data_5YJX # _model_server_result.job_id ZBu7yVM9vfy4HqLrdJlXkg _model_server_result.datetime_utc '2024-11-24 11:15:09' _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 5yjx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":601}' # _entry.id 5YJX # _exptl.entry_id 5YJX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 785.55 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'FLAVIN-ADENINE DINUCLEOTIDE' _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 90 _cell.entry_id 5YJX _cell.length_a 70.336 _cell.length_b 116.401 _cell.length_c 166.619 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5YJX _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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,K,L,M,N,O,P _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 J 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 O ALA 148 A ALA 175 1_555 E MG MG . A MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.7 ? metalc ? metalc2 C O2P FAD . A FAD 601 1_555 D MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.266 ? metalc ? metalc3 C O1P FAD . A FAD 601 1_555 E MG MG . A MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.189 ? metalc ? metalc4 C O1A FAD . A FAD 601 1_555 F MG MG . A MG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.524 ? metalc ? metalc5 C O2A FAD . A FAD 601 1_555 G MG MG . A MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.345 ? metalc ? metalc6 C O3P FAD . A FAD 601 1_555 G MG MG . A MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.901 ? metalc ? metalc7 B O ALA 148 B ALA 175 1_555 L MG MG . B MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.448 ? metalc ? metalc8 B O ILE 354 B ILE 381 1_555 K MG MG . B MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.916 ? metalc ? metalc9 B OD1 ASN 357 B ASN 384 1_555 K MG MG . B MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.963 ? metalc ? metalc10 J O2P FAD . B FAD 601 1_555 K MG MG . B MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.183 ? metalc ? metalc11 J O1P FAD . B FAD 601 1_555 L MG MG . B MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.345 ? metalc ? metalc12 J O1A FAD . B FAD 601 1_555 M MG MG . B MG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.279 ? metalc ? metalc13 J O2A FAD . B FAD 601 1_555 N MG MG . B MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.422 ? # _chem_comp.formula 'C27 H33 N9 O15 P2' _chem_comp.formula_weight 785.55 _chem_comp.id FAD _chem_comp.mon_nstd_flag . _chem_comp.name 'FLAVIN-ADENINE DINUCLEOTIDE' _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 PA O1A FAD doub 70 n n PA O2A FAD sing 71 n n PA O5B FAD sing 72 n n PA O3P FAD sing 73 n n O2A HOA2 FAD sing 74 n n O5B C5B FAD sing 75 n n C5B C4B FAD sing 76 n n C5B H51A FAD sing 77 n n C5B H52A FAD sing 78 n n C4B O4B FAD sing 79 n n C4B C3B FAD sing 80 n n C4B H4B FAD sing 81 n n O4B C1B FAD sing 82 n n C3B O3B FAD sing 83 n n C3B C2B FAD sing 84 n n C3B H3B FAD sing 85 n n O3B HO3A FAD sing 86 n n C2B O2B FAD sing 87 n n C2B C1B FAD sing 88 n n C2B H2B FAD sing 89 n n O2B HO2A FAD sing 90 n n C1B N9A FAD sing 91 n n C1B H1B FAD sing 92 n n N9A C8A FAD sing 93 n y N9A C4A FAD sing 94 n y C8A N7A FAD doub 95 n y C8A H8A FAD sing 96 n n N7A C5A FAD sing 97 n y C5A C6A FAD sing 98 n y C5A C4A FAD doub 99 n y C6A N6A FAD sing 100 n n C6A N1A FAD doub 101 n y N6A H61A FAD sing 102 n n N6A H62A FAD sing 103 n n N1A C2A FAD sing 104 n y C2A N3A FAD doub 105 n y C2A H2A FAD sing 106 n n N3A C4A FAD sing 107 n y N1 C2 FAD sing 108 n n N1 C10 FAD doub 109 n n C2 O2 FAD doub 110 n n C2 N3 FAD sing 111 n n N3 C4 FAD sing 112 n n N3 HN3 FAD sing 113 n n C4 O4 FAD doub 114 n n C4 C4X FAD sing 115 n n C4X N5 FAD doub 116 n n C4X C10 FAD sing 117 n n N5 C5X FAD sing 118 n n C5X C6 FAD doub 119 n y C5X C9A FAD sing 120 n y C6 C7 FAD sing 121 n y C6 H6 FAD sing 122 n n C7 C7M FAD sing 123 n n C7 C8 FAD doub 124 n y C7M HM71 FAD sing 125 n n C7M HM72 FAD sing 126 n n C7M HM73 FAD sing 127 n n C8 C8M FAD sing 128 n n C8 C9 FAD sing 129 n y C8M HM81 FAD sing 130 n n C8M HM82 FAD sing 131 n n C8M HM83 FAD sing 132 n n C9 C9A FAD doub 133 n y C9 H9 FAD sing 134 n n C9A N10 FAD sing 135 n n N10 C10 FAD sing 136 n n N10 C1' FAD sing 137 n n C1' C2' FAD sing 138 n n C1' "H1'1" FAD sing 139 n n C1' "H1'2" FAD sing 140 n n C2' O2' FAD sing 141 n n C2' C3' FAD sing 142 n n C2' H2' FAD sing 143 n n O2' HO2' FAD sing 144 n n C3' O3' FAD sing 145 n n C3' C4' FAD sing 146 n n C3' H3' FAD sing 147 n n O3' HO3' FAD sing 148 n n C4' O4' FAD sing 149 n n C4' C5' FAD sing 150 n n C4' H4' FAD sing 151 n n O4' HO4' FAD sing 152 n n C5' O5' FAD sing 153 n n C5' "H5'1" FAD sing 154 n n C5' "H5'2" FAD sing 155 n n O5' P FAD sing 156 n n P O1P FAD doub 157 n n P O2P FAD sing 158 n n P O3P FAD sing 159 n n O2P HOP2 FAD sing 160 n n # _atom_sites.entry_id 5YJX _atom_sites.fract_transf_matrix[1][1] 0.014217 _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] 0.008591 _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] 0.006002 _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 FAD A 1 601 601 FAD FAD . D 3 MG A 1 602 602 MG MG . E 3 MG A 1 603 603 MG MG . F 3 MG A 1 604 604 MG MG . G 3 MG A 1 605 605 MG MG . H 4 MES A 1 606 701 MES MES . I 5 MYX A 1 607 801 MYX MYX . J 2 FAD B 1 601 601 FAD FAD . K 3 MG B 1 602 602 MG MG . L 3 MG B 1 603 603 MG MG . M 3 MG B 1 604 604 MG MG . N 3 MG B 1 605 605 MG MG . O 4 MES B 1 606 701 MES MES . P 5 MYX B 1 607 801 MYX MYX . # 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 P PA FAD . . . C 2 17.002 18.528 62.962 1 47.07 ? PA FAD 601 A 1 HETATM 2 O O1A FAD . . . C 2 15.536 18.382 62.614 1 44.95 ? O1A FAD 601 A 1 HETATM 3 O O2A FAD . . . C 2 18.007 17.546 62.404 1 47.7 ? O2A FAD 601 A 1 HETATM 4 O O5B FAD . . . C 2 17.454 20.019 62.584 1 50.87 ? O5B FAD 601 A 1 HETATM 5 C C5B FAD . . . C 2 18.734 20.489 62.991 1 51.56 ? C5B FAD 601 A 1 HETATM 6 C C4B FAD . . . C 2 19.106 21.716 62.164 1 52.01 ? C4B FAD 601 A 1 HETATM 7 O O4B FAD . . . C 2 20.364 22.26 62.566 1 51.62 ? O4B FAD 601 A 1 HETATM 8 C C3B FAD . . . C 2 19.266 21.42 60.685 1 52.27 ? C3B FAD 601 A 1 HETATM 9 O O3B FAD . . . C 2 18.549 22.45 60.005 1 49.78 ? O3B FAD 601 A 1 HETATM 10 C C2B FAD . . . C 2 20.777 21.459 60.449 1 52.72 ? C2B FAD 601 A 1 HETATM 11 O O2B FAD . . . C 2 21.139 21.793 59.107 1 57.11 ? O2B FAD 601 A 1 HETATM 12 C C1B FAD . . . C 2 21.193 22.52 61.438 1 51 ? C1B FAD 601 A 1 HETATM 13 N N9A FAD . . . C 2 22.542 22.504 62.008 1 50.02 ? N9A FAD 601 A 1 HETATM 14 C C8A FAD . . . C 2 23.295 21.447 62.311 1 51.6 ? C8A FAD 601 A 1 HETATM 15 N N7A FAD . . . C 2 24.46 21.852 62.891 1 53.45 ? N7A FAD 601 A 1 HETATM 16 C C5A FAD . . . C 2 24.438 23.192 62.972 1 53.72 ? C5A FAD 601 A 1 HETATM 17 C C6A FAD . . . C 2 25.328 24.265 63.466 1 55.35 ? C6A FAD 601 A 1 HETATM 18 N N6A FAD . . . C 2 26.528 23.967 64 1 58.95 ? N6A FAD 601 A 1 HETATM 19 N N1A FAD . . . C 2 24.919 25.552 63.38 1 55.03 ? N1A FAD 601 A 1 HETATM 20 C C2A FAD . . . C 2 23.73 25.882 62.848 1 54.35 ? C2A FAD 601 A 1 HETATM 21 N N3A FAD . . . C 2 22.873 24.954 62.375 1 55.71 ? N3A FAD 601 A 1 HETATM 22 C C4A FAD . . . C 2 23.16 23.617 62.405 1 54.08 ? C4A FAD 601 A 1 HETATM 23 N N1 FAD . . . C 2 11.415 11.294 63.956 1 79.1 ? N1 FAD 601 A 1 HETATM 24 C C2 FAD . . . C 2 10.096 11.083 64.096 1 83.67 ? C2 FAD 601 A 1 HETATM 25 O O2 FAD . . . C 2 9.589 11.381 65.192 1 91.14 ? O2 FAD 601 A 1 HETATM 26 N N3 FAD . . . C 2 9.316 10.57 63.125 1 86.37 ? N3 FAD 601 A 1 HETATM 27 C C4 FAD . . . C 2 9.791 10.222 61.93 1 84.09 ? C4 FAD 601 A 1 HETATM 28 O O4 FAD . . . C 2 9.02 9.745 61.059 1 85.29 ? O4 FAD 601 A 1 HETATM 29 C C4X FAD . . . C 2 11.244 10.427 61.7 1 81.49 ? C4X FAD 601 A 1 HETATM 30 N N5 FAD . . . C 2 11.83 10.118 60.536 1 80.84 ? N5 FAD 601 A 1 HETATM 31 C C5X FAD . . . C 2 13.146 10.321 60.352 1 76.35 ? C5X FAD 601 A 1 HETATM 32 C C6 FAD . . . C 2 13.677 9.981 59.125 1 77.93 ? C6 FAD 601 A 1 HETATM 33 C C7 FAD . . . C 2 15.027 10.167 58.887 1 77.9 ? C7 FAD 601 A 1 HETATM 34 C C7M FAD . . . C 2 15.584 9.787 57.546 1 78.38 ? C7M FAD 601 A 1 HETATM 35 C C8 FAD . . . C 2 15.9 10.728 59.954 1 77.89 ? C8 FAD 601 A 1 HETATM 36 C C8M FAD . . . C 2 17.364 10.939 59.717 1 80.04 ? C8M FAD 601 A 1 HETATM 37 C C9 FAD . . . C 2 15.37 11.07 61.185 1 76.1 ? C9 FAD 601 A 1 HETATM 38 C C9A FAD . . . C 2 14.017 10.883 61.427 1 73.49 ? C9A FAD 601 A 1 HETATM 39 N N10 FAD . . . C 2 13.432 11.208 62.661 1 71.92 ? N10 FAD 601 A 1 HETATM 40 C C10 FAD . . . C 2 12.046 10.994 62.81 1 78.18 ? C10 FAD 601 A 1 HETATM 41 C C1' FAD . . . C 2 14.193 11.781 63.775 1 65.31 ? C1' FAD 601 A 1 HETATM 42 C C2' FAD . . . C 2 13.758 13.23 63.913 1 62.47 ? C2' FAD 601 A 1 HETATM 43 O O2' FAD . . . C 2 13.516 13.813 62.621 1 61.75 ? O2' FAD 601 A 1 HETATM 44 C C3' FAD . . . C 2 14.797 14.039 64.666 1 59.98 ? C3' FAD 601 A 1 HETATM 45 O O3' FAD . . . C 2 14.774 13.666 66.051 1 61.96 ? O3' FAD 601 A 1 HETATM 46 C C4' FAD . . . C 2 14.488 15.517 64.478 1 53.87 ? C4' FAD 601 A 1 HETATM 47 O O4' FAD . . . C 2 14.876 15.931 63.159 1 50.29 ? O4' FAD 601 A 1 HETATM 48 C C5' FAD . . . C 2 15.214 16.367 65.494 1 51.05 ? C5' FAD 601 A 1 HETATM 49 O O5' FAD . . . C 2 15.005 17.706 65.076 1 50.65 ? O5' FAD 601 A 1 HETATM 50 P P FAD . . . C 2 16.027 18.843 65.545 1 49.56 ? P FAD 601 A 1 HETATM 51 O O1P FAD . . . C 2 15.347 20.173 65.288 1 45.27 ? O1P FAD 601 A 1 HETATM 52 O O2P FAD . . . C 2 16.519 18.395 66.917 1 48.53 ? O2P FAD 601 A 1 HETATM 53 O O3P FAD . . . C 2 17.259 18.646 64.534 1 46.22 ? O3P FAD 601 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 226 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 53 #