data_3SYI # _model_server_result.job_id O7MNxwKZg4VehvTbkt6G0Q _model_server_result.datetime_utc '2025-03-09 00:07:31' _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 3syi # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":500}' # _entry.id 3SYI # _exptl.entry_id 3SYI _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 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 3SYI _cell.length_a 149.79 _cell.length_b 149.79 _cell.length_c 81.911 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3SYI _symmetry.cell_setting ? _symmetry.Int_Tables_number 180 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 62 2 2' # _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 1,2 # 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_554 -y,-x,-z-1/3 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 0 0 -27.303667 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 163 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 160 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id H _struct_conn.ptnr2_label_atom_id S _struct_conn.ptnr2_label_comp_id H2S _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id H2S _struct_conn.ptnr2_auth_seq_id 506 _struct_conn.ptnr2_symmetry 1_555 _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 2.226 _struct_conn.pdbx_value_order ? # _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 3SYI _atom_sites.fract_transf_matrix[1][1] 0.006676 _atom_sites.fract_transf_matrix[1][2] 0.003854 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007709 _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] 0.012208 _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 FAD A 1 500 500 FAD FAD . C 3 LMT A 1 501 501 LMT LMT . D 4 H2S A 1 502 502 H2S H2S . E 4 H2S A 1 503 503 H2S H2S . F 4 H2S A 1 504 504 H2S H2S . G 5 SO4 A 1 505 505 SO4 SO4 . H 4 H2S A 1 506 506 H2S H2S . I 4 H2S A 1 507 507 H2S H2S . J 6 HOH A 1 509 509 HOH HOH . J 6 HOH A 2 510 510 HOH HOH . J 6 HOH A 3 511 511 HOH HOH . J 6 HOH A 4 512 512 HOH HOH . J 6 HOH A 5 513 513 HOH HOH . J 6 HOH A 6 514 514 HOH HOH . J 6 HOH A 7 515 515 HOH HOH . J 6 HOH A 8 516 516 HOH HOH . J 6 HOH A 9 517 517 HOH HOH . J 6 HOH A 10 518 518 HOH HOH . J 6 HOH A 11 519 519 HOH HOH . J 6 HOH A 12 520 520 HOH HOH . J 6 HOH A 13 521 521 HOH HOH . J 6 HOH A 14 522 522 HOH HOH . J 6 HOH A 15 523 523 HOH HOH . J 6 HOH A 16 524 524 HOH HOH . J 6 HOH A 17 525 525 HOH HOH . J 6 HOH A 18 526 526 HOH HOH . J 6 HOH A 19 528 528 HOH HOH . J 6 HOH A 20 529 529 HOH HOH . J 6 HOH A 21 530 530 HOH HOH . J 6 HOH A 22 531 531 HOH HOH . J 6 HOH A 23 532 532 HOH HOH . J 6 HOH A 24 533 533 HOH HOH . J 6 HOH A 25 534 534 HOH HOH . J 6 HOH A 26 535 535 HOH HOH . J 6 HOH A 27 536 536 HOH HOH . J 6 HOH A 28 537 537 HOH HOH . J 6 HOH A 29 538 538 HOH HOH . J 6 HOH A 30 539 539 HOH HOH . J 6 HOH A 31 540 540 HOH HOH . J 6 HOH A 32 541 541 HOH HOH . J 6 HOH A 33 542 542 HOH HOH . J 6 HOH A 34 543 543 HOH HOH . J 6 HOH A 35 544 544 HOH HOH . J 6 HOH A 36 545 545 HOH HOH . J 6 HOH A 37 546 546 HOH HOH . J 6 HOH A 38 547 547 HOH HOH . J 6 HOH A 39 548 548 HOH HOH . J 6 HOH A 40 549 549 HOH HOH . J 6 HOH A 41 550 550 HOH HOH . J 6 HOH A 42 551 551 HOH HOH . J 6 HOH A 43 552 552 HOH HOH . J 6 HOH A 44 553 553 HOH HOH . J 6 HOH A 45 554 554 HOH HOH . J 6 HOH A 46 555 555 HOH HOH . J 6 HOH A 47 556 556 HOH HOH . J 6 HOH A 48 557 557 HOH HOH . J 6 HOH A 49 558 558 HOH HOH . J 6 HOH A 50 559 559 HOH HOH . J 6 HOH A 51 560 560 HOH HOH . J 6 HOH A 52 561 561 HOH HOH . J 6 HOH A 53 562 562 HOH HOH . J 6 HOH A 54 563 563 HOH HOH . J 6 HOH A 55 564 564 HOH HOH . J 6 HOH A 56 565 565 HOH HOH . J 6 HOH A 57 566 566 HOH HOH . J 6 HOH A 58 567 567 HOH HOH . J 6 HOH A 59 568 568 HOH HOH . J 6 HOH A 60 569 569 HOH HOH . J 6 HOH A 61 570 570 HOH HOH . J 6 HOH A 62 572 572 HOH HOH . J 6 HOH A 63 573 573 HOH HOH . J 6 HOH A 64 574 574 HOH HOH . J 6 HOH A 65 575 575 HOH HOH . J 6 HOH A 66 576 576 HOH HOH . J 6 HOH A 67 577 577 HOH HOH . J 6 HOH A 68 578 578 HOH HOH . J 6 HOH A 69 579 579 HOH HOH . J 6 HOH A 70 580 580 HOH HOH . J 6 HOH A 71 581 581 HOH HOH . J 6 HOH A 72 582 582 HOH HOH . J 6 HOH A 73 583 583 HOH HOH . J 6 HOH A 74 584 584 HOH HOH . J 6 HOH A 75 585 585 HOH HOH . J 6 HOH A 76 586 586 HOH HOH . J 6 HOH A 77 587 587 HOH HOH . J 6 HOH A 78 588 588 HOH HOH . J 6 HOH A 79 589 589 HOH HOH . J 6 HOH A 80 590 590 HOH HOH . J 6 HOH A 81 591 591 HOH HOH . J 6 HOH A 82 592 592 HOH HOH . J 6 HOH A 83 593 593 HOH HOH . J 6 HOH A 84 594 594 HOH HOH . J 6 HOH A 85 595 595 HOH HOH . J 6 HOH A 86 596 596 HOH HOH . J 6 HOH A 87 597 597 HOH HOH . J 6 HOH A 88 598 598 HOH HOH . J 6 HOH A 89 599 599 HOH HOH . J 6 HOH A 90 600 600 HOH HOH . J 6 HOH A 91 601 601 HOH HOH . J 6 HOH A 92 602 602 HOH HOH . J 6 HOH A 93 603 603 HOH HOH . J 6 HOH A 94 604 604 HOH HOH . J 6 HOH A 95 605 605 HOH HOH . J 6 HOH A 96 606 606 HOH HOH . J 6 HOH A 97 607 607 HOH HOH . J 6 HOH A 98 608 608 HOH HOH . J 6 HOH A 99 609 609 HOH HOH . J 6 HOH A 100 610 610 HOH HOH . J 6 HOH A 101 611 611 HOH HOH . J 6 HOH A 102 612 612 HOH HOH . J 6 HOH A 103 613 613 HOH HOH . J 6 HOH A 104 614 614 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 . . . B 2 40.728 -23.622 8.295 1 32.71 ? PA FAD 500 A 1 HETATM 2 O O1A FAD . . . B 2 41.946 -24.508 8.447 1 33.65 ? O1A FAD 500 A 1 HETATM 3 O O2A FAD . . . B 2 40.798 -22.336 9.059 1 28.6 ? O2A FAD 500 A 1 HETATM 4 O O5B FAD . . . B 2 39.426 -24.46 8.747 1 36.85 ? O5B FAD 500 A 1 HETATM 5 C C5B FAD . . . B 2 39.228 -25.796 8.35 1 35.81 ? C5B FAD 500 A 1 HETATM 6 C C4B FAD . . . B 2 38.434 -26.467 9.47 1 42.58 ? C4B FAD 500 A 1 HETATM 7 O O4B FAD . . . B 2 37.918 -27.706 9.036 1 36.55 ? O4B FAD 500 A 1 HETATM 8 C C3B FAD . . . B 2 39.286 -26.75 10.694 1 43.29 ? C3B FAD 500 A 1 HETATM 9 O O3B FAD . . . B 2 38.567 -26.311 11.813 1 44.87 ? O3B FAD 500 A 1 HETATM 10 C C2B FAD . . . B 2 39.388 -28.261 10.77 1 45.94 ? C2B FAD 500 A 1 HETATM 11 O O2B FAD . . . B 2 39.315 -28.685 12.113 1 49.84 ? O2B FAD 500 A 1 HETATM 12 C C1B FAD . . . B 2 38.143 -28.696 10.021 1 37.83 ? C1B FAD 500 A 1 HETATM 13 N N9A FAD . . . B 2 38.244 -30.029 9.4 1 35.5 ? N9A FAD 500 A 1 HETATM 14 C C8A FAD . . . B 2 39.285 -30.56 8.689 1 36.66 ? C8A FAD 500 A 1 HETATM 15 N N7A FAD . . . B 2 38.93 -31.811 8.302 1 39.08 ? N7A FAD 500 A 1 HETATM 16 C C5A FAD . . . B 2 37.686 -32.09 8.755 1 37.43 ? C5A FAD 500 A 1 HETATM 17 C C6A FAD . . . B 2 36.863 -33.208 8.652 1 34.78 ? C6A FAD 500 A 1 HETATM 18 N N6A FAD . . . B 2 37.246 -34.306 7.988 1 27.32 ? N6A FAD 500 A 1 HETATM 19 N N1A FAD . . . B 2 35.615 -33.17 9.235 1 40.2 ? N1A FAD 500 A 1 HETATM 20 C C2A FAD . . . B 2 35.198 -32.044 9.917 1 40.44 ? C2A FAD 500 A 1 HETATM 21 N N3A FAD . . . B 2 36.021 -30.947 10.026 1 37.23 ? N3A FAD 500 A 1 HETATM 22 C C4A FAD . . . B 2 37.244 -30.971 9.448 1 41.03 ? C4A FAD 500 A 1 HETATM 23 N N1 FAD . . . B 2 45.326 -15.547 5.946 1 28.57 ? N1 FAD 500 A 1 HETATM 24 C C2 FAD . . . B 2 45.238 -14.164 6 1 32.88 ? C2 FAD 500 A 1 HETATM 25 O O2 FAD . . . B 2 44.352 -13.531 5.405 1 35.21 ? O2 FAD 500 A 1 HETATM 26 N N3 FAD . . . B 2 46.143 -13.478 6.771 1 40.49 ? N3 FAD 500 A 1 HETATM 27 C C4 FAD . . . B 2 47.249 -14.103 7.296 1 40.4 ? C4 FAD 500 A 1 HETATM 28 O O4 FAD . . . B 2 48.047 -13.455 7.97 1 50.56 ? O4 FAD 500 A 1 HETATM 29 C C4X FAD . . . B 2 47.391 -15.474 7.159 1 37.8 ? C4X FAD 500 A 1 HETATM 30 N N5 FAD . . . B 2 48.344 -16.124 7.91 1 32.62 ? N5 FAD 500 A 1 HETATM 31 C C5X FAD . . . B 2 48.293 -17.496 8.016 1 39.11 ? C5X FAD 500 A 1 HETATM 32 C C6 FAD . . . B 2 49.231 -18.148 8.813 1 34.67 ? C6 FAD 500 A 1 HETATM 33 C C7 FAD . . . B 2 49.26 -19.537 8.857 1 38.57 ? C7 FAD 500 A 1 HETATM 34 C C7M FAD . . . B 2 50.35 -20.24 9.616 1 39.65 ? C7M FAD 500 A 1 HETATM 35 C C8 FAD . . . B 2 48.382 -20.271 8.071 1 40.68 ? C8 FAD 500 A 1 HETATM 36 C C8M FAD . . . B 2 48.51 -21.773 8.062 1 40.55 ? C8M FAD 500 A 1 HETATM 37 C C9 FAD . . . B 2 47.531 -19.61 7.176 1 30.8 ? C9 FAD 500 A 1 HETATM 38 C C9A FAD . . . B 2 47.371 -18.23 7.268 1 34.6 ? C9A FAD 500 A 1 HETATM 39 N N10 FAD . . . B 2 46.487 -17.576 6.428 1 32.67 ? N10 FAD 500 A 1 HETATM 40 C C10 FAD . . . B 2 46.411 -16.202 6.484 1 28.09 ? C10 FAD 500 A 1 HETATM 41 C C1' FAD . . . B 2 45.787 -18.313 5.307 1 36.38 ? C1' FAD 500 A 1 HETATM 42 C C2' FAD . . . B 2 44.299 -18.608 5.572 1 32.68 ? C2' FAD 500 A 1 HETATM 43 O O2' FAD . . . B 2 43.57 -17.43 5.868 1 35.48 ? O2' FAD 500 A 1 HETATM 44 C C3' FAD . . . B 2 44.121 -19.586 6.727 1 33.42 ? C3' FAD 500 A 1 HETATM 45 O O3' FAD . . . B 2 44.77 -20.798 6.415 1 29.2 ? O3' FAD 500 A 1 HETATM 46 C C4' FAD . . . B 2 42.641 -19.853 7.033 1 33.92 ? C4' FAD 500 A 1 HETATM 47 O O4' FAD . . . B 2 42.538 -20.437 8.311 1 35.78 ? O4' FAD 500 A 1 HETATM 48 C C5' FAD . . . B 2 41.985 -20.754 5.997 1 33.38 ? C5' FAD 500 A 1 HETATM 49 O O5' FAD . . . B 2 40.626 -20.93 6.338 1 43.62 ? O5' FAD 500 A 1 HETATM 50 P P FAD . . . B 2 39.765 -22.251 5.978 1 30.37 ? P FAD 500 A 1 HETATM 51 O O1P FAD . . . B 2 38.367 -22.033 6.489 1 33.98 ? O1P FAD 500 A 1 HETATM 52 O O2P FAD . . . B 2 39.776 -22.614 4.517 1 30.73 ? O2P FAD 500 A 1 HETATM 53 O O3P FAD . . . B 2 40.533 -23.437 6.711 1 26.89 ? O3P FAD 500 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 308 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 53 #