data_5YBQ # _model_server_result.job_id hmwpbAG8mhGPLtjQaxyJTg _model_server_result.datetime_utc '2025-02-26 21:47:07' _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 5ybq # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":301}' # _entry.id 5YBQ # _exptl.entry_id 5YBQ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 55.845 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'FE (III) ION' _entity.pdbx_number_of_molecules 2 _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 5YBQ _cell.length_a 171.361 _cell.length_b 171.361 _cell.length_c 45.559 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5YBQ _symmetry.cell_setting ? _symmetry.Int_Tables_number 171 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 62' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 # _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 # 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 F 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 metalc ? metalc1 A NE2 HIS 146 A HIS 130 1_555 C FE FE . A FE 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.176 ? metalc ? metalc2 A OD1 ASP 148 A ASP 132 1_555 C FE FE . A FE 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.208 ? metalc ? metalc3 A NE2 HIS 230 A HIS 214 1_555 C FE FE . A FE 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.122 ? metalc ? metalc4 C FE FE . A FE 301 1_555 D O1 AKG . A AKG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.974 ? metalc ? metalc5 C FE FE . A FE 301 1_555 D O5 AKG . A AKG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? metalc ? metalc6 C FE FE . A FE 301 1_555 I O HOH . A HOH 415 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? metalc ? metalc7 B NE2 HIS 146 B HIS 130 1_555 F FE FE . B FE 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.194 ? metalc ? metalc8 B OD1 ASP 148 B ASP 132 1_555 F FE FE . B FE 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.273 ? metalc ? metalc9 B NE2 HIS 230 B HIS 214 1_555 F FE FE . B FE 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.112 ? metalc ? metalc10 F FE FE . B FE 301 1_555 G O5 AKG . B AKG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? metalc ? metalc11 F FE FE . B FE 301 1_555 G O2 AKG . B AKG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.936 ? metalc ? metalc12 F FE FE . B FE 301 1_555 J O HOH . B HOH 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.916 ? # _chem_comp.formula 'Fe 3' _chem_comp.formula_weight 55.845 _chem_comp.id FE _chem_comp.mon_nstd_flag . _chem_comp.name 'FE (III) ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 5YBQ _atom_sites.fract_transf_matrix[1][1] 0.005836 _atom_sites.fract_transf_matrix[1][2] 0.003369 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006738 _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] 0.02195 _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 FE A 1 301 1 FE FE . D 3 AKG A 1 302 1 AKG AKG . E 4 8T0 A 1 303 3 8T0 LIG . F 2 FE B 1 301 2 FE FE . G 3 AKG B 1 302 2 AKG AKG . H 4 8T0 B 1 303 4 8T0 LIG . I 5 HOH A 1 401 79 HOH HOH . I 5 HOH A 2 402 65 HOH HOH . I 5 HOH A 3 403 47 HOH HOH . I 5 HOH A 4 404 51 HOH HOH . I 5 HOH A 5 405 135 HOH HOH . I 5 HOH A 6 406 6 HOH HOH . I 5 HOH A 7 407 107 HOH HOH . I 5 HOH A 8 408 11 HOH HOH . I 5 HOH A 9 409 38 HOH HOH . I 5 HOH A 10 410 93 HOH HOH . I 5 HOH A 11 411 114 HOH HOH . I 5 HOH A 12 412 44 HOH HOH . I 5 HOH A 13 413 24 HOH HOH . I 5 HOH A 14 414 87 HOH HOH . I 5 HOH A 15 415 17 HOH HOH . I 5 HOH A 16 416 15 HOH HOH . I 5 HOH A 17 417 95 HOH HOH . I 5 HOH A 18 418 50 HOH HOH . I 5 HOH A 19 419 68 HOH HOH . I 5 HOH A 20 420 2 HOH HOH . I 5 HOH A 21 421 148 HOH HOH . I 5 HOH A 22 422 3 HOH HOH . I 5 HOH A 23 423 137 HOH HOH . I 5 HOH A 24 424 22 HOH HOH . I 5 HOH A 25 425 48 HOH HOH . I 5 HOH A 26 426 53 HOH HOH . I 5 HOH A 27 427 4 HOH HOH . I 5 HOH A 28 428 30 HOH HOH . I 5 HOH A 29 429 72 HOH HOH . I 5 HOH A 30 430 20 HOH HOH . I 5 HOH A 31 431 188 HOH HOH . I 5 HOH A 32 432 82 HOH HOH . I 5 HOH A 33 433 70 HOH HOH . I 5 HOH A 34 434 32 HOH HOH . I 5 HOH A 35 435 111 HOH HOH . I 5 HOH A 36 436 55 HOH HOH . I 5 HOH A 37 437 161 HOH HOH . I 5 HOH A 38 438 27 HOH HOH . I 5 HOH A 39 439 140 HOH HOH . I 5 HOH A 40 440 49 HOH HOH . I 5 HOH A 41 441 35 HOH HOH . I 5 HOH A 42 442 124 HOH HOH . I 5 HOH A 43 443 105 HOH HOH . I 5 HOH A 44 444 76 HOH HOH . I 5 HOH A 45 445 57 HOH HOH . I 5 HOH A 46 446 41 HOH HOH . I 5 HOH A 47 447 128 HOH HOH . I 5 HOH A 48 448 101 HOH HOH . I 5 HOH A 49 449 5 HOH HOH . I 5 HOH A 50 450 14 HOH HOH . I 5 HOH A 51 451 167 HOH HOH . I 5 HOH A 52 452 207 HOH HOH . I 5 HOH A 53 453 228 HOH HOH . I 5 HOH A 54 454 158 HOH HOH . I 5 HOH A 55 455 46 HOH HOH . I 5 HOH A 56 456 31 HOH HOH . I 5 HOH A 57 457 136 HOH HOH . I 5 HOH A 58 458 18 HOH HOH . I 5 HOH A 59 459 71 HOH HOH . I 5 HOH A 60 460 9 HOH HOH . I 5 HOH A 61 461 106 HOH HOH . I 5 HOH A 62 462 113 HOH HOH . I 5 HOH A 63 463 210 HOH HOH . I 5 HOH A 64 464 175 HOH HOH . I 5 HOH A 65 465 122 HOH HOH . I 5 HOH A 66 466 152 HOH HOH . I 5 HOH A 67 467 224 HOH HOH . I 5 HOH A 68 468 75 HOH HOH . I 5 HOH A 69 469 160 HOH HOH . I 5 HOH A 70 470 29 HOH HOH . I 5 HOH A 71 471 61 HOH HOH . I 5 HOH A 72 472 37 HOH HOH . I 5 HOH A 73 473 223 HOH HOH . I 5 HOH A 74 474 97 HOH HOH . I 5 HOH A 75 475 121 HOH HOH . I 5 HOH A 76 476 142 HOH HOH . I 5 HOH A 77 477 62 HOH HOH . I 5 HOH A 78 478 163 HOH HOH . I 5 HOH A 79 479 91 HOH HOH . I 5 HOH A 80 480 147 HOH HOH . I 5 HOH A 81 481 219 HOH HOH . I 5 HOH A 82 482 162 HOH HOH . I 5 HOH A 83 483 225 HOH HOH . I 5 HOH A 84 484 66 HOH HOH . I 5 HOH A 85 485 216 HOH HOH . I 5 HOH A 86 486 199 HOH HOH . I 5 HOH A 87 487 83 HOH HOH . I 5 HOH A 88 488 218 HOH HOH . I 5 HOH A 89 489 153 HOH HOH . I 5 HOH A 90 490 110 HOH HOH . I 5 HOH A 91 491 26 HOH HOH . I 5 HOH A 92 492 208 HOH HOH . I 5 HOH A 93 493 184 HOH HOH . I 5 HOH A 94 494 77 HOH HOH . I 5 HOH A 95 495 227 HOH HOH . I 5 HOH A 96 496 170 HOH HOH . I 5 HOH A 97 497 134 HOH HOH . I 5 HOH A 98 498 88 HOH HOH . I 5 HOH A 99 499 143 HOH HOH . I 5 HOH A 100 500 213 HOH HOH . I 5 HOH A 101 501 172 HOH HOH . I 5 HOH A 102 502 226 HOH HOH . I 5 HOH A 103 503 63 HOH HOH . I 5 HOH A 104 504 222 HOH HOH . I 5 HOH A 105 505 98 HOH HOH . I 5 HOH A 106 506 25 HOH HOH . I 5 HOH A 107 507 209 HOH HOH . I 5 HOH A 108 508 174 HOH HOH . I 5 HOH A 109 509 177 HOH HOH . I 5 HOH A 110 510 78 HOH HOH . J 5 HOH B 1 401 40 HOH HOH . J 5 HOH B 2 402 119 HOH HOH . J 5 HOH B 3 403 159 HOH HOH . J 5 HOH B 4 404 28 HOH HOH . J 5 HOH B 5 405 127 HOH HOH . J 5 HOH B 6 406 23 HOH HOH . J 5 HOH B 7 407 8 HOH HOH . J 5 HOH B 8 408 67 HOH HOH . J 5 HOH B 9 409 182 HOH HOH . J 5 HOH B 10 410 90 HOH HOH . J 5 HOH B 11 411 1 HOH HOH . J 5 HOH B 12 412 86 HOH HOH . J 5 HOH B 13 413 154 HOH HOH . J 5 HOH B 14 414 45 HOH HOH . J 5 HOH B 15 415 54 HOH HOH . J 5 HOH B 16 416 115 HOH HOH . J 5 HOH B 17 417 52 HOH HOH . J 5 HOH B 18 418 10 HOH HOH . J 5 HOH B 19 419 56 HOH HOH . J 5 HOH B 20 420 176 HOH HOH . J 5 HOH B 21 421 192 HOH HOH . J 5 HOH B 22 422 7 HOH HOH . J 5 HOH B 23 423 169 HOH HOH . J 5 HOH B 24 424 13 HOH HOH . J 5 HOH B 25 425 108 HOH HOH . J 5 HOH B 26 426 230 HOH HOH . J 5 HOH B 27 427 100 HOH HOH . J 5 HOH B 28 428 132 HOH HOH . J 5 HOH B 29 429 92 HOH HOH . J 5 HOH B 30 430 206 HOH HOH . J 5 HOH B 31 431 104 HOH HOH . J 5 HOH B 32 432 12 HOH HOH . J 5 HOH B 33 433 123 HOH HOH . J 5 HOH B 34 434 151 HOH HOH . J 5 HOH B 35 435 39 HOH HOH . J 5 HOH B 36 436 19 HOH HOH . J 5 HOH B 37 437 149 HOH HOH . J 5 HOH B 38 438 117 HOH HOH . J 5 HOH B 39 439 42 HOH HOH . J 5 HOH B 40 440 59 HOH HOH . J 5 HOH B 41 441 99 HOH HOH . J 5 HOH B 42 442 85 HOH HOH . J 5 HOH B 43 443 58 HOH HOH . J 5 HOH B 44 444 60 HOH HOH . J 5 HOH B 45 445 81 HOH HOH . J 5 HOH B 46 446 131 HOH HOH . J 5 HOH B 47 447 205 HOH HOH . J 5 HOH B 48 448 43 HOH HOH . J 5 HOH B 49 449 36 HOH HOH . J 5 HOH B 50 450 103 HOH HOH . J 5 HOH B 51 451 80 HOH HOH . J 5 HOH B 52 452 194 HOH HOH . J 5 HOH B 53 453 34 HOH HOH . J 5 HOH B 54 454 235 HOH HOH . J 5 HOH B 55 455 94 HOH HOH . J 5 HOH B 56 456 150 HOH HOH . J 5 HOH B 57 457 130 HOH HOH . J 5 HOH B 58 458 109 HOH HOH . J 5 HOH B 59 459 73 HOH HOH . J 5 HOH B 60 460 16 HOH HOH . J 5 HOH B 61 461 112 HOH HOH . J 5 HOH B 62 462 141 HOH HOH . J 5 HOH B 63 463 164 HOH HOH . J 5 HOH B 64 464 144 HOH HOH . J 5 HOH B 65 465 193 HOH HOH . J 5 HOH B 66 466 120 HOH HOH . J 5 HOH B 67 467 234 HOH HOH . J 5 HOH B 68 468 178 HOH HOH . J 5 HOH B 69 469 232 HOH HOH . J 5 HOH B 70 470 231 HOH HOH . J 5 HOH B 71 471 173 HOH HOH . J 5 HOH B 72 472 21 HOH HOH . J 5 HOH B 73 473 171 HOH HOH . J 5 HOH B 74 474 229 HOH HOH . J 5 HOH B 75 475 64 HOH HOH . J 5 HOH B 76 476 233 HOH HOH . J 5 HOH B 77 477 74 HOH HOH . J 5 HOH B 78 478 221 HOH HOH . J 5 HOH B 79 479 89 HOH HOH . J 5 HOH B 80 480 165 HOH HOH . J 5 HOH B 81 481 191 HOH HOH . # _atom_site.group_PDB HETATM _atom_site.id 1 _atom_site.type_symbol FE _atom_site.label_atom_id FE _atom_site.label_comp_id FE _atom_site.label_seq_id . _atom_site.label_alt_id . _atom_site.pdbx_PDB_ins_code . _atom_site.label_asym_id F _atom_site.label_entity_id 2 _atom_site.Cartn_x -64.833 _atom_site.Cartn_y 14.755 _atom_site.Cartn_z -20.479 _atom_site.occupancy 1 _atom_site.B_iso_or_equiv 40.35 _atom_site.pdbx_formal_charge ? _atom_site.auth_atom_id FE _atom_site.auth_comp_id FE _atom_site.auth_seq_id 301 _atom_site.auth_asym_id B _atom_site.pdbx_PDB_model_num 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 243 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 1 #