data_6U5T # _model_server_result.job_id a2pjmmBDIvLXI3J42EyB6w _model_server_result.datetime_utc '2025-07-07 18:47:12' _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 6u5t # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":3051}' # _entry.id 6U5T # _exptl.entry_id 6U5T _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 456.344 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'FLAVIN MONONUCLEOTIDE' _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? dodecameric 12 'complete point assembly' 1 ? dimeric 2 'point asymmetric unit' 2 ? dimeric 2 'point asymmetric unit, std point frame' 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D 1 (1-6) A,B,C,D 2 1 A,B,C,D 3 P # 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] P 'transform to point frame' ? ? -0.00009 -1 0.000186 1 -0.00009 0.000172 -0.000171 0.000186 1 186.53534 -186.5962 -186.55973 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'point symmetry operation' ? ? -0.5 -0.866025 -0.000096 0.866025 -0.5 0.000427 -0.000418 0.00013 1 441.44923 118.16641 0.05377 3 'point symmetry operation' ? ? -0.5 0.866025 -0.000418 -0.866025 -0.5 0.00013 -0.000096 0.000427 1 118.38952 441.38945 -0.06163 4 'point symmetry operation' ? ? -1 0.000179 0 0.000179 1 -0.000371 0 -0.000371 -1 373.12841 0.03582 373.18345 5 'point symmetry operation' ? ? 0.500155 0.865936 0.000097 0.865936 -0.500155 0.000056 0.000097 0.000056 -1 -68.29963 118.28133 373.0858 6 'point symmetry operation' ? ? 0.499845 -0.866115 0.000418 -0.866115 -0.499845 -0.000241 0.000418 -0.000241 -1 254.81802 441.44648 373.08123 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _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 OG _struct_conn.ptnr1_label_comp_id SER _struct_conn.ptnr1_label_seq_id 180 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id SER _struct_conn.ptnr1_auth_seq_id 180 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id C _struct_conn.ptnr2_label_atom_id P24 _struct_conn.ptnr2_label_comp_id PNS _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id PNS _struct_conn.ptnr2_auth_seq_id 1888 _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 1.604 _struct_conn.pdbx_value_order ? # _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 6U5T _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 3 PNS A 1 1888 180 PNS GVL . D 4 FMN G 1 3051 3051 FMN FMN . # 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 . . . D 4 175.713 117.439 266.04 1 129.67 ? N1 FMN 3051 G 1 HETATM 2 C C2 FMN . . . D 4 175.144 118.613 265.607 1 129.67 ? C2 FMN 3051 G 1 HETATM 3 O O2 FMN . . . D 4 175.539 119.682 266.06 1 129.67 ? O2 FMN 3051 G 1 HETATM 4 N N3 FMN . . . D 4 174.137 118.597 264.671 1 129.67 ? N3 FMN 3051 G 1 HETATM 5 C C4 FMN . . . D 4 173.703 117.394 264.168 1 129.67 ? C4 FMN 3051 G 1 HETATM 6 O O4 FMN . . . D 4 172.806 117.364 263.332 1 129.67 ? O4 FMN 3051 G 1 HETATM 7 C C4A FMN . . . D 4 174.274 116.213 264.6 1 129.67 ? C4A FMN 3051 G 1 HETATM 8 N N5 FMN . . . D 4 173.83 115.023 264.089 1 129.67 ? N5 FMN 3051 G 1 HETATM 9 C C5A FMN . . . D 4 174.396 113.851 264.518 1 129.67 ? C5A FMN 3051 G 1 HETATM 10 C C6 FMN . . . D 4 173.944 112.653 264.002 1 129.67 ? C6 FMN 3051 G 1 HETATM 11 C C7 FMN . . . D 4 174.505 111.463 264.429 1 129.67 ? C7 FMN 3051 G 1 HETATM 12 C C7M FMN . . . D 4 174.001 110.172 263.866 1 129.67 ? C7M FMN 3051 G 1 HETATM 13 C C8 FMN . . . D 4 175.516 111.483 265.367 1 129.67 ? C8 FMN 3051 G 1 HETATM 14 C C8M FMN . . . D 4 176.137 110.216 265.845 1 129.67 ? C8M FMN 3051 G 1 HETATM 15 C C9 FMN . . . D 4 175.961 112.679 265.884 1 129.67 ? C9 FMN 3051 G 1 HETATM 16 C C9A FMN . . . D 4 175.404 113.868 265.46 1 129.67 ? C9A FMN 3051 G 1 HETATM 17 N N10 FMN . . . D 4 175.853 115.059 265.976 1 129.67 ? N10 FMN 3051 G 1 HETATM 18 C C10 FMN . . . D 4 175.284 116.234 265.543 1 129.67 ? C10 FMN 3051 G 1 HETATM 19 C C1' FMN . . . D 4 176.951 115.07 267 1 129.67 ? C1' FMN 3051 G 1 HETATM 20 C C2' FMN . . . D 4 176.389 114.702 268.362 1 129.67 ? C2' FMN 3051 G 1 HETATM 21 O O2' FMN . . . D 4 175.799 115.86 268.89 1 129.67 ? O2' FMN 3051 G 1 HETATM 22 C C3' FMN . . . D 4 177.453 114.229 269.34 1 129.67 ? C3' FMN 3051 G 1 HETATM 23 O O3' FMN . . . D 4 178.502 115.161 269.357 1 129.67 ? O3' FMN 3051 G 1 HETATM 24 C C4' FMN . . . D 4 178.012 112.858 268.999 1 129.67 ? C4' FMN 3051 G 1 HETATM 25 O O4' FMN . . . D 4 176.97 111.934 268.841 1 129.67 ? O4' FMN 3051 G 1 HETATM 26 C C5' FMN . . . D 4 178.906 112.327 270.102 1 129.67 ? C5' FMN 3051 G 1 HETATM 27 O O5' FMN . . . D 4 179.558 111.161 269.673 1 129.67 ? O5' FMN 3051 G 1 HETATM 28 P P FMN . . . D 4 179.753 109.96 270.718 1 129.67 ? P FMN 3051 G 1 HETATM 29 O O1P FMN . . . D 4 178.476 109.16 270.732 1 129.67 ? O1P FMN 3051 G 1 HETATM 30 O O2P FMN . . . D 4 180.918 109.094 270.307 1 129.67 -1 O2P FMN 3051 G 1 HETATM 31 O O3P FMN . . . D 4 180 110.519 272.094 1 129.67 ? O3P FMN 3051 G 1 # _model_server_stats.io_time_ms 137 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 37 _model_server_stats.query_time_ms 330 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 31 #