data_1Y53 # _model_server_result.job_id 33f4Zk9Jdffb0oxB2zXsJw _model_server_result.datetime_utc '2025-03-01 07:25:07' _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 1y53 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":406}' # _entry.id 1Y53 # _exptl.entry_id 1Y53 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 46.025 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'FORMIC ACID' _entity.pdbx_number_of_molecules 6 _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 1Y53 _cell.length_a 78.04 _cell.length_b 78.04 _cell.length_c 110.979 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1Y53 _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details PISA,PQS _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,E,F,G,H,I,J _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' 8_665 -y+1,-x+1,-z+1/2 0 -1 0 -1 0 0 0 0 -1 78.04 78.04 55.4895 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 D N N ? 2 E N N ? 2 F N N ? 2 G N N ? 2 H 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 4 X CYS 4 1_555 A SG CYS 81 X CYS 81 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? disulf ? disulf2 B SG CYS 4 Y CYS 204 1_555 B SG CYS 81 Y CYS 281 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.977 ? # _chem_comp.formula 'C H2 O2' _chem_comp.formula_weight 46.025 _chem_comp.id FMT _chem_comp.mon_nstd_flag . _chem_comp.name 'FORMIC 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 O1 FMT doub 83 n n C O2 FMT sing 84 n n C H FMT sing 85 n n O2 HO2 FMT sing 86 n n # _atom_sites.entry_id 1Y53 _atom_sites.fract_transf_matrix[1][1] 0.012814 _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] 0.012814 _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] 0.009011 _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 C 2 FMT X 1 401 401 FMT FMT . D 2 FMT X 1 402 402 FMT FMT . E 2 FMT X 1 405 405 FMT FMT . F 2 FMT Y 1 403 403 FMT FMT . G 2 FMT Y 1 404 404 FMT FMT . H 2 FMT Y 1 406 406 FMT FMT . I 3 HOH X 1 406 2 HOH HOH . I 3 HOH X 2 407 4 HOH HOH . I 3 HOH X 3 408 6 HOH HOH . I 3 HOH X 4 409 7 HOH HOH . I 3 HOH X 5 410 10 HOH HOH . I 3 HOH X 6 411 11 HOH HOH . I 3 HOH X 7 412 17 HOH HOH . I 3 HOH X 8 413 19 HOH HOH . I 3 HOH X 9 414 20 HOH HOH . I 3 HOH X 10 415 25 HOH HOH . I 3 HOH X 11 416 28 HOH HOH . I 3 HOH X 12 417 29 HOH HOH . I 3 HOH X 13 418 30 HOH HOH . I 3 HOH X 14 419 32 HOH HOH . I 3 HOH X 15 420 36 HOH HOH . I 3 HOH X 16 421 37 HOH HOH . I 3 HOH X 17 422 39 HOH HOH . I 3 HOH X 18 423 41 HOH HOH . I 3 HOH X 19 424 42 HOH HOH . I 3 HOH X 20 425 43 HOH HOH . I 3 HOH X 21 426 44 HOH HOH . I 3 HOH X 22 427 45 HOH HOH . I 3 HOH X 23 428 46 HOH HOH . I 3 HOH X 24 429 48 HOH HOH . I 3 HOH X 25 430 50 HOH HOH . I 3 HOH X 26 431 52 HOH HOH . I 3 HOH X 27 432 55 HOH HOH . I 3 HOH X 28 433 56 HOH HOH . I 3 HOH X 29 434 57 HOH HOH . I 3 HOH X 30 435 58 HOH HOH . I 3 HOH X 31 436 63 HOH HOH . I 3 HOH X 32 437 65 HOH HOH . I 3 HOH X 33 438 66 HOH HOH . I 3 HOH X 34 439 68 HOH HOH . I 3 HOH X 35 440 70 HOH HOH . I 3 HOH X 36 441 71 HOH HOH . I 3 HOH X 37 442 72 HOH HOH . I 3 HOH X 38 443 74 HOH HOH . I 3 HOH X 39 444 76 HOH HOH . I 3 HOH X 40 445 77 HOH HOH . I 3 HOH X 41 446 80 HOH HOH . I 3 HOH X 42 447 81 HOH HOH . I 3 HOH X 43 448 84 HOH HOH . I 3 HOH X 44 449 85 HOH HOH . I 3 HOH X 45 450 86 HOH HOH . I 3 HOH X 46 451 87 HOH HOH . I 3 HOH X 47 452 91 HOH HOH . I 3 HOH X 48 453 94 HOH HOH . I 3 HOH X 49 454 95 HOH HOH . I 3 HOH X 50 455 96 HOH HOH . I 3 HOH X 51 456 97 HOH HOH . I 3 HOH X 52 457 98 HOH HOH . I 3 HOH X 53 458 103 HOH HOH . I 3 HOH X 54 459 104 HOH HOH . I 3 HOH X 55 460 106 HOH HOH . I 3 HOH X 56 461 107 HOH HOH . I 3 HOH X 57 462 108 HOH HOH . I 3 HOH X 58 463 109 HOH HOH . I 3 HOH X 59 464 112 HOH HOH . I 3 HOH X 60 465 114 HOH HOH . I 3 HOH X 61 466 116 HOH HOH . I 3 HOH X 62 467 123 HOH HOH . I 3 HOH X 63 468 124 HOH HOH . I 3 HOH X 64 469 126 HOH HOH . I 3 HOH X 65 470 133 HOH HOH . I 3 HOH X 66 471 138 HOH HOH . I 3 HOH X 67 472 140 HOH HOH . I 3 HOH X 68 473 141 HOH HOH . I 3 HOH X 69 474 146 HOH HOH . I 3 HOH X 70 475 147 HOH HOH . I 3 HOH X 71 476 149 HOH HOH . I 3 HOH X 72 477 150 HOH HOH . I 3 HOH X 73 478 152 HOH HOH . I 3 HOH X 74 479 153 HOH HOH . I 3 HOH X 75 480 156 HOH HOH . I 3 HOH X 76 481 158 HOH HOH . I 3 HOH X 77 482 160 HOH HOH . I 3 HOH X 78 483 163 HOH HOH . I 3 HOH X 79 484 165 HOH HOH . I 3 HOH X 80 485 166 HOH HOH . I 3 HOH X 81 486 167 HOH HOH . I 3 HOH X 82 487 170 HOH HOH . I 3 HOH X 83 488 171 HOH HOH . J 3 HOH Y 1 1 1 HOH HOH . J 3 HOH Y 2 3 3 HOH HOH . J 3 HOH Y 3 5 5 HOH HOH . J 3 HOH Y 4 8 8 HOH HOH . J 3 HOH Y 5 9 9 HOH HOH . J 3 HOH Y 6 12 12 HOH HOH . J 3 HOH Y 7 13 13 HOH HOH . J 3 HOH Y 8 14 14 HOH HOH . J 3 HOH Y 9 15 15 HOH HOH . J 3 HOH Y 10 16 16 HOH HOH . J 3 HOH Y 11 18 18 HOH HOH . J 3 HOH Y 12 21 21 HOH HOH . J 3 HOH Y 13 22 22 HOH HOH . J 3 HOH Y 14 23 23 HOH HOH . J 3 HOH Y 15 24 24 HOH HOH . J 3 HOH Y 16 27 27 HOH HOH . J 3 HOH Y 17 31 31 HOH HOH . J 3 HOH Y 18 33 33 HOH HOH . J 3 HOH Y 19 34 34 HOH HOH . J 3 HOH Y 20 35 35 HOH HOH . J 3 HOH Y 21 38 38 HOH HOH . J 3 HOH Y 22 40 40 HOH HOH . J 3 HOH Y 23 47 47 HOH HOH . J 3 HOH Y 24 49 49 HOH HOH . J 3 HOH Y 25 51 51 HOH HOH . J 3 HOH Y 26 53 53 HOH HOH . J 3 HOH Y 27 54 54 HOH HOH . J 3 HOH Y 28 59 59 HOH HOH . J 3 HOH Y 29 60 60 HOH HOH . J 3 HOH Y 30 61 61 HOH HOH . J 3 HOH Y 31 62 62 HOH HOH . J 3 HOH Y 32 64 64 HOH HOH . J 3 HOH Y 33 67 67 HOH HOH . J 3 HOH Y 34 69 69 HOH HOH . J 3 HOH Y 35 73 73 HOH HOH . J 3 HOH Y 36 75 75 HOH HOH . J 3 HOH Y 37 78 78 HOH HOH . J 3 HOH Y 38 79 79 HOH HOH . J 3 HOH Y 39 82 82 HOH HOH . J 3 HOH Y 40 83 83 HOH HOH . J 3 HOH Y 41 88 88 HOH HOH . J 3 HOH Y 42 89 89 HOH HOH . J 3 HOH Y 43 90 90 HOH HOH . J 3 HOH Y 44 92 92 HOH HOH . J 3 HOH Y 45 93 93 HOH HOH . J 3 HOH Y 46 99 99 HOH HOH . J 3 HOH Y 47 100 100 HOH HOH . J 3 HOH Y 48 101 101 HOH HOH . J 3 HOH Y 49 102 102 HOH HOH . J 3 HOH Y 50 105 105 HOH HOH . J 3 HOH Y 51 110 110 HOH HOH . J 3 HOH Y 52 111 111 HOH HOH . J 3 HOH Y 53 113 113 HOH HOH . J 3 HOH Y 54 115 115 HOH HOH . J 3 HOH Y 55 117 117 HOH HOH . J 3 HOH Y 56 118 118 HOH HOH . J 3 HOH Y 57 119 119 HOH HOH . J 3 HOH Y 58 120 120 HOH HOH . J 3 HOH Y 59 121 121 HOH HOH . J 3 HOH Y 60 122 122 HOH HOH . J 3 HOH Y 61 125 125 HOH HOH . J 3 HOH Y 62 127 127 HOH HOH . J 3 HOH Y 63 128 128 HOH HOH . J 3 HOH Y 64 129 129 HOH HOH . J 3 HOH Y 65 130 130 HOH HOH . J 3 HOH Y 66 131 131 HOH HOH . J 3 HOH Y 67 132 132 HOH HOH . J 3 HOH Y 68 134 134 HOH HOH . J 3 HOH Y 69 135 135 HOH HOH . J 3 HOH Y 70 136 136 HOH HOH . J 3 HOH Y 71 137 137 HOH HOH . J 3 HOH Y 72 139 139 HOH HOH . J 3 HOH Y 73 142 142 HOH HOH . J 3 HOH Y 74 143 143 HOH HOH . J 3 HOH Y 75 144 144 HOH HOH . J 3 HOH Y 76 145 145 HOH HOH . J 3 HOH Y 77 148 148 HOH HOH . J 3 HOH Y 78 151 151 HOH HOH . J 3 HOH Y 79 154 154 HOH HOH . J 3 HOH Y 80 155 155 HOH HOH . J 3 HOH Y 81 157 157 HOH HOH . J 3 HOH Y 82 159 159 HOH HOH . J 3 HOH Y 83 161 161 HOH HOH . J 3 HOH Y 84 162 162 HOH HOH . J 3 HOH Y 85 164 164 HOH HOH . J 3 HOH Y 86 168 168 HOH HOH . J 3 HOH Y 87 169 169 HOH HOH . J 3 HOH Y 88 172 172 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 FMT . . . H 2 9.723 44.207 36.259 1 25.95 ? C FMT 406 Y 1 HETATM 2 O O1 FMT . . . H 2 9.519 43.663 35.169 1 26.79 ? O1 FMT 406 Y 1 HETATM 3 O O2 FMT . . . H 2 10.556 43.74 37.028 1 25.62 ? O2 FMT 406 Y 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 256 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 3 #