data_1NG3 # _model_server_result.job_id KinDH4YFn1fAk6z4yo-q2w _model_server_result.datetime_utc '2024-11-27 15:40:50' _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 1ng3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":500}' # _entry.id 1NG3 # _exptl.entry_id 1NG3 _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 120 _cell.entry_id 1NG3 _cell.length_a 139.378 _cell.length_b 139.378 _cell.length_c 208.155 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1NG3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 61 2 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 _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+5/6 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 69.689 120.704889 173.4625 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 F N N # _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 97 n n PA O2A FAD sing 98 n n PA O5B FAD sing 99 n n PA O3P FAD sing 100 n n O2A HOA2 FAD sing 101 n n O5B C5B FAD sing 102 n n C5B C4B FAD sing 103 n n C5B H51A FAD sing 104 n n C5B H52A FAD sing 105 n n C4B O4B FAD sing 106 n n C4B C3B FAD sing 107 n n C4B H4B FAD sing 108 n n O4B C1B FAD sing 109 n n C3B O3B FAD sing 110 n n C3B C2B FAD sing 111 n n C3B H3B FAD sing 112 n n O3B HO3A FAD sing 113 n n C2B O2B FAD sing 114 n n C2B C1B FAD sing 115 n n C2B H2B FAD sing 116 n n O2B HO2A FAD sing 117 n n C1B N9A FAD sing 118 n n C1B H1B FAD sing 119 n n N9A C8A FAD sing 120 n y N9A C4A FAD sing 121 n y C8A N7A FAD doub 122 n y C8A H8A FAD sing 123 n n N7A C5A FAD sing 124 n y C5A C6A FAD sing 125 n y C5A C4A FAD doub 126 n y C6A N6A FAD sing 127 n n C6A N1A FAD doub 128 n y N6A H61A FAD sing 129 n n N6A H62A FAD sing 130 n n N1A C2A FAD sing 131 n y C2A N3A FAD doub 132 n y C2A H2A FAD sing 133 n n N3A C4A FAD sing 134 n y N1 C2 FAD sing 135 n n N1 C10 FAD doub 136 n n C2 O2 FAD doub 137 n n C2 N3 FAD sing 138 n n N3 C4 FAD sing 139 n n N3 HN3 FAD sing 140 n n C4 O4 FAD doub 141 n n C4 C4X FAD sing 142 n n C4X N5 FAD doub 143 n n C4X C10 FAD sing 144 n n N5 C5X FAD sing 145 n n C5X C6 FAD doub 146 n y C5X C9A FAD sing 147 n y C6 C7 FAD sing 148 n y C6 H6 FAD sing 149 n n C7 C7M FAD sing 150 n n C7 C8 FAD doub 151 n y C7M HM71 FAD sing 152 n n C7M HM72 FAD sing 153 n n C7M HM73 FAD sing 154 n n C8 C8M FAD sing 155 n n C8 C9 FAD sing 156 n y C8M HM81 FAD sing 157 n n C8M HM82 FAD sing 158 n n C8M HM83 FAD sing 159 n n C9 C9A FAD doub 160 n y C9 H9 FAD sing 161 n n C9A N10 FAD sing 162 n n N10 C10 FAD sing 163 n n N10 C1' FAD sing 164 n n C1' C2' FAD sing 165 n n C1' "H1'1" FAD sing 166 n n C1' "H1'2" FAD sing 167 n n C2' O2' FAD sing 168 n n C2' C3' FAD sing 169 n n C2' H2' FAD sing 170 n n O2' HO2' FAD sing 171 n n C3' O3' FAD sing 172 n n C3' C4' FAD sing 173 n n C3' H3' FAD sing 174 n n O3' HO3' FAD sing 175 n n C4' O4' FAD sing 176 n n C4' C5' FAD sing 177 n n C4' H4' FAD sing 178 n n O4' HO4' FAD sing 179 n n C5' O5' FAD sing 180 n n C5' "H5'1" FAD sing 181 n n C5' "H5'2" FAD sing 182 n n O5' P FAD sing 183 n n P O1P FAD doub 184 n n P O2P FAD sing 185 n n P O3P FAD sing 186 n n O2P HOP2 FAD sing 187 n n # _atom_sites.entry_id 1NG3 _atom_sites.fract_transf_matrix[1][1] 0.007175 _atom_sites.fract_transf_matrix[1][2] 0.004142 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008285 _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] 0.004804 _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 PO4 A 1 402 402 PO4 PO4 . D 3 FAD A 1 400 400 FAD FAD . E 4 AAC A 1 401 401 AAC AAC . F 3 FAD B 1 500 400 FAD FAD . G 4 AAC B 1 501 401 AAC AAC . H 5 HOH A 1 403 1 HOH TIP . H 5 HOH A 2 404 4 HOH TIP . H 5 HOH A 3 405 9 HOH TIP . H 5 HOH A 4 406 10 HOH TIP . H 5 HOH A 5 407 12 HOH TIP . H 5 HOH A 6 408 13 HOH TIP . H 5 HOH A 7 409 14 HOH TIP . H 5 HOH A 8 410 19 HOH TIP . H 5 HOH A 9 411 21 HOH TIP . H 5 HOH A 10 412 22 HOH TIP . H 5 HOH A 11 413 23 HOH TIP . H 5 HOH A 12 414 24 HOH TIP . H 5 HOH A 13 415 25 HOH TIP . H 5 HOH A 14 416 27 HOH TIP . H 5 HOH A 15 417 30 HOH TIP . H 5 HOH A 16 418 32 HOH TIP . H 5 HOH A 17 419 33 HOH TIP . H 5 HOH A 18 420 35 HOH TIP . H 5 HOH A 19 421 37 HOH TIP . H 5 HOH A 20 422 39 HOH TIP . H 5 HOH A 21 423 43 HOH TIP . H 5 HOH A 22 424 44 HOH TIP . H 5 HOH A 23 425 48 HOH TIP . H 5 HOH A 24 426 51 HOH TIP . H 5 HOH A 25 427 53 HOH TIP . H 5 HOH A 26 428 56 HOH TIP . H 5 HOH A 27 429 60 HOH TIP . H 5 HOH A 28 430 64 HOH TIP . H 5 HOH A 29 431 65 HOH TIP . H 5 HOH A 30 432 66 HOH TIP . H 5 HOH A 31 433 67 HOH TIP . H 5 HOH A 32 434 68 HOH TIP . H 5 HOH A 33 435 70 HOH TIP . H 5 HOH A 34 436 72 HOH TIP . H 5 HOH A 35 437 74 HOH TIP . H 5 HOH A 36 438 76 HOH TIP . H 5 HOH A 37 439 77 HOH TIP . H 5 HOH A 38 440 78 HOH TIP . H 5 HOH A 39 441 79 HOH TIP . H 5 HOH A 40 442 81 HOH TIP . H 5 HOH A 41 443 83 HOH TIP . H 5 HOH A 42 444 84 HOH TIP . H 5 HOH A 43 445 85 HOH TIP . H 5 HOH A 44 446 88 HOH TIP . H 5 HOH A 45 447 91 HOH TIP . H 5 HOH A 46 448 92 HOH TIP . H 5 HOH A 47 449 95 HOH TIP . H 5 HOH A 48 450 99 HOH TIP . H 5 HOH A 49 451 101 HOH TIP . H 5 HOH A 50 452 102 HOH TIP . H 5 HOH A 51 453 103 HOH TIP . H 5 HOH A 52 454 104 HOH TIP . H 5 HOH A 53 455 107 HOH TIP . I 5 HOH B 1 502 2 HOH TIP . I 5 HOH B 2 503 3 HOH TIP . I 5 HOH B 3 504 5 HOH TIP . I 5 HOH B 4 505 6 HOH TIP . I 5 HOH B 5 506 7 HOH TIP . I 5 HOH B 6 507 8 HOH TIP . I 5 HOH B 7 508 11 HOH TIP . I 5 HOH B 8 509 15 HOH TIP . I 5 HOH B 9 510 16 HOH TIP . I 5 HOH B 10 511 17 HOH TIP . I 5 HOH B 11 512 18 HOH TIP . I 5 HOH B 12 513 20 HOH TIP . I 5 HOH B 13 514 26 HOH TIP . I 5 HOH B 14 515 28 HOH TIP . I 5 HOH B 15 516 29 HOH TIP . I 5 HOH B 16 517 31 HOH TIP . I 5 HOH B 17 518 34 HOH TIP . I 5 HOH B 18 519 36 HOH TIP . I 5 HOH B 19 520 38 HOH TIP . I 5 HOH B 20 521 40 HOH TIP . I 5 HOH B 21 522 41 HOH TIP . I 5 HOH B 22 523 42 HOH TIP . I 5 HOH B 23 524 45 HOH TIP . I 5 HOH B 24 525 46 HOH TIP . I 5 HOH B 25 526 47 HOH TIP . I 5 HOH B 26 527 49 HOH TIP . I 5 HOH B 27 528 50 HOH TIP . I 5 HOH B 28 529 52 HOH TIP . I 5 HOH B 29 530 54 HOH TIP . I 5 HOH B 30 531 55 HOH TIP . I 5 HOH B 31 532 57 HOH TIP . I 5 HOH B 32 533 58 HOH TIP . I 5 HOH B 33 534 59 HOH TIP . I 5 HOH B 34 535 61 HOH TIP . I 5 HOH B 35 536 62 HOH TIP . I 5 HOH B 36 537 63 HOH TIP . I 5 HOH B 37 538 69 HOH TIP . I 5 HOH B 38 539 71 HOH TIP . I 5 HOH B 39 540 73 HOH TIP . I 5 HOH B 40 541 75 HOH TIP . I 5 HOH B 41 542 80 HOH TIP . I 5 HOH B 42 543 82 HOH TIP . I 5 HOH B 43 544 86 HOH TIP . I 5 HOH B 44 545 87 HOH TIP . I 5 HOH B 45 546 89 HOH TIP . I 5 HOH B 46 547 90 HOH TIP . I 5 HOH B 47 548 93 HOH TIP . I 5 HOH B 48 549 94 HOH TIP . I 5 HOH B 49 550 96 HOH TIP . I 5 HOH B 50 551 97 HOH TIP . I 5 HOH B 51 552 98 HOH TIP . I 5 HOH B 52 553 100 HOH TIP . I 5 HOH B 53 554 105 HOH TIP . I 5 HOH B 54 555 106 HOH TIP . # 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 . . . F 3 43.487 81.344 87.352 1 28.81 ? PA FAD 500 B 1 HETATM 2 O O1A FAD . . . F 3 42.418 81.244 88.452 1 27.86 ? O1A FAD 500 B 1 HETATM 3 O O2A FAD . . . F 3 43.309 80.571 86.076 1 26.4 ? O2A FAD 500 B 1 HETATM 4 O O5B FAD . . . F 3 44.877 80.907 87.962 1 29.84 ? O5B FAD 500 B 1 HETATM 5 C C5B FAD . . . F 3 45.524 81.656 88.969 1 31.46 ? C5B FAD 500 B 1 HETATM 6 C C4B FAD . . . F 3 46.681 80.776 89.202 1 32.79 ? C4B FAD 500 B 1 HETATM 7 O O4B FAD . . . F 3 47.575 81.26 90.231 1 34.09 ? O4B FAD 500 B 1 HETATM 8 C C3B FAD . . . F 3 46.297 79.322 89.617 1 33.07 ? C3B FAD 500 B 1 HETATM 9 O O3B FAD . . . F 3 47.106 78.456 88.822 1 36.72 ? O3B FAD 500 B 1 HETATM 10 C C2B FAD . . . F 3 46.588 79.339 91.043 1 33.86 ? C2B FAD 500 B 1 HETATM 11 O O2B FAD . . . F 3 46.796 78.143 91.702 1 37.03 ? O2B FAD 500 B 1 HETATM 12 C C1B FAD . . . F 3 47.819 80.218 91.162 1 33.45 ? C1B FAD 500 B 1 HETATM 13 N N9A FAD . . . F 3 48.094 80.791 92.449 1 32.07 ? N9A FAD 500 B 1 HETATM 14 C C8A FAD . . . F 3 47.234 81.352 93.427 1 30.48 ? C8A FAD 500 B 1 HETATM 15 N N7A FAD . . . F 3 47.847 81.77 94.496 1 33.49 ? N7A FAD 500 B 1 HETATM 16 C C5A FAD . . . F 3 49.206 81.496 94.267 1 32.34 ? C5A FAD 500 B 1 HETATM 17 C C6A FAD . . . F 3 50.391 81.684 95.023 1 30.94 ? C6A FAD 500 B 1 HETATM 18 N N6A FAD . . . F 3 50.376 82.228 96.231 1 31.21 ? N6A FAD 500 B 1 HETATM 19 N N1A FAD . . . F 3 51.603 81.282 94.47 1 30.31 ? N1A FAD 500 B 1 HETATM 20 C C2A FAD . . . F 3 51.647 80.719 93.238 1 30.09 ? C2A FAD 500 B 1 HETATM 21 N N3A FAD . . . F 3 50.521 80.491 92.429 1 30.12 ? N3A FAD 500 B 1 HETATM 22 C C4A FAD . . . F 3 49.336 80.939 93.091 1 31.06 ? C4A FAD 500 B 1 HETATM 23 N N1 FAD . . . F 3 36.882 83.666 80.086 1 19.39 ? N1 FAD 500 B 1 HETATM 24 C C2 FAD . . . F 3 36.917 83.844 78.707 1 21.65 ? C2 FAD 500 B 1 HETATM 25 O O2 FAD . . . F 3 37.687 84.657 78.167 1 25.21 ? O2 FAD 500 B 1 HETATM 26 N N3 FAD . . . F 3 36.068 83.091 77.92 1 19.95 ? N3 FAD 500 B 1 HETATM 27 C C4 FAD . . . F 3 35.14 82.131 78.395 1 20.43 ? C4 FAD 500 B 1 HETATM 28 O O4 FAD . . . F 3 34.414 81.497 77.56 1 23.58 ? O4 FAD 500 B 1 HETATM 29 C C4X FAD . . . F 3 35.12 81.976 79.769 1 19.62 ? C4X FAD 500 B 1 HETATM 30 N N5 FAD . . . F 3 34.188 81.003 80.299 1 20.62 ? N5 FAD 500 B 1 HETATM 31 C C5X FAD . . . F 3 34.174 80.825 81.709 1 19.65 ? C5X FAD 500 B 1 HETATM 32 C C6 FAD . . . F 3 33.29 79.889 82.312 1 21.04 ? C6 FAD 500 B 1 HETATM 33 C C7 FAD . . . F 3 33.242 79.65 83.719 1 18.91 ? C7 FAD 500 B 1 HETATM 34 C C7M FAD . . . F 3 32.263 78.626 84.279 1 22.37 ? C7M FAD 500 B 1 HETATM 35 C C8 FAD . . . F 3 34.132 80.384 84.56 1 18.89 ? C8 FAD 500 B 1 HETATM 36 C C8M FAD . . . F 3 34.182 80.201 86.074 1 17.8 ? C8M FAD 500 B 1 HETATM 37 C C9 FAD . . . F 3 35.01 81.316 84.018 1 19.3 ? C9 FAD 500 B 1 HETATM 38 C C9A FAD . . . F 3 35.057 81.573 82.616 1 19.36 ? C9A FAD 500 B 1 HETATM 39 N N10 FAD . . . F 3 35.97 82.558 81.949 1 18.85 ? N10 FAD 500 B 1 HETATM 40 C C10 FAD . . . F 3 35.997 82.741 80.591 1 18.23 ? C10 FAD 500 B 1 HETATM 41 C C1' FAD . . . F 3 36.817 83.283 82.838 1 22.32 ? C1' FAD 500 B 1 HETATM 42 C C2' FAD . . . F 3 38.232 82.856 82.868 1 25.77 ? C2' FAD 500 B 1 HETATM 43 O O2' FAD . . . F 3 38.195 81.439 83.237 1 27.16 ? O2' FAD 500 B 1 HETATM 44 C C3' FAD . . . F 3 39.09 83.547 83.886 1 27.91 ? C3' FAD 500 B 1 HETATM 45 O O3' FAD . . . F 3 38.976 84.984 83.845 1 23.95 ? O3' FAD 500 B 1 HETATM 46 C C4' FAD . . . F 3 40.592 83.231 83.764 1 26.38 ? C4' FAD 500 B 1 HETATM 47 O O4' FAD . . . F 3 40.731 81.783 83.786 1 25.61 ? O4' FAD 500 B 1 HETATM 48 C C5' FAD . . . F 3 41.427 83.777 84.839 1 26.05 ? C5' FAD 500 B 1 HETATM 49 O O5' FAD . . . F 3 42.779 83.395 84.616 1 27.81 ? O5' FAD 500 B 1 HETATM 50 P P FAD . . . F 3 43.933 83.734 85.629 1 28.04 ? P FAD 500 B 1 HETATM 51 O O1P FAD . . . F 3 45.137 83.233 85.017 1 28.56 ? O1P FAD 500 B 1 HETATM 52 O O2P FAD . . . F 3 43.86 85.198 85.955 1 32.19 ? O2P FAD 500 B 1 HETATM 53 O O3P FAD . . . F 3 43.575 82.894 86.971 1 28.59 ? O3P FAD 500 B 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 53 #