data_7JYB # _model_server_result.job_id h7YGQtTWvTxD9e9AdjFQzQ _model_server_result.datetime_utc '2024-11-01 19:32:08' _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 7jyb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"P","auth_seq_id":401}' # _entry.id 7JYB # _exptl.entry_id 7JYB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 456.344 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'FLAVIN MONONUCLEOTIDE' _entity.pdbx_number_of_molecules 6 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 119.132 _cell.angle_gamma 90 _cell.entry_id 7JYB _cell.length_a 94.2 _cell.length_b 214.38 _cell.length_c 95.2 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7JYB _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall 'P 2yb' _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? tetrameric 4 author_defined_assembly 1 ? tetrameric 4 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,B,C,D,I,J,K,L,R,S,T,U 1 1 E,F,G,H,M,N,O,P,Q,V,W,X,Y 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 ? 2 I N N ? 2 J N N ? 2 K N N ? 2 L N N ? 2 M N N ? 2 P N N # _chem_comp.formula 'C17 H21 N4 O9 P' _chem_comp.formula_weight 456.344 _chem_comp.id FMN _chem_comp.mon_nstd_flag . _chem_comp.name 'FLAVIN MONONUCLEOTIDE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'RIBOFLAVIN MONOPHOSPHATE' # 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 N1 C2 FMN sing 83 n n N1 C10 FMN doub 84 n n C2 O2 FMN doub 85 n n C2 N3 FMN sing 86 n n N3 C4 FMN sing 87 n n N3 HN3 FMN sing 88 n n C4 O4 FMN doub 89 n n C4 C4A FMN sing 90 n n C4A N5 FMN doub 91 n n C4A C10 FMN sing 92 n n N5 C5A FMN sing 93 n n C5A C6 FMN doub 94 n y C5A C9A FMN sing 95 n y C6 C7 FMN sing 96 n y C6 H6 FMN sing 97 n n C7 C7M FMN sing 98 n n C7 C8 FMN doub 99 n y C7M HM71 FMN sing 100 n n C7M HM72 FMN sing 101 n n C7M HM73 FMN sing 102 n n C8 C8M FMN sing 103 n n C8 C9 FMN sing 104 n y C8M HM81 FMN sing 105 n n C8M HM82 FMN sing 106 n n C8M HM83 FMN sing 107 n n C9 C9A FMN doub 108 n y C9 H9 FMN sing 109 n n C9A N10 FMN sing 110 n n N10 C10 FMN sing 111 n n N10 C1' FMN sing 112 n n C1' C2' FMN sing 113 n n C1' "H1'1" FMN sing 114 n n C1' "H1'2" FMN sing 115 n n C2' O2' FMN sing 116 n n C2' C3' FMN sing 117 n n C2' H2' FMN sing 118 n n O2' HO2' FMN sing 119 n n C3' O3' FMN sing 120 n n C3' C4' FMN sing 121 n n C3' H3' FMN sing 122 n n O3' HO3' FMN sing 123 n n C4' O4' FMN sing 124 n n C4' C5' FMN sing 125 n n C4' H4' FMN sing 126 n n O4' HO4' FMN sing 127 n n C5' O5' FMN sing 128 n n C5' "H5'1" FMN sing 129 n n C5' "H5'2" FMN sing 130 n n O5' P FMN sing 131 n n P O1P FMN doub 132 n n P O2P FMN sing 133 n n P O3P FMN sing 134 n n O2P HOP2 FMN sing 135 n n O3P HOP3 FMN sing 136 n n # _atom_sites.entry_id 7JYB _atom_sites.fract_transf_matrix[1][1] 0.010616 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.005916 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.004665 _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] 0.012025 _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 I 2 FMN A 1 401 401 FMN FMN . J 2 FMN B 1 401 401 FMN FMN . K 2 FMN C 1 401 401 FMN FMN . L 2 FMN D 1 401 401 FMN FMN . M 2 FMN E 1 401 401 FMN FMN . N 3 SIN E 1 402 501 SIN SIN . O 4 PO4 F 1 501 501 PO4 PO4 . P 2 FMN G 1 401 401 FMN FMN . Q 4 PO4 H 1 401 401 PO4 PO4 . R 5 HOH A 1 501 27 HOH HOH . R 5 HOH A 2 502 9 HOH HOH . R 5 HOH A 3 503 5 HOH HOH . R 5 HOH A 4 504 1 HOH HOH . R 5 HOH A 5 505 30 HOH HOH . R 5 HOH A 6 506 6 HOH HOH . R 5 HOH A 7 507 39 HOH HOH . R 5 HOH A 8 508 46 HOH HOH . R 5 HOH A 9 509 47 HOH HOH . R 5 HOH A 10 510 38 HOH HOH . S 5 HOH B 1 501 3 HOH HOH . S 5 HOH B 2 502 32 HOH HOH . S 5 HOH B 3 503 34 HOH HOH . S 5 HOH B 4 504 40 HOH HOH . S 5 HOH B 5 505 8 HOH HOH . S 5 HOH B 6 506 23 HOH HOH . T 5 HOH C 1 501 33 HOH HOH . T 5 HOH C 2 502 28 HOH HOH . T 5 HOH C 3 503 25 HOH HOH . T 5 HOH C 4 504 11 HOH HOH . T 5 HOH C 5 505 48 HOH HOH . T 5 HOH C 6 506 44 HOH HOH . T 5 HOH C 7 507 17 HOH HOH . T 5 HOH C 8 508 18 HOH HOH . U 5 HOH D 1 501 16 HOH HOH . V 5 HOH E 1 501 31 HOH HOH . V 5 HOH E 2 502 36 HOH HOH . V 5 HOH E 3 503 37 HOH HOH . V 5 HOH E 4 504 26 HOH HOH . V 5 HOH E 5 505 42 HOH HOH . V 5 HOH E 6 506 41 HOH HOH . V 5 HOH E 7 507 19 HOH HOH . V 5 HOH E 8 508 10 HOH HOH . V 5 HOH E 9 509 12 HOH HOH . V 5 HOH E 10 510 7 HOH HOH . V 5 HOH E 11 511 14 HOH HOH . V 5 HOH E 12 512 13 HOH HOH . V 5 HOH E 13 513 24 HOH HOH . V 5 HOH E 14 514 2 HOH HOH . V 5 HOH E 15 515 4 HOH HOH . W 5 HOH F 1 601 15 HOH HOH . W 5 HOH F 2 602 35 HOH HOH . W 5 HOH F 3 603 22 HOH HOH . X 5 HOH G 1 501 43 HOH HOH . X 5 HOH G 2 502 20 HOH HOH . X 5 HOH G 3 503 45 HOH HOH . Y 5 HOH H 1 501 29 HOH HOH . Y 5 HOH H 2 502 21 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 N N1 FMN . . . P 2 -77.89 -53.932 -26.682 0.69 100.74 ? N1 FMN 401 G 1 HETATM 2 C C2 FMN . . . P 2 -77.112 -54.833 -26.086 0.69 102.84 ? C2 FMN 401 G 1 HETATM 3 O O2 FMN . . . P 2 -77.644 -55.824 -25.615 0.69 111.45 ? O2 FMN 401 G 1 HETATM 4 N N3 FMN . . . P 2 -75.782 -54.717 -25.966 0.69 95.34 ? N3 FMN 401 G 1 HETATM 5 C C4 FMN . . . P 2 -75.127 -53.641 -26.459 0.69 97.33 ? C4 FMN 401 G 1 HETATM 6 O O4 FMN . . . P 2 -73.922 -53.527 -26.344 0.69 93.07 ? O4 FMN 401 G 1 HETATM 7 C C4A FMN . . . P 2 -75.94 -52.607 -27.139 0.69 99.98 ? C4A FMN 401 G 1 HETATM 8 N N5 FMN . . . P 2 -75.399 -51.546 -27.676 0.69 96.82 ? N5 FMN 401 G 1 HETATM 9 C C5A FMN . . . P 2 -76.155 -50.644 -28.316 0.69 100.82 ? C5A FMN 401 G 1 HETATM 10 C C6 FMN . . . P 2 -75.541 -49.531 -28.922 0.69 98.09 ? C6 FMN 401 G 1 HETATM 11 C C7 FMN . . . P 2 -76.295 -48.625 -29.601 0.69 98.6 ? C7 FMN 401 G 1 HETATM 12 C C7M FMN . . . P 2 -75.623 -47.457 -30.27 0.69 90.44 ? C7M FMN 401 G 1 HETATM 13 C C8 FMN . . . P 2 -77.675 -48.779 -29.697 0.69 107.63 ? C8 FMN 401 G 1 HETATM 14 C C8M FMN . . . P 2 -78.489 -47.759 -30.451 0.69 105.27 ? C8M FMN 401 G 1 HETATM 15 C C9 FMN . . . P 2 -78.303 -49.856 -29.11 0.69 107.84 ? C9 FMN 401 G 1 HETATM 16 C C9A FMN . . . P 2 -77.556 -50.806 -28.417 0.69 103.23 ? C9A FMN 401 G 1 HETATM 17 N N10 FMN . . . P 2 -78.175 -51.908 -27.86 0.69 103.78 ? N10 FMN 401 G 1 HETATM 18 C C10 FMN . . . P 2 -77.396 -52.828 -27.218 0.69 100.35 ? C10 FMN 401 G 1 HETATM 19 C C1' FMN . . . P 2 -79.626 -52.097 -27.992 0.69 106.48 ? C1' FMN 401 G 1 HETATM 20 C C2' FMN . . . P 2 -80.369 -51.75 -26.698 0.69 107.36 ? C2' FMN 401 G 1 HETATM 21 O O2' FMN . . . P 2 -80.481 -52.921 -25.887 0.69 111.78 ? O2' FMN 401 G 1 HETATM 22 C C3' FMN . . . P 2 -81.775 -51.243 -27.032 0.69 114.24 ? C3' FMN 401 G 1 HETATM 23 O O3' FMN . . . P 2 -82.357 -50.643 -25.871 0.69 107.44 ? O3' FMN 401 G 1 HETATM 24 C C4' FMN . . . P 2 -82.647 -52.414 -27.5 0.69 118.11 ? C4' FMN 401 G 1 HETATM 25 O O4' FMN . . . P 2 -82.81 -52.357 -28.919 0.69 117.77 ? O4' FMN 401 G 1 HETATM 26 C C5' FMN . . . P 2 -84.022 -52.353 -26.828 0.69 122.52 ? C5' FMN 401 G 1 HETATM 27 O O5' FMN . . . P 2 -84.633 -51.084 -27.074 0.69 127.53 ? O5' FMN 401 G 1 HETATM 28 P P FMN . . . P 2 -85.882 -50.877 -28.07 0.69 118.9 ? P FMN 401 G 1 HETATM 29 O O1P FMN . . . P 2 -86.783 -52.049 -27.992 0.69 109.46 ? O1P FMN 401 G 1 HETATM 30 O O2P FMN . . . P 2 -86.691 -49.556 -27.633 0.69 113.54 ? O2P FMN 401 G 1 HETATM 31 O O3P FMN . . . P 2 -85.341 -50.7 -29.577 0.69 113.66 ? O3P FMN 401 G 1 # _model_server_stats.io_time_ms 80 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 25 _model_server_stats.query_time_ms 358 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 31 #