93 593 40 HOH HOH . H 6 HOH A 94 594 88 HOH HOH . H 6 HOH A 95 595 135 HOH HOH . H 6 HOH A 96 596 153 HOH HOH . H 6 HOH A 97 597 216 HOH HOH . H 6 HOH A 98 598 168 HOH HOH . H 6 HOH A 99 599 148 HOH HOH . H 6 HOH A 100 600 76 HOH HOH . H 6 HOH A 101 601 96 HOH HOH . H 6 HOH A 102 602 86 HOH HOH . H 6 HOH A 103 603 91 HOH HOH . H 6 HOH A 104 604 50 HOH HOH . H 6 HOH A 105 605 72 HOH HOH . H 6 HOH A 106 606 222 HOH HOH . H 6 HOH A 107 607 18 HOH HOH . H 6 HOH A 108 608 92 HOH HOH . H 6 HOH A 109 609 120 HOH HOH . H 6 HOH A 110 610 56 HOH HOH . H 6 HOH A 111 611 13 HOH HOH . H 6 HOH A 112 612 89 HOH HOH . H 6 HOH A 113 613 125 HOH HOH . H 6 HOH A 114 614 103 HOH HOH . H 6 HOH A 115 615 36 HOH HOH . H 6 HOH A 116 616 7 HOH HOH . H 6 HOH A 117 617 204 HOH HOH . H 6 HOH A 118 618 11 HOH HOH . H 6 HOH A 119 619 188 HOH HOH . H 6 HOH A 120 620 182 HOH HOH . H 6 HOH A 121 621 43 HOH HOH . H 6 HOH A 122 622 61 HOH HOH . H 6 HOH A 123 623 174 HOH HOH . H 6 HOH A 124 624 195 HOH HOH . H 6 HOH A 125 625 123 HOH HOH . H 6 HOH A 126 626 29 HOH HOH . H 6 HOH A 127 627 172 HOH HOH . H 6 HOH A 128 628 30 HOH HOH . H 6 HOH A 129 629 99 HOH HOH . H 6 HOH A 130 630 12 HOH HOH . H 6 HOH A 131 631 196 HOH HOH . H 6 HOH A 132 632 223 HOH HOH . H 6 HOH A 133 633 140 HOH HOH . H 6 HOH A 134 634 90 HOH HOH . H 6 HOH A 135 635 102 HOH HOH . H 6 HOH A 136 636 127 HOH HOH . H 6 HOH A 137 637 187 HOH HOH . H 6 HOH A 138 638 59 HOH HOH . H 6 HOH A 139 639 55 HOH HOH . H 6 HOH A 140 640 185 HOH HOH . H 6 HOH A 141 641 44 HOH HOH . H 6 HOH A 142 642 198 HOH HOH . H 6 HOH A 143 643 34 HOH HOH . H 6 HOH A 144 644 98 HOH HOH . H 6 HOH A 145 645 138 HOH HOH . H 6 HOH A 146 646 58 HOH HOH . H 6 HOH A 147 647 126 HOH HOH . H 6 HOH A 148 648 114 HOH HOH . H 6 HOH A 149 649 157 HOH HOH . H 6 HOH A 150 650 163 HOH HOH . H 6 HOH A 151 651 73 HOH HOH . H 6 HOH A 152 652 14 HOH HOH . H 6 HOH A 153 653 79 HOH HOH . H 6 HOH A 154 654 116 HOH HOH . H 6 HOH A 155 655 177 HOH HOH . H 6 HOH A 156 656 24 HOH HOH . H 6 HOH A 157 657 124 HOH HOH . H 6 HOH A 158 658 87 HOH HOH . H 6 HOH A 159 659 66 HOH HOH . H 6 HOH A 160 660 137 HOH HOH . H 6 HOH A 161 661 63 HOH HOH . H 6 HOH A 162 662 128 HOH HOH . H 6 HOH A 163 663 192 HOH HOH . H 6 HOH A 164 664 136 HOH HOH . H 6 HOH A 165 665 100 HOH HOH . H 6 HOH A 166 666 130 HOH HOH . H 6 HOH A 167 667 8 HOH HOH . H 6 HOH A 168 668 85 HOH HOH . H 6 HOH A 169 669 70 HOH HOH . H 6 HOH A 170 670 105 HOH HOH . H 6 HOH A 171 671 144 HOH HOH . H 6 HOH A 172 672 37 HOH HOH . H 6 HOH A 173 673 117 HOH HOH . H 6 HOH A 174 674 20 HOH HOH . H 6 HOH A 175 675 193 HOH HOH . H 6 HOH A 176 676 82 HOH HOH . H 6 HOH A 177 677 31 HOH HOH . H 6 HOH A 178 678 121 HOH HOH . H 6 HOH A 179 679 75 HOH HOH . H 6 HOH A 180 680 217 HOH HOH . H 6 HOH A 181 681 150 HOH HOH . H 6 HOH A 182 682 106 HOH HOH . H 6 HOH A 183 683 191 HOH HOH . H 6 HOH A 184 684 107 HOH HOH . H 6 HOH A 185 685 51 HOH HOH . H 6 HOH A 186 686 111 HOH HOH . H 6 HOH A 187 687 208 HOH HOH . H 6 HOH A 188 688 32 HOH HOH . H 6 HOH A 189 689 199 HOH HOH . H 6 HOH A 190 690 186 HOH HOH . H 6 HOH A 191 691 27 HOH HOH . H 6 HOH A 192 692 194 HOH HOH . H 6 HOH A 193 693 46 HOH HOH . H 6 HOH A 194 694 141 HOH HOH . H 6 HOH A 195 695 115 HOH HOH . H 6 HOH A 196 696 104 HOH HOH . H 6 HOH A 197 697 166 HOH HOH . H 6 HOH A 198 698 202 HOH HOH . H 6 HOH A 199 699 48 HOH HOH . H 6 HOH A 200 700 173 HOH HOH . H 6 HOH A 201 701 118 HOH HOH . H 6 HOH A 202 702 97 HOH HOH . H 6 HOH A 203 703 139 HOH HOH . H 6 HOH A 204 704 179 HOH HOH . H 6 HOH A 205 705 162 HOH HOH . H 6 HOH A 206 706 151 HOH HOH . H 6 HOH A 207 707 205 HOH HOH . H 6 HOH A 208 708 154 HOH HOH . H 6 HOH A 209 709 69 HOH HOH . H 6 HOH A 210 710 129 HOH HOH . H 6 HOH A 211 711 147 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 . . . B 2 6.585 0.294 23.812 1 12.85 ? C1 SIN 401 A 1 HETATM 2 O O1 SIN . . . B 2 5.662 -0.494 24.149 1 12.14 ? O1 SIN 401 A 1 HETATM 3 O O2 SIN . . . B 2 7.692 0.296 24.396 1 12.33 ? O2 SIN 401 A 1 HETATM 4 C C2 SIN . . . B 2 6.336 1.274 22.674 1 13.51 ? C2 SIN 401 A 1 HETATM 5 C C3 SIN . . . B 2 7.638 1.63 21.956 1 14.25 ? C3 SIN 401 A 1 HETATM 6 C C4 SIN . . . B 2 7.421 2.618 20.832 1 14.82 ? C4 SIN 401 A 1 HETATM 7 O O3 SIN . . . B 2 7.811 2.315 19.683 1 16.76 ? O3 SIN 401 A 1 HETATM 8 O O4 SIN . . . B 2 6.882 3.718 21.072 1 13.81 ? O4 SIN 401 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 291 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 8 #