data_3LB8 # _model_server_result.job_id ebw3docGdsUbonUUP_IHLQ _model_server_result.datetime_utc '2025-01-07 09:11:45' _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 3lb8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":449}' # _entry.id 3LB8 # _exptl.entry_id 3LB8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 785.55 _entity.id 3 _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 3LB8 _cell.length_a 67.6 _cell.length_b 103.4 _cell.length_c 167.7 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3LB8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? dimeric 2 author_defined_assembly 1 ? dimeric 2 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E,G,I,K 1 1 B,D,F,H,J 2 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 ? 3 E N N ? 3 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 disulf ? disulf1 D SG CYS 48 D CYS 48 1_555 D SG CYS 86 D CYS 86 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.938 ? covale ? covale1 A NZ LYS 408 A LYS 409 1_555 C OE1 GLU 72 C GLU 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.312 ? covale ? covale2 B NZ LYS 408 B LYS 409 1_555 D OE1 GLU 72 D GLU 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.351 ? metalc ? metalc1 C SG CYS 39 C CYS 39 1_555 G FE1 FES . C FES 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.325 ? metalc ? metalc2 C SG CYS 45 C CYS 45 1_555 G FE1 FES . C FES 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? metalc ? metalc3 C SG CYS 48 C CYS 48 1_555 G FE2 FES . C FES 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.307 ? metalc ? metalc4 C SG CYS 86 C CYS 86 1_555 G FE2 FES . C FES 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? metalc ? metalc5 D SG CYS 39 D CYS 39 1_555 H FE1 FES . D FES 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? metalc ? metalc6 D SG CYS 45 D CYS 45 1_555 H FE1 FES . D FES 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? metalc ? metalc7 D SG CYS 48 D CYS 48 1_555 H FE2 FES . D FES 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? metalc ? metalc8 D SG CYS 86 D CYS 86 1_555 H FE2 FES . D FES 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.315 ? # _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 83 n n PA O2A FAD sing 84 n n PA O5B FAD sing 85 n n PA O3P FAD sing 86 n n O2A HOA2 FAD sing 87 n n O5B C5B FAD sing 88 n n C5B C4B FAD sing 89 n n C5B H51A FAD sing 90 n n C5B H52A FAD sing 91 n n C4B O4B FAD sing 92 n n C4B C3B FAD sing 93 n n C4B H4B FAD sing 94 n n O4B C1B FAD sing 95 n n C3B O3B FAD sing 96 n n C3B C2B FAD sing 97 n n C3B H3B FAD sing 98 n n O3B HO3A FAD sing 99 n n C2B O2B FAD sing 100 n n C2B C1B FAD sing 101 n n C2B H2B FAD sing 102 n n O2B HO2A FAD sing 103 n n C1B N9A FAD sing 104 n n C1B H1B FAD sing 105 n n N9A C8A FAD sing 106 n y N9A C4A FAD sing 107 n y C8A N7A FAD doub 108 n y C8A H8A FAD sing 109 n n N7A C5A FAD sing 110 n y C5A C6A FAD sing 111 n y C5A C4A FAD doub 112 n y C6A N6A FAD sing 113 n n C6A N1A FAD doub 114 n y N6A H61A FAD sing 115 n n N6A H62A FAD sing 116 n n N1A C2A FAD sing 117 n y C2A N3A FAD doub 118 n y C2A H2A FAD sing 119 n n N3A C4A FAD sing 120 n y N1 C2 FAD sing 121 n n N1 C10 FAD doub 122 n n C2 O2 FAD doub 123 n n C2 N3 FAD sing 124 n n N3 C4 FAD sing 125 n n N3 HN3 FAD sing 126 n n C4 O4 FAD doub 127 n n C4 C4X FAD sing 128 n n C4X N5 FAD doub 129 n n C4X C10 FAD sing 130 n n N5 C5X FAD sing 131 n n C5X C6 FAD doub 132 n y C5X C9A FAD sing 133 n y C6 C7 FAD sing 134 n y C6 H6 FAD sing 135 n n C7 C7M FAD sing 136 n n C7 C8 FAD doub 137 n y C7M HM71 FAD sing 138 n n C7M HM72 FAD sing 139 n n C7M HM73 FAD sing 140 n n C8 C8M FAD sing 141 n n C8 C9 FAD sing 142 n y C8M HM81 FAD sing 143 n n C8M HM82 FAD sing 144 n n C8M HM83 FAD sing 145 n n C9 C9A FAD doub 146 n y C9 H9 FAD sing 147 n n C9A N10 FAD sing 148 n n N10 C10 FAD sing 149 n n N10 C1' FAD sing 150 n n C1' C2' FAD sing 151 n n C1' "H1'1" FAD sing 152 n n C1' "H1'2" FAD sing 153 n n C2' O2' FAD sing 154 n n C2' C3' FAD sing 155 n n C2' H2' FAD sing 156 n n O2' HO2' FAD sing 157 n n C3' O3' FAD sing 158 n n C3' C4' FAD sing 159 n n C3' H3' FAD sing 160 n n O3' HO3' FAD sing 161 n n C4' O4' FAD sing 162 n n C4' C5' FAD sing 163 n n C4' H4' FAD sing 164 n n O4' HO4' FAD sing 165 n n C5' O5' FAD sing 166 n n C5' "H5'1" FAD sing 167 n n C5' "H5'2" FAD sing 168 n n O5' P FAD sing 169 n n P O1P FAD doub 170 n n P O2P FAD sing 171 n n P O3P FAD sing 172 n n O2P HOP2 FAD sing 173 n n # _atom_sites.entry_id 3LB8 _atom_sites.fract_transf_matrix[1][1] 0.014793 _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] 0.009671 _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] 0.005963 _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 E 3 FAD A 1 449 449 FAD FAD . F 3 FAD B 1 449 449 FAD FAD . G 4 FES C 1 107 107 FES FES . H 4 FES D 1 107 107 FES FES . I 5 HOH A 1 1 1 HOH HOH . I 5 HOH A 2 438 2 HOH HOH . I 5 HOH A 3 439 4 HOH HOH . I 5 HOH A 4 440 6 HOH HOH . I 5 HOH A 5 441 7 HOH HOH . I 5 HOH A 6 442 8 HOH HOH . I 5 HOH A 7 443 9 HOH HOH . I 5 HOH A 8 444 10 HOH HOH . I 5 HOH A 9 445 12 HOH HOH . I 5 HOH A 10 446 13 HOH HOH . I 5 HOH A 11 447 14 HOH HOH . I 5 HOH A 12 448 16 HOH HOH . I 5 HOH A 13 450 17 HOH HOH . I 5 HOH A 14 451 18 HOH HOH . I 5 HOH A 15 452 20 HOH HOH . I 5 HOH A 16 453 21 HOH HOH . I 5 HOH A 17 454 22 HOH HOH . I 5 HOH A 18 455 24 HOH HOH . I 5 HOH A 19 456 25 HOH HOH . I 5 HOH A 20 457 26 HOH HOH . I 5 HOH A 21 458 27 HOH HOH . I 5 HOH A 22 459 28 HOH HOH . I 5 HOH A 23 460 30 HOH HOH . I 5 HOH A 24 461 31 HOH HOH . I 5 HOH A 25 462 32 HOH HOH . I 5 HOH A 26 463 34 HOH HOH . I 5 HOH A 27 464 36 HOH HOH . I 5 HOH A 28 465 37 HOH HOH . I 5 HOH A 29 466 38 HOH HOH . I 5 HOH A 30 467 39 HOH HOH . I 5 HOH A 31 468 41 HOH HOH . I 5 HOH A 32 469 43 HOH HOH . I 5 HOH A 33 470 44 HOH HOH . I 5 HOH A 34 471 45 HOH HOH . I 5 HOH A 35 472 46 HOH HOH . I 5 HOH A 36 473 47 HOH HOH . I 5 HOH A 37 474 48 HOH HOH . I 5 HOH A 38 475 49 HOH HOH . I 5 HOH A 39 476 50 HOH HOH . I 5 HOH A 40 477 52 HOH HOH . I 5 HOH A 41 478 53 HOH HOH . I 5 HOH A 42 479 54 HOH HOH . I 5 HOH A 43 480 55 HOH HOH . I 5 HOH A 44 481 56 HOH HOH . I 5 HOH A 45 482 57 HOH HOH . I 5 HOH A 46 483 59 HOH HOH . I 5 HOH A 47 484 60 HOH HOH . I 5 HOH A 48 485 61 HOH HOH . I 5 HOH A 49 486 62 HOH HOH . J 5 HOH B 1 438 3 HOH HOH . J 5 HOH B 2 439 5 HOH HOH . J 5 HOH B 3 440 15 HOH HOH . J 5 HOH B 4 441 19 HOH HOH . J 5 HOH B 5 442 23 HOH HOH . J 5 HOH B 6 443 29 HOH HOH . J 5 HOH B 7 444 33 HOH HOH . J 5 HOH B 8 445 35 HOH HOH . J 5 HOH B 9 446 40 HOH HOH . J 5 HOH B 10 447 42 HOH HOH . J 5 HOH B 11 448 58 HOH HOH . K 5 HOH C 1 108 11 HOH HOH . K 5 HOH C 2 109 51 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 P PA FAD . . . E 3 7.284 -6.376 -1.958 1 48.74 ? PA FAD 449 A 1 HETATM 2 O O1A FAD . . . E 3 6.903 -7.801 -1.812 1 47.56 ? O1A FAD 449 A 1 HETATM 3 O O2A FAD . . . E 3 8.018 -5.698 -1.019 1 47.29 ? O2A FAD 449 A 1 HETATM 4 O O5B FAD . . . E 3 5.967 -5.635 -2 1 45.43 ? O5B FAD 449 A 1 HETATM 5 C C5B FAD . . . E 3 4.791 -5.903 -2.821 1 45.62 ? C5B FAD 449 A 1 HETATM 6 C C4B FAD . . . E 3 3.654 -5.306 -1.948 1 46.52 ? C4B FAD 449 A 1 HETATM 7 O O4B FAD . . . E 3 2.356 -5.518 -2.665 1 47.94 ? O4B FAD 449 A 1 HETATM 8 C C3B FAD . . . E 3 3.499 -5.981 -0.574 1 45.36 ? C3B FAD 449 A 1 HETATM 9 O O3B FAD . . . E 3 3.465 -5.153 0.522 1 44.53 ? O3B FAD 449 A 1 HETATM 10 C C2B FAD . . . E 3 2.308 -6.838 -0.824 1 47.39 ? C2B FAD 449 A 1 HETATM 11 O O2B FAD . . . E 3 1.651 -7.387 0.259 1 50.93 ? O2B FAD 449 A 1 HETATM 12 C C1B FAD . . . E 3 1.433 -5.977 -1.648 1 47.5 ? C1B FAD 449 A 1 HETATM 13 N N9A FAD . . . E 3 0.389 -6.697 -2.363 1 48.16 ? N9A FAD 449 A 1 HETATM 14 C C8A FAD . . . E 3 0.5 -7.919 -3.021 1 47.04 ? C8A FAD 449 A 1 HETATM 15 N N7A FAD . . . E 3 -0.638 -8.317 -3.575 1 47.69 ? N7A FAD 449 A 1 HETATM 16 C C5A FAD . . . E 3 -1.537 -7.329 -3.279 1 46.6 ? C5A FAD 449 A 1 HETATM 17 C C6A FAD . . . E 3 -2.971 -7.17 -3.598 1 46.37 ? C6A FAD 449 A 1 HETATM 18 N N6A FAD . . . E 3 -3.65 -8.04 -4.281 1 47.14 ? N6A FAD 449 A 1 HETATM 19 N N1A FAD . . . E 3 -3.566 -6.002 -3.112 1 46.3 ? N1A FAD 449 A 1 HETATM 20 C C2A FAD . . . E 3 -2.877 -5.049 -2.383 1 47.58 ? C2A FAD 449 A 1 HETATM 21 N N3A FAD . . . E 3 -1.564 -5.118 -2.046 1 47.56 ? N3A FAD 449 A 1 HETATM 22 C C4A FAD . . . E 3 -0.932 -6.274 -2.511 1 48.58 ? C4A FAD 449 A 1 HETATM 23 N N1 FAD . . . E 3 17.617 -6.828 -1.706 1 27.51 ? N1 FAD 449 A 1 HETATM 24 C C2 FAD . . . E 3 18.834 -6.386 -1.949 1 28.74 ? C2 FAD 449 A 1 HETATM 25 O O2 FAD . . . E 3 19.152 -6.037 -3.031 1 35.05 ? O2 FAD 449 A 1 HETATM 26 N N3 FAD . . . E 3 19.826 -6.295 -0.918 1 26.23 ? N3 FAD 449 A 1 HETATM 27 C C4 FAD . . . E 3 19.565 -6.675 0.39 1 29.77 ? C4 FAD 449 A 1 HETATM 28 O O4 FAD . . . E 3 20.437 -6.574 1.248 1 34.52 ? O4 FAD 449 A 1 HETATM 29 C C4X FAD . . . E 3 18.225 -7.176 0.685 1 26.04 ? C4X FAD 449 A 1 HETATM 30 N N5 FAD . . . E 3 17.877 -7.577 1.968 1 28.55 ? N5 FAD 449 A 1 HETATM 31 C C5X FAD . . . E 3 16.59 -8.02 2.208 1 27.78 ? C5X FAD 449 A 1 HETATM 32 C C6 FAD . . . E 3 16.228 -8.43 3.537 1 29.7 ? C6 FAD 449 A 1 HETATM 33 C C7 FAD . . . E 3 14.919 -8.882 3.848 1 32.51 ? C7 FAD 449 A 1 HETATM 34 C C7M FAD . . . E 3 14.583 -9.309 5.267 1 34.21 ? C7M FAD 449 A 1 HETATM 35 C C8 FAD . . . E 3 13.885 -8.933 2.78 1 34.77 ? C8 FAD 449 A 1 HETATM 36 C C8M FAD . . . E 3 12.458 -9.391 3.007 1 37.79 ? C8M FAD 449 A 1 HETATM 37 C C9 FAD . . . E 3 14.244 -8.536 1.469 1 31.03 ? C9 FAD 449 A 1 HETATM 38 C C9A FAD . . . E 3 15.585 -8.083 1.16 1 28.73 ? C9A FAD 449 A 1 HETATM 39 N N10 FAD . . . E 3 16.018 -7.648 -0.211 1 28.83 ? N10 FAD 449 A 1 HETATM 40 C C10 FAD . . . E 3 17.264 -7.224 -0.457 1 26.35 ? C10 FAD 449 A 1 HETATM 41 C C1' FAD . . . E 3 14.933 -7.746 -1.188 1 32.79 ? C1' FAD 449 A 1 HETATM 42 C C2' FAD . . . E 3 14.354 -6.315 -1.555 1 42.98 ? C2' FAD 449 A 1 HETATM 43 O O2' FAD . . . E 3 14.127 -5.538 -0.383 1 41.78 ? O2' FAD 449 A 1 HETATM 44 C C3' FAD . . . E 3 13.139 -6.676 -2.329 1 45.56 ? C3' FAD 449 A 1 HETATM 45 O O3' FAD . . . E 3 13.477 -7.45 -3.495 1 51.88 ? O3' FAD 449 A 1 HETATM 46 C C4' FAD . . . E 3 12.288 -5.495 -2.766 1 47.78 ? C4' FAD 449 A 1 HETATM 47 O O4' FAD . . . E 3 11.932 -4.613 -1.676 1 52.82 ? O4' FAD 449 A 1 HETATM 48 C C5' FAD . . . E 3 11.078 -6.158 -3.379 1 48 ? C5' FAD 449 A 1 HETATM 49 O O5' FAD . . . E 3 10.079 -5.075 -3.731 1 44.34 ? O5' FAD 449 A 1 HETATM 50 P P FAD . . . E 3 8.762 -5.386 -4.288 1 42.73 ? P FAD 449 A 1 HETATM 51 O O1P FAD . . . E 3 8.209 -3.937 -4.424 1 43.04 ? O1P FAD 449 A 1 HETATM 52 O O2P FAD . . . E 3 8.874 -6.061 -5.501 1 39.2 ? O2P FAD 449 A 1 HETATM 53 O O3P FAD . . . E 3 7.783 -6.132 -3.475 1 45.3 ? O3P FAD 449 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 238 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 53 #