data_6Y0N # _model_server_result.job_id ts9SNzeYAFCiOnJBGzYxnA _model_server_result.datetime_utc '2024-11-25 06:34:20' _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 6y0n # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":402}' # _entry.id 6Y0N # _exptl.entry_id 6Y0N _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 146.098 _entity.id 3 _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 110.15 _cell.angle_gamma 90 _cell.entry_id 6Y0N _cell.length_a 81.99 _cell.length_b 66.578 _cell.length_c 63.584 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6Y0N _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall 'C 2y' _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 _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 C _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 168 A HIS 168 1_555 D FE FE . A FE 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.151 ? metalc ? metalc2 A OE1 GLU 170 A GLU 170 1_555 D FE FE . A FE 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.09 ? metalc ? metalc3 A NE2 HIS 316 A HIS 316 1_555 D FE FE . A FE 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.979 ? metalc ? metalc4 C O2 AKG . A AKG 402 1_555 D FE FE . A FE 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.331 ? metalc ? metalc5 C O5 AKG . A AKG 402 1_555 D FE FE . A FE 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.189 ? # _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 6Y0N _atom_sites.fract_transf_matrix[1][1] 0.012197 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004475 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01502 _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] 0.016753 _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 ARG A 1 401 1 ARG ARG . C 3 AKG A 1 402 1 AKG AKG . D 4 FE A 1 403 1 FE FE . E 5 HOH A 1 501 60 HOH HOH . E 5 HOH A 2 502 143 HOH HOH . E 5 HOH A 3 503 2 HOH HOH . E 5 HOH A 4 504 49 HOH HOH . E 5 HOH A 5 505 43 HOH HOH . E 5 HOH A 6 506 117 HOH HOH . E 5 HOH A 7 507 135 HOH HOH . E 5 HOH A 8 508 14 HOH HOH . E 5 HOH A 9 509 116 HOH HOH . E 5 HOH A 10 510 115 HOH HOH . E 5 HOH A 11 511 74 HOH HOH . E 5 HOH A 12 512 123 HOH HOH . E 5 HOH A 13 513 78 HOH HOH . E 5 HOH A 14 514 4 HOH HOH . E 5 HOH A 15 515 94 HOH HOH . E 5 HOH A 16 516 36 HOH HOH . E 5 HOH A 17 517 44 HOH HOH . E 5 HOH A 18 518 129 HOH HOH . E 5 HOH A 19 519 164 HOH HOH . E 5 HOH A 20 520 38 HOH HOH . E 5 HOH A 21 521 12 HOH HOH . E 5 HOH A 22 522 128 HOH HOH . E 5 HOH A 23 523 99 HOH HOH . E 5 HOH A 24 524 103 HOH HOH . E 5 HOH A 25 525 28 HOH HOH . E 5 HOH A 26 526 1 HOH HOH . E 5 HOH A 27 527 10 HOH HOH . E 5 HOH A 28 528 67 HOH HOH . E 5 HOH A 29 529 16 HOH HOH . E 5 HOH A 30 530 7 HOH HOH . E 5 HOH A 31 531 9 HOH HOH . E 5 HOH A 32 532 46 HOH HOH . E 5 HOH A 33 533 37 HOH HOH . E 5 HOH A 34 534 18 HOH HOH . E 5 HOH A 35 535 85 HOH HOH . E 5 HOH A 36 536 6 HOH HOH . E 5 HOH A 37 537 87 HOH HOH . E 5 HOH A 38 538 50 HOH HOH . E 5 HOH A 39 539 20 HOH HOH . E 5 HOH A 40 540 95 HOH HOH . E 5 HOH A 41 541 3 HOH HOH . E 5 HOH A 42 542 62 HOH HOH . E 5 HOH A 43 543 58 HOH HOH . E 5 HOH A 44 544 93 HOH HOH . E 5 HOH A 45 545 55 HOH HOH . E 5 HOH A 46 546 27 HOH HOH . E 5 HOH A 47 547 40 HOH HOH . E 5 HOH A 48 548 64 HOH HOH . E 5 HOH A 49 549 30 HOH HOH . E 5 HOH A 50 550 23 HOH HOH . E 5 HOH A 51 551 113 HOH HOH . E 5 HOH A 52 552 84 HOH HOH . E 5 HOH A 53 553 21 HOH HOH . E 5 HOH A 54 554 155 HOH HOH . E 5 HOH A 55 555 42 HOH HOH . E 5 HOH A 56 556 173 HOH HOH . E 5 HOH A 57 557 51 HOH HOH . E 5 HOH A 58 558 122 HOH HOH . E 5 HOH A 59 559 32 HOH HOH . E 5 HOH A 60 560 13 HOH HOH . E 5 HOH A 61 561 166 HOH HOH . E 5 HOH A 62 562 8 HOH HOH . E 5 HOH A 63 563 52 HOH HOH . E 5 HOH A 64 564 41 HOH HOH . E 5 HOH A 65 565 152 HOH HOH . E 5 HOH A 66 566 125 HOH HOH . E 5 HOH A 67 567 98 HOH HOH . E 5 HOH A 68 568 79 HOH HOH . E 5 HOH A 69 569 5 HOH HOH . E 5 HOH A 70 570 59 HOH HOH . E 5 HOH A 71 571 19 HOH HOH . E 5 HOH A 72 572 69 HOH HOH . E 5 HOH A 73 573 35 HOH HOH . E 5 HOH A 74 574 90 HOH HOH . E 5 HOH A 75 575 121 HOH HOH . E 5 HOH A 76 576 151 HOH HOH . E 5 HOH A 77 577 72 HOH HOH . E 5 HOH A 78 578 61 HOH HOH . E 5 HOH A 79 579 149 HOH HOH . E 5 HOH A 80 580 146 HOH HOH . E 5 HOH A 81 581 26 HOH HOH . E 5 HOH A 82 582 68 HOH HOH . E 5 HOH A 83 583 134 HOH HOH . E 5 HOH A 84 584 96 HOH HOH . E 5 HOH A 85 585 11 HOH HOH . E 5 HOH A 86 586 106 HOH HOH . E 5 HOH A 87 587 81 HOH HOH . E 5 HOH A 88 588 63 HOH HOH . E 5 HOH A 89 589 102 HOH HOH . E 5 HOH A 90 590 163 HOH HOH . E 5 HOH A 91 591 186 HOH HOH . E 5 HOH A 92 592 48 HOH HOH . E 5 HOH A 93 593 15 HOH HOH . E 5 HOH A 94 594 34 HOH HOH . E 5 HOH A 95 595 89 HOH HOH . E 5 HOH A 96 596 47 HOH HOH . E 5 HOH A 97 597 153 HOH HOH . E 5 HOH A 98 598 160 HOH HOH . E 5 HOH A 99 599 114 HOH HOH . E 5 HOH A 100 600 108 HOH HOH . E 5 HOH A 101 601 119 HOH HOH . E 5 HOH A 102 602 109 HOH HOH . E 5 HOH A 103 603 22 HOH HOH . E 5 HOH A 104 604 45 HOH HOH . E 5 HOH A 105 605 65 HOH HOH . E 5 HOH A 106 606 150 HOH HOH . E 5 HOH A 107 607 54 HOH HOH . E 5 HOH A 108 608 82 HOH HOH . E 5 HOH A 109 609 104 HOH HOH . E 5 HOH A 110 610 100 HOH HOH . E 5 HOH A 111 611 91 HOH HOH . E 5 HOH A 112 612 177 HOH HOH . E 5 HOH A 113 613 145 HOH HOH . E 5 HOH A 114 614 25 HOH HOH . E 5 HOH A 115 615 77 HOH HOH . E 5 HOH A 116 616 66 HOH HOH . E 5 HOH A 117 617 139 HOH HOH . E 5 HOH A 118 618 39 HOH HOH . E 5 HOH A 119 619 86 HOH HOH . E 5 HOH A 120 620 31 HOH HOH . E 5 HOH A 121 621 57 HOH HOH . E 5 HOH A 122 622 111 HOH HOH . E 5 HOH A 123 623 70 HOH HOH . E 5 HOH A 124 624 126 HOH HOH . E 5 HOH A 125 625 17 HOH HOH . E 5 HOH A 126 626 138 HOH HOH . E 5 HOH A 127 627 157 HOH HOH . E 5 HOH A 128 628 112 HOH HOH . E 5 HOH A 129 629 33 HOH HOH . E 5 HOH A 130 630 107 HOH HOH . E 5 HOH A 131 631 29 HOH HOH . E 5 HOH A 132 632 101 HOH HOH . E 5 HOH A 133 633 156 HOH HOH . E 5 HOH A 134 634 144 HOH HOH . E 5 HOH A 135 635 83 HOH HOH . E 5 HOH A 136 636 167 HOH HOH . E 5 HOH A 137 637 178 HOH HOH . E 5 HOH A 138 638 176 HOH HOH . E 5 HOH A 139 639 136 HOH HOH . E 5 HOH A 140 640 183 HOH HOH . E 5 HOH A 141 641 73 HOH HOH . E 5 HOH A 142 642 92 HOH HOH . E 5 HOH A 143 643 175 HOH HOH . E 5 HOH A 144 644 53 HOH HOH . E 5 HOH A 145 645 80 HOH HOH . E 5 HOH A 146 646 168 HOH HOH . E 5 HOH A 147 647 154 HOH HOH . E 5 HOH A 148 648 180 HOH HOH . E 5 HOH A 149 649 179 HOH HOH . E 5 HOH A 150 650 76 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 . . . C 3 8.255 2.634 19.77 1 56.75 ? C1 AKG 402 A 1 HETATM 2 O O1 AKG . . . C 3 9.447 2.35 19.753 1 54.55 ? O1 AKG 402 A 1 HETATM 3 O O2 AKG . . . C 3 7.51 2.675 18.698 1 58.84 ? O2 AKG 402 A 1 HETATM 4 C C2 AKG . . . C 3 7.551 2.961 21.055 1 55.07 ? C2 AKG 402 A 1 HETATM 5 O O5 AKG . . . C 3 6.843 3.95 21.189 1 35.46 ? O5 AKG 402 A 1 HETATM 6 C C3 AKG . . . C 3 7.773 2.009 22.196 1 55.51 ? C3 AKG 402 A 1 HETATM 7 C C4 AKG . . . C 3 6.542 1.195 22.541 1 58.51 ? C4 AKG 402 A 1 HETATM 8 C C5 AKG . . . C 3 6.691 0.459 23.839 1 61.6 ? C5 AKG 402 A 1 HETATM 9 O O3 AKG . . . C 3 5.931 -0.408 24.217 1 57.73 ? O3 AKG 402 A 1 HETATM 10 O O4 AKG . . . C 3 7.737 0.861 24.513 1 61.89 ? O4 AKG 402 A 1 HETATM 11 H HO2 AKG . . . C 3 8.031 2.45 17.884 1 70.66 ? HO2 AKG 402 A 1 HETATM 12 H H31 AKG . . . C 3 8.62 1.363 21.969 1 66.67 ? H31 AKG 402 A 1 HETATM 13 H H32 AKG . . . C 3 8.094 2.59 23.058 1 66.67 ? H32 AKG 402 A 1 HETATM 14 H H41 AKG . . . C 3 5.673 1.849 22.595 1 70.27 ? H41 AKG 402 A 1 HETATM 15 H H42 AKG . . . C 3 6.29 0.507 21.735 1 70.27 ? H42 AKG 402 A 1 HETATM 16 H HO4 AKG . . . C 3 7.841 0.377 25.374 1 74.32 ? HO4 AKG 402 A 1 # _model_server_stats.io_time_ms 81 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 302 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 16 #