data_5Z2F # _model_server_result.job_id ktROs9I-eUpVspD3S_E6VA _model_server_result.datetime_utc '2025-01-02 19:35:21' _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 5z2f # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":302}' # _entry.id 5Z2F # _exptl.entry_id 5Z2F _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 167.119 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PYRIDINE-2,6-DICARBOXYLIC 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 90 _cell.entry_id 5Z2F _cell.length_a 79.942 _cell.length_b 79.942 _cell.length_c 83.835 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5Z2F _symmetry.cell_setting ? _symmetry.Int_Tables_number 94 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 42 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # 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 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 0 3 'crystal symmetry operation' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 0 4 'crystal symmetry operation' 8_555 -y,-x,-z 0 -1 0 -1 0 0 0 0 -1 0 0 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 # _chem_comp.formula 'C7 H5 N O4' _chem_comp.formula_weight 167.119 _chem_comp.id PDC _chem_comp.mon_nstd_flag . _chem_comp.name 'PYRIDINE-2,6-DICARBOXYLIC ACID' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'DIPICOLINIC ACID' # 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 N1 C2 PDC doub 317 n y N1 C6 PDC sing 318 n y C2 C3 PDC sing 319 n y C2 C7 PDC sing 320 n n C3 C4 PDC doub 321 n y C3 H3 PDC sing 322 n n C4 C5 PDC sing 323 n y C4 H4 PDC sing 324 n n C5 C6 PDC doub 325 n y C5 H5 PDC sing 326 n n C6 C8 PDC sing 327 n n C7 O1 PDC doub 328 n n C7 O2 PDC sing 329 n n O2 HO2 PDC sing 330 n n C8 O3 PDC doub 331 n n C8 O4 PDC sing 332 n n O4 HO4 PDC sing 333 n n # _atom_sites.entry_id 5Z2F _atom_sites.fract_transf_matrix[1][1] 0.012509 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012509 _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] 0.011928 _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 NAP A 1 301 1 NAP NAP . C 3 PDC A 1 302 1 PDC PDC . D 4 HOH A 1 401 84 HOH HOH . D 4 HOH A 2 402 86 HOH HOH . D 4 HOH A 3 403 125 HOH HOH . D 4 HOH A 4 404 75 HOH HOH . D 4 HOH A 5 405 72 HOH HOH . D 4 HOH A 6 406 41 HOH HOH . D 4 HOH A 7 407 58 HOH HOH . D 4 HOH A 8 408 30 HOH HOH . D 4 HOH A 9 409 67 HOH HOH . D 4 HOH A 10 410 1 HOH HOH . D 4 HOH A 11 411 81 HOH HOH . D 4 HOH A 12 412 54 HOH HOH . D 4 HOH A 13 413 8 HOH HOH . D 4 HOH A 14 414 36 HOH HOH . D 4 HOH A 15 415 35 HOH HOH . D 4 HOH A 16 416 24 HOH HOH . D 4 HOH A 17 417 40 HOH HOH . D 4 HOH A 18 418 22 HOH HOH . D 4 HOH A 19 419 61 HOH HOH . D 4 HOH A 20 420 28 HOH HOH . D 4 HOH A 21 421 23 HOH HOH . D 4 HOH A 22 422 53 HOH HOH . D 4 HOH A 23 423 42 HOH HOH . D 4 HOH A 24 424 39 HOH HOH . D 4 HOH A 25 425 4 HOH HOH . D 4 HOH A 26 426 19 HOH HOH . D 4 HOH A 27 427 115 HOH HOH . D 4 HOH A 28 428 32 HOH HOH . D 4 HOH A 29 429 5 HOH HOH . D 4 HOH A 30 430 87 HOH HOH . D 4 HOH A 31 431 25 HOH HOH . D 4 HOH A 32 432 17 HOH HOH . D 4 HOH A 33 433 38 HOH HOH . D 4 HOH A 34 434 55 HOH HOH . D 4 HOH A 35 435 2 HOH HOH . D 4 HOH A 36 436 31 HOH HOH . D 4 HOH A 37 437 119 HOH HOH . D 4 HOH A 38 438 16 HOH HOH . D 4 HOH A 39 439 69 HOH HOH . D 4 HOH A 40 440 26 HOH HOH . D 4 HOH A 41 441 14 HOH HOH . D 4 HOH A 42 442 63 HOH HOH . D 4 HOH A 43 443 65 HOH HOH . D 4 HOH A 44 444 37 HOH HOH . D 4 HOH A 45 445 102 HOH HOH . D 4 HOH A 46 446 15 HOH HOH . D 4 HOH A 47 447 21 HOH HOH . D 4 HOH A 48 448 98 HOH HOH . D 4 HOH A 49 449 110 HOH HOH . D 4 HOH A 50 450 70 HOH HOH . D 4 HOH A 51 451 33 HOH HOH . D 4 HOH A 52 452 68 HOH HOH . D 4 HOH A 53 453 11 HOH HOH . D 4 HOH A 54 454 27 HOH HOH . D 4 HOH A 55 455 59 HOH HOH . D 4 HOH A 56 456 7 HOH HOH . D 4 HOH A 57 457 106 HOH HOH . D 4 HOH A 58 458 12 HOH HOH . D 4 HOH A 59 459 29 HOH HOH . D 4 HOH A 60 460 101 HOH HOH . D 4 HOH A 61 461 3 HOH HOH . D 4 HOH A 62 462 52 HOH HOH . D 4 HOH A 63 463 6 HOH HOH . D 4 HOH A 64 464 94 HOH HOH . D 4 HOH A 65 465 62 HOH HOH . D 4 HOH A 66 466 92 HOH HOH . D 4 HOH A 67 467 20 HOH HOH . D 4 HOH A 68 468 108 HOH HOH . D 4 HOH A 69 469 51 HOH HOH . D 4 HOH A 70 470 9 HOH HOH . D 4 HOH A 71 471 64 HOH HOH . D 4 HOH A 72 472 90 HOH HOH . D 4 HOH A 73 473 13 HOH HOH . D 4 HOH A 74 474 76 HOH HOH . D 4 HOH A 75 475 56 HOH HOH . D 4 HOH A 76 476 48 HOH HOH . D 4 HOH A 77 477 96 HOH HOH . D 4 HOH A 78 478 71 HOH HOH . D 4 HOH A 79 479 120 HOH HOH . D 4 HOH A 80 480 66 HOH HOH . D 4 HOH A 81 481 80 HOH HOH . D 4 HOH A 82 482 121 HOH HOH . D 4 HOH A 83 483 93 HOH HOH . D 4 HOH A 84 484 34 HOH HOH . D 4 HOH A 85 485 49 HOH HOH . D 4 HOH A 86 486 60 HOH HOH . D 4 HOH A 87 487 82 HOH HOH . D 4 HOH A 88 488 57 HOH HOH . D 4 HOH A 89 489 10 HOH HOH . D 4 HOH A 90 490 122 HOH HOH . D 4 HOH A 91 491 88 HOH HOH . D 4 HOH A 92 492 47 HOH HOH . D 4 HOH A 93 493 100 HOH HOH . D 4 HOH A 94 494 44 HOH HOH . D 4 HOH A 95 495 107 HOH HOH . D 4 HOH A 96 496 73 HOH HOH . D 4 HOH A 97 497 104 HOH HOH . D 4 HOH A 98 498 95 HOH HOH . D 4 HOH A 99 499 91 HOH HOH . D 4 HOH A 100 500 77 HOH HOH . D 4 HOH A 101 501 43 HOH HOH . D 4 HOH A 102 502 109 HOH HOH . D 4 HOH A 103 503 18 HOH HOH . D 4 HOH A 104 504 97 HOH HOH . D 4 HOH A 105 505 114 HOH HOH . D 4 HOH A 106 506 78 HOH HOH . D 4 HOH A 107 507 45 HOH HOH . D 4 HOH A 108 508 99 HOH HOH . D 4 HOH A 109 509 79 HOH HOH . D 4 HOH A 110 510 85 HOH HOH . D 4 HOH A 111 511 116 HOH HOH . D 4 HOH A 112 512 103 HOH HOH . D 4 HOH A 113 513 111 HOH HOH . D 4 HOH A 114 514 118 HOH HOH . D 4 HOH A 115 515 113 HOH HOH . D 4 HOH A 116 516 117 HOH HOH . D 4 HOH A 117 517 46 HOH HOH . D 4 HOH A 118 518 123 HOH HOH . D 4 HOH A 119 519 74 HOH HOH . D 4 HOH A 120 520 50 HOH HOH . D 4 HOH A 121 521 89 HOH HOH . D 4 HOH A 122 522 105 HOH HOH . D 4 HOH A 123 523 83 HOH HOH . D 4 HOH A 124 524 124 HOH HOH . D 4 HOH A 125 525 112 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 N N1 PDC . . . C 3 -13.874 3.467 -14.558 1 32.26 ? N1 PDC 302 A 1 HETATM 2 C C2 PDC . . . C 3 -12.831 3.317 -15.411 1 30.93 ? C2 PDC 302 A 1 HETATM 3 C C3 PDC . . . C 3 -12.154 2.093 -15.452 1 34.26 ? C3 PDC 302 A 1 HETATM 4 C C4 PDC . . . C 3 -12.597 1.032 -14.647 1 35.02 ? C4 PDC 302 A 1 HETATM 5 C C5 PDC . . . C 3 -13.693 1.23 -13.797 1 33.75 ? C5 PDC 302 A 1 HETATM 6 C C6 PDC . . . C 3 -14.33 2.464 -13.785 1 29.15 ? C6 PDC 302 A 1 HETATM 7 C C7 PDC . . . C 3 -12.396 4.485 -16.217 1 32.24 ? C7 PDC 302 A 1 HETATM 8 O O1 PDC . . . C 3 -11.364 4.415 -16.914 1 35.02 ? O1 PDC 302 A 1 HETATM 9 O O2 PDC . . . C 3 -13.047 5.541 -16.113 1 31.44 ? O2 PDC 302 A 1 HETATM 10 C C8 PDC . . . C 3 -15.461 2.729 -12.856 1 30.68 ? C8 PDC 302 A 1 HETATM 11 O O3 PDC . . . C 3 -16.209 3.726 -13.021 1 30.02 ? O3 PDC 302 A 1 HETATM 12 O O4 PDC . . . C 3 -15.582 1.959 -11.889 1 31.96 ? O4 PDC 302 A 1 # _model_server_stats.io_time_ms 50 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 37 _model_server_stats.query_time_ms 345 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 12 #