data_1YFX # _model_server_result.job_id 1tyGpjDR7LvlQfW8bnkk4Q _model_server_result.datetime_utc '2025-01-11 06:31:42' _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 1yfx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":400}' # _entry.id 1YFX # _exptl.entry_id 1YFX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 122.143 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL _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 1YFX _cell.length_a 57.9 _cell.length_b 57.9 _cell.length_c 230.6 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1YFX _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65 2 2' # _pdbx_struct_assembly.method_details PISA,PQS _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 _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' 10_665 -y+1,-x+1,-z+1/6 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 28.95 50.142871 38.433333 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id E _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 ND1 HIS 51 A HIS 51 1_555 B FE FE . A FE 300 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.161 ? metalc ? metalc2 A OE1 GLU 57 A GLU 57 1_555 B FE FE . A FE 300 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.152 ? metalc ? metalc3 A NE2 HIS 95 A HIS 95 1_555 B FE FE . A FE 300 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.134 ? metalc ? metalc4 A SG CYS 125 A CYS 125 1_555 C FE FE . A FE 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.385 ? metalc ? metalc5 A SG CYS 128 A CYS 128 1_555 C FE FE . A FE 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.326 ? metalc ? metalc6 A SG CYS 162 A CYS 162 1_555 C FE FE . A FE 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.399 ? metalc ? metalc7 B FE FE . A FE 300 1_555 D N NO . A NO 310 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.097 ? metalc ? metalc8 B FE FE . A FE 300 1_555 F OAD 4AA . A 4AA 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? # _chem_comp.formula 'C4 H12 N O3 1' _chem_comp.formula_weight 122.143 _chem_comp.id TRS _chem_comp.mon_nstd_flag . _chem_comp.name 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'TRIS BUFFER' # 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 C1 TRS sing 353 n n C C2 TRS sing 354 n n C C3 TRS sing 355 n n C N TRS sing 356 n n C1 O1 TRS sing 357 n n C1 H11 TRS sing 358 n n C1 H12 TRS sing 359 n n C2 O2 TRS sing 360 n n C2 H21 TRS sing 361 n n C2 H22 TRS sing 362 n n C3 O3 TRS sing 363 n n C3 H31 TRS sing 364 n n C3 H32 TRS sing 365 n n N HN1 TRS sing 366 n n N HN2 TRS sing 367 n n N HN3 TRS sing 368 n n O1 HO1 TRS sing 369 n n O2 HO2 TRS sing 370 n n O3 HO3 TRS sing 371 n n # _atom_sites.entry_id 1YFX _atom_sites.fract_transf_matrix[1][1] 0.017271 _atom_sites.fract_transf_matrix[1][2] 0.009972 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.019943 _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] 0.004337 _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 FE A 1 300 300 FE FE . C 2 FE A 1 301 301 FE FE . D 3 NO A 1 310 310 NO NO . E 4 TRS A 1 400 400 TRS TRS . F 5 4AA A 1 401 401 4AA CHA . G 6 HOH A 1 402 1 HOH HOH . G 6 HOH A 2 403 2 HOH HOH . G 6 HOH A 3 404 3 HOH HOH . G 6 HOH A 4 405 4 HOH HOH . G 6 HOH A 5 406 5 HOH HOH . G 6 HOH A 6 407 6 HOH HOH . G 6 HOH A 7 408 7 HOH HOH . G 6 HOH A 8 409 8 HOH HOH . G 6 HOH A 9 410 9 HOH HOH . G 6 HOH A 10 411 10 HOH HOH . G 6 HOH A 11 412 11 HOH HOH . G 6 HOH A 12 413 12 HOH HOH . G 6 HOH A 13 414 13 HOH HOH . G 6 HOH A 14 415 14 HOH HOH . G 6 HOH A 15 416 15 HOH HOH . G 6 HOH A 16 417 16 HOH HOH . G 6 HOH A 17 418 17 HOH HOH . G 6 HOH A 18 419 18 HOH HOH . G 6 HOH A 19 420 19 HOH HOH . G 6 HOH A 20 421 20 HOH HOH . G 6 HOH A 21 422 21 HOH HOH . G 6 HOH A 22 423 22 HOH HOH . G 6 HOH A 23 424 23 HOH HOH . G 6 HOH A 24 425 24 HOH HOH . G 6 HOH A 25 426 25 HOH HOH . G 6 HOH A 26 427 26 HOH HOH . G 6 HOH A 27 428 27 HOH HOH . G 6 HOH A 28 429 28 HOH HOH . G 6 HOH A 29 430 29 HOH HOH . G 6 HOH A 30 431 30 HOH HOH . G 6 HOH A 31 432 31 HOH HOH . G 6 HOH A 32 433 32 HOH HOH . G 6 HOH A 33 434 33 HOH HOH . G 6 HOH A 34 435 34 HOH HOH . G 6 HOH A 35 436 35 HOH HOH . G 6 HOH A 36 437 36 HOH HOH . G 6 HOH A 37 438 37 HOH HOH . G 6 HOH A 38 439 38 HOH HOH . G 6 HOH A 39 440 39 HOH HOH . G 6 HOH A 40 441 40 HOH HOH . G 6 HOH A 41 442 41 HOH HOH . G 6 HOH A 42 443 42 HOH HOH . G 6 HOH A 43 444 43 HOH HOH . G 6 HOH A 44 445 44 HOH HOH . G 6 HOH A 45 446 45 HOH HOH . G 6 HOH A 46 447 46 HOH HOH . G 6 HOH A 47 448 47 HOH HOH . G 6 HOH A 48 449 48 HOH HOH . G 6 HOH A 49 450 49 HOH HOH . G 6 HOH A 50 451 50 HOH HOH . G 6 HOH A 51 452 51 HOH HOH . G 6 HOH A 52 453 52 HOH HOH . G 6 HOH A 53 454 53 HOH HOH . G 6 HOH A 54 455 54 HOH HOH . G 6 HOH A 55 456 55 HOH HOH . G 6 HOH A 56 457 56 HOH HOH . G 6 HOH A 57 458 57 HOH HOH . G 6 HOH A 58 459 58 HOH HOH . G 6 HOH A 59 460 59 HOH HOH . G 6 HOH A 60 461 60 HOH HOH . G 6 HOH A 61 462 61 HOH HOH . G 6 HOH A 62 463 62 HOH HOH . G 6 HOH A 63 464 63 HOH HOH . G 6 HOH A 64 465 64 HOH HOH . G 6 HOH A 65 466 65 HOH HOH . G 6 HOH A 66 467 66 HOH HOH . G 6 HOH A 67 468 67 HOH HOH . G 6 HOH A 68 469 68 HOH HOH . G 6 HOH A 69 470 69 HOH HOH . G 6 HOH A 70 471 70 HOH HOH . G 6 HOH A 71 472 71 HOH HOH . G 6 HOH A 72 473 72 HOH HOH . G 6 HOH A 73 474 73 HOH HOH . G 6 HOH A 74 475 74 HOH HOH . G 6 HOH A 75 476 75 HOH HOH . G 6 HOH A 76 477 76 HOH HOH . G 6 HOH A 77 478 77 HOH HOH . G 6 HOH A 78 479 78 HOH HOH . G 6 HOH A 79 480 79 HOH HOH . G 6 HOH A 80 481 80 HOH HOH . G 6 HOH A 81 482 81 HOH HOH . G 6 HOH A 82 483 82 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 TRS . . . E 4 16.073 9.079 -10.941 1 58.5 ? C TRS 400 A 1 HETATM 2 C C1 TRS . . . E 4 17.023 9.592 -9.868 1 56.92 ? C1 TRS 400 A 1 HETATM 3 C C2 TRS . . . E 4 16.842 9.022 -12.248 1 58.92 ? C2 TRS 400 A 1 HETATM 4 C C3 TRS . . . E 4 15.587 7.733 -10.387 1 58.93 ? C3 TRS 400 A 1 HETATM 5 N N TRS . . . E 4 14.908 9.942 -11.223 1 57.45 ? N TRS 400 A 1 HETATM 6 O O1 TRS . . . E 4 17.257 11.049 -9.983 1 56.97 ? O1 TRS 400 A 1 HETATM 7 O O2 TRS . . . E 4 15.952 8.684 -13.385 1 58.82 ? O2 TRS 400 A 1 HETATM 8 O O3 TRS . . . E 4 16.637 6.796 -10.084 1 61.25 ? O3 TRS 400 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 326 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 8 #