data_3OYZ # _model_server_result.job_id rtJhbpBg_VG0GhDb9cx3ig _model_server_result.datetime_utc '2024-11-28 12:25:27' _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 3oyz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":435}' # _entry.id 3OYZ # _exptl.entry_id 3OYZ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 88.062 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PYRUVIC 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 90 _cell.angle_gamma 120 _cell.entry_id 3OYZ _cell.length_a 154.788 _cell.length_b 154.788 _cell.length_c 142.144 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3OYZ _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA trimeric 3 author_and_software_defined_assembly 1 PISA hexameric 6 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H,I,J,K,L,M 1 1,2,3 A,B,C,D,E,F,G,H,I,J,K,L,M 2 1,2,3,4,5,6 # 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_555 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 0 0 4 'crystal symmetry operation' 4_556 y,x,-z+1 -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 142.144 5 'crystal symmetry operation' 5_556 x-y,-y,-z+1 1 0 0 0 -1 0 0 0 -1 0 0 142.144 6 'crystal symmetry operation' 6_556 -x,-x+y,-z+1 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 142.144 # _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 OE2 GLU 158 A GLU 158 1_555 D MG MG . A MG 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.141 ? metalc ? metalc2 A O MET 173 A MET 173 1_555 E K K . A K 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.563 ? metalc ? metalc3 A O LYS 175 A LYS 175 1_555 E K K . A K 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.62 ? metalc ? metalc4 A O PRO 176 A PRO 176 1_555 G K K . A K 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.901 ? metalc ? metalc5 A O ASN 178 A ASN 178 1_555 E K K . A K 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.709 ? metalc ? metalc6 A OD1 ASN 178 A ASN 178 1_555 E K K . A K 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.834 ? metalc ? metalc7 A O ASN 178 A ASN 178 1_555 G K K . A K 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.738 ? metalc ? metalc8 A OD1 ASN 179 A ASN 179 1_555 G K K . A K 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.738 ? metalc ? metalc9 A OE1 GLU 181 A GLU 181 1_555 E K K . A K 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.715 ? metalc ? metalc10 A OE2 GLU 181 A GLU 181 1_555 E K K . A K 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.146 ? metalc ? metalc11 A OD2 ASP 192 A ASP 192 1_555 D MG MG . A MG 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.891 ? metalc ? metalc12 A OG SER 217 A SER 217 1_555 F K K . A K 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.708 ? metalc ? metalc13 A O SER 217 A SER 217 1_555 F K K . A K 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.087 ? metalc ? metalc14 A OG SER 221 A SER 221 1_555 F K K . A K 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.949 ? metalc ? metalc15 A O GLY 252 A GLY 252 1_555 F K K . A K 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.944 ? metalc ? metalc16 C O PYR . A PYR 435 1_555 D MG MG . A MG 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.917 ? metalc ? metalc17 C O3 PYR . A PYR 435 1_555 D MG MG . A MG 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.177 ? metalc ? metalc18 M O HOH . A HOH 471 1_555 D MG MG . A MG 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.996 ? metalc ? metalc19 M O HOH . A HOH 482 1_555 G K K . A K 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.344 ? metalc ? metalc20 M O HOH . A HOH 483 1_555 E K K . A K 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.712 ? metalc ? metalc21 M O HOH . A HOH 498 1_555 D MG MG . A MG 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.368 ? # _chem_comp.formula 'C3 H4 O3' _chem_comp.formula_weight 88.062 _chem_comp.id PYR _chem_comp.mon_nstd_flag . _chem_comp.name 'PYRUVIC 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 C O PYR doub 372 n n C OXT PYR sing 373 n n C CA PYR sing 374 n n OXT HXT PYR sing 375 n n CA O3 PYR doub 376 n n CA CB PYR sing 377 n n CB HB1 PYR sing 378 n n CB HB2 PYR sing 379 n n CB HB3 PYR sing 380 n n # _atom_sites.entry_id 3OYZ _atom_sites.fract_transf_matrix[1][1] 0.00646 _atom_sites.fract_transf_matrix[1][2] 0.00373 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00746 _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] 0.007035 _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 ACO A 1 434 1 ACO ACO . C 3 PYR A 1 435 2 PYR PYR . D 4 MG A 1 500 500 MG MG . E 5 K A 1 601 601 K K . F 5 K A 1 602 602 K K . G 5 K A 1 603 603 K K . H 6 CL A 1 701 701 CL CL . I 6 CL A 1 702 702 CL CL . J 6 CL A 1 704 704 CL CL . K 6 CL A 1 705 705 CL CL . L 7 PO4 A 1 800 800 PO4 PO4 . M 8 HOH A 1 436 1 HOH HOH . M 8 HOH A 2 437 2 HOH HOH . M 8 HOH A 3 438 3 HOH HOH . M 8 HOH A 4 439 4 HOH HOH . M 8 HOH A 5 440 5 HOH HOH . M 8 HOH A 6 441 6 HOH HOH . M 8 HOH A 7 442 7 HOH HOH . M 8 HOH A 8 443 8 HOH HOH . M 8 HOH A 9 444 9 HOH HOH . M 8 HOH A 10 445 10 HOH HOH . M 8 HOH A 11 446 11 HOH HOH . M 8 HOH A 12 447 12 HOH HOH . M 8 HOH A 13 448 13 HOH HOH . M 8 HOH A 14 449 14 HOH HOH . M 8 HOH A 15 450 15 HOH HOH . M 8 HOH A 16 451 16 HOH HOH . M 8 HOH A 17 452 17 HOH HOH . M 8 HOH A 18 453 18 HOH HOH . M 8 HOH A 19 454 19 HOH HOH . M 8 HOH A 20 455 20 HOH HOH . M 8 HOH A 21 456 21 HOH HOH . M 8 HOH A 22 457 22 HOH HOH . M 8 HOH A 23 458 23 HOH HOH . M 8 HOH A 24 459 24 HOH HOH . M 8 HOH A 25 460 25 HOH HOH . M 8 HOH A 26 461 26 HOH HOH . M 8 HOH A 27 462 27 HOH HOH . M 8 HOH A 28 463 28 HOH HOH . M 8 HOH A 29 464 29 HOH HOH . M 8 HOH A 30 465 30 HOH HOH . M 8 HOH A 31 466 31 HOH HOH . M 8 HOH A 32 467 32 HOH HOH . M 8 HOH A 33 468 33 HOH HOH . M 8 HOH A 34 469 34 HOH HOH . M 8 HOH A 35 470 35 HOH HOH . M 8 HOH A 36 471 36 HOH HOH . M 8 HOH A 37 472 37 HOH HOH . M 8 HOH A 38 473 38 HOH HOH . M 8 HOH A 39 474 39 HOH HOH . M 8 HOH A 40 475 40 HOH HOH . M 8 HOH A 41 476 41 HOH HOH . M 8 HOH A 42 477 42 HOH HOH . M 8 HOH A 43 478 43 HOH HOH . M 8 HOH A 44 479 44 HOH HOH . M 8 HOH A 45 480 45 HOH HOH . M 8 HOH A 46 481 46 HOH HOH . M 8 HOH A 47 482 47 HOH HOH . M 8 HOH A 48 483 48 HOH HOH . M 8 HOH A 49 484 49 HOH HOH . M 8 HOH A 50 485 50 HOH HOH . M 8 HOH A 51 486 51 HOH HOH . M 8 HOH A 52 487 52 HOH HOH . M 8 HOH A 53 488 53 HOH HOH . M 8 HOH A 54 489 54 HOH HOH . M 8 HOH A 55 490 55 HOH HOH . M 8 HOH A 56 491 56 HOH HOH . M 8 HOH A 57 492 57 HOH HOH . M 8 HOH A 58 493 58 HOH HOH . M 8 HOH A 59 494 59 HOH HOH . M 8 HOH A 60 495 60 HOH HOH . M 8 HOH A 61 496 61 HOH HOH . M 8 HOH A 62 497 62 HOH HOH . M 8 HOH A 63 498 63 HOH HOH . M 8 HOH A 64 499 64 HOH HOH . M 8 HOH A 65 501 65 HOH HOH . M 8 HOH A 66 502 66 HOH HOH . M 8 HOH A 67 503 67 HOH HOH . M 8 HOH A 68 504 68 HOH HOH . M 8 HOH A 69 505 69 HOH HOH . M 8 HOH A 70 506 70 HOH HOH . M 8 HOH A 71 507 71 HOH HOH . M 8 HOH A 72 508 72 HOH HOH . M 8 HOH A 73 509 73 HOH HOH . M 8 HOH A 74 510 74 HOH HOH . M 8 HOH A 75 511 75 HOH HOH . M 8 HOH A 76 512 76 HOH HOH . M 8 HOH A 77 513 77 HOH HOH . M 8 HOH A 78 514 78 HOH HOH . M 8 HOH A 79 515 79 HOH HOH . M 8 HOH A 80 516 80 HOH HOH . M 8 HOH A 81 517 81 HOH HOH . M 8 HOH A 82 518 82 HOH HOH . M 8 HOH A 83 519 83 HOH HOH . M 8 HOH A 84 520 84 HOH HOH . M 8 HOH A 85 521 85 HOH HOH . M 8 HOH A 86 522 86 HOH HOH . M 8 HOH A 87 523 87 HOH HOH . M 8 HOH A 88 524 88 HOH HOH . M 8 HOH A 89 525 89 HOH HOH . M 8 HOH A 90 526 90 HOH HOH . M 8 HOH A 91 527 91 HOH HOH . M 8 HOH A 92 528 92 HOH HOH . M 8 HOH A 93 529 93 HOH HOH . M 8 HOH A 94 530 94 HOH HOH . M 8 HOH A 95 531 95 HOH HOH . M 8 HOH A 96 532 96 HOH HOH . M 8 HOH A 97 533 97 HOH HOH . M 8 HOH A 98 534 98 HOH HOH . M 8 HOH A 99 535 99 HOH HOH . M 8 HOH A 100 536 100 HOH HOH . M 8 HOH A 101 537 101 HOH HOH . M 8 HOH A 102 538 102 HOH HOH . M 8 HOH A 103 539 103 HOH HOH . M 8 HOH A 104 540 104 HOH HOH . M 8 HOH A 105 541 105 HOH HOH . M 8 HOH A 106 542 106 HOH HOH . M 8 HOH A 107 543 107 HOH HOH . M 8 HOH A 108 544 108 HOH HOH . M 8 HOH A 109 545 109 HOH HOH . M 8 HOH A 110 546 110 HOH HOH . M 8 HOH A 111 547 111 HOH HOH . M 8 HOH A 112 548 112 HOH HOH . M 8 HOH A 113 549 113 HOH HOH . M 8 HOH A 114 550 114 HOH HOH . M 8 HOH A 115 551 115 HOH HOH . M 8 HOH A 116 552 116 HOH HOH . M 8 HOH A 117 553 117 HOH HOH . M 8 HOH A 118 554 118 HOH HOH . M 8 HOH A 119 555 119 HOH HOH . M 8 HOH A 120 556 120 HOH HOH . M 8 HOH A 121 557 121 HOH HOH . M 8 HOH A 122 558 122 HOH HOH . M 8 HOH A 123 559 123 HOH HOH . M 8 HOH A 124 560 124 HOH HOH . M 8 HOH A 125 561 125 HOH HOH . M 8 HOH A 126 562 126 HOH HOH . M 8 HOH A 127 563 127 HOH HOH . M 8 HOH A 128 564 128 HOH HOH . M 8 HOH A 129 565 129 HOH HOH . M 8 HOH A 130 566 130 HOH HOH . M 8 HOH A 131 567 131 HOH HOH . M 8 HOH A 132 568 132 HOH HOH . M 8 HOH A 133 569 133 HOH HOH . M 8 HOH A 134 570 134 HOH HOH . M 8 HOH A 135 571 135 HOH HOH . M 8 HOH A 136 572 136 HOH HOH . M 8 HOH A 137 573 137 HOH HOH . M 8 HOH A 138 574 138 HOH HOH . M 8 HOH A 139 575 139 HOH HOH . M 8 HOH A 140 576 140 HOH HOH . M 8 HOH A 141 577 141 HOH HOH . M 8 HOH A 142 578 142 HOH HOH . M 8 HOH A 143 579 143 HOH HOH . M 8 HOH A 144 580 144 HOH HOH . M 8 HOH A 145 581 145 HOH HOH . M 8 HOH A 146 582 146 HOH HOH . M 8 HOH A 147 583 147 HOH HOH . M 8 HOH A 148 584 148 HOH HOH . M 8 HOH A 149 585 149 HOH HOH . M 8 HOH A 150 586 150 HOH HOH . M 8 HOH A 151 587 151 HOH HOH . M 8 HOH A 152 588 152 HOH HOH . M 8 HOH A 153 589 153 HOH HOH . M 8 HOH A 154 590 154 HOH HOH . M 8 HOH A 155 591 155 HOH HOH . M 8 HOH A 156 592 156 HOH HOH . M 8 HOH A 157 593 157 HOH HOH . M 8 HOH A 158 594 158 HOH HOH . M 8 HOH A 159 595 159 HOH HOH . M 8 HOH A 160 596 160 HOH HOH . M 8 HOH A 161 597 161 HOH HOH . M 8 HOH A 162 598 162 HOH HOH . M 8 HOH A 163 599 163 HOH HOH . M 8 HOH A 164 600 164 HOH HOH . M 8 HOH A 165 604 165 HOH HOH . M 8 HOH A 166 605 166 HOH HOH . M 8 HOH A 167 606 167 HOH HOH . M 8 HOH A 168 607 168 HOH HOH . M 8 HOH A 169 608 169 HOH HOH . M 8 HOH A 170 609 170 HOH HOH . M 8 HOH A 171 610 171 HOH HOH . M 8 HOH A 172 611 172 HOH HOH . M 8 HOH A 173 612 173 HOH HOH . M 8 HOH A 174 613 174 HOH HOH . M 8 HOH A 175 614 175 HOH HOH . M 8 HOH A 176 615 176 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 C PYR . . . C 3 -20.14 1.725 47.129 1 38.18 ? C PYR 435 A 1 HETATM 2 O O PYR . . . C 3 -20.147 2.769 47.866 1 39.37 ? O PYR 435 A 1 HETATM 3 O OXT PYR . . . C 3 -19.297 1.545 46.176 1 34.51 ? OXT PYR 435 A 1 HETATM 4 C CA PYR . . . C 3 -21.01 0.697 47.494 1 48.55 ? CA PYR 435 A 1 HETATM 5 O O3 PYR . . . C 3 -21.774 0.827 48.542 1 46.92 ? O3 PYR 435 A 1 HETATM 6 C CB PYR . . . C 3 -21.009 -0.581 46.741 1 49.87 ? CB PYR 435 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 305 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 6 #