data_9DI6 # _model_server_result.job_id YELcJuaEbwFA8qdVWhPVEg _model_server_result.datetime_utc '2025-01-08 10:14:40' _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 9di6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1002}' # _entry.id 9DI6 # _exptl.entry_id 9DI6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 456.344 _entity.id 3 _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 ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 120 _cell.entry_id 9DI6 _cell.length_a 73.768 _cell.length_b 73.768 _cell.length_c 328.285 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9DI6 _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall 'P 61 2 (x,y,z+5/12)' _symmetry.space_group_name_H-M 'P 61 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 143 n n N1 C10 FMN doub 144 n n C2 O2 FMN doub 145 n n C2 N3 FMN sing 146 n n N3 C4 FMN sing 147 n n N3 HN3 FMN sing 148 n n C4 O4 FMN doub 149 n n C4 C4A FMN sing 150 n n C4A N5 FMN doub 151 n n C4A C10 FMN sing 152 n n N5 C5A FMN sing 153 n n C5A C6 FMN doub 154 n y C5A C9A FMN sing 155 n y C6 C7 FMN sing 156 n y C6 H6 FMN sing 157 n n C7 C7M FMN sing 158 n n C7 C8 FMN doub 159 n y C7M HM71 FMN sing 160 n n C7M HM72 FMN sing 161 n n C7M HM73 FMN sing 162 n n C8 C8M FMN sing 163 n n C8 C9 FMN sing 164 n y C8M HM81 FMN sing 165 n n C8M HM82 FMN sing 166 n n C8M HM83 FMN sing 167 n n C9 C9A FMN doub 168 n y C9 H9 FMN sing 169 n n C9A N10 FMN sing 170 n n N10 C10 FMN sing 171 n n N10 C1' FMN sing 172 n n C1' C2' FMN sing 173 n n C1' "H1'1" FMN sing 174 n n C1' "H1'2" FMN sing 175 n n C2' O2' FMN sing 176 n n C2' C3' FMN sing 177 n n C2' H2' FMN sing 178 n n O2' HO2' FMN sing 179 n n C3' O3' FMN sing 180 n n C3' C4' FMN sing 181 n n C3' H3' FMN sing 182 n n O3' HO3' FMN sing 183 n n C4' O4' FMN sing 184 n n C4' C5' FMN sing 185 n n C4' H4' FMN sing 186 n n O4' HO4' FMN sing 187 n n C5' O5' FMN sing 188 n n C5' "H5'1" FMN sing 189 n n C5' "H5'2" FMN sing 190 n n O5' P FMN sing 191 n n P O1P FMN doub 192 n n P O2P FMN sing 193 n n P O3P FMN sing 194 n n O2P HOP2 FMN sing 195 n n O3P HOP3 FMN sing 196 n n # _atom_sites.entry_id 9DI6 _atom_sites.fract_transf_matrix[1][1] 0.013556 _atom_sites.fract_transf_matrix[1][2] 0.007827 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015653 _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] 0.003046 _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 A1A51 A 1 1001 1001 A1A51 679 . C 3 FMN A 1 1002 1002 FMN FMN . D 4 OG6 A 1 1003 1003 OG6 ORO . E 5 CIT A 1 1004 1004 CIT CIT . F 6 LDA A 1 1005 2001 LDA LDA . G 7 HOH A 1 1101 16 HOH HOH . G 7 HOH A 2 1102 7 HOH HOH . G 7 HOH A 3 1103 32 HOH HOH . G 7 HOH A 4 1104 14 HOH HOH . G 7 HOH A 5 1105 27 HOH HOH . G 7 HOH A 6 1106 8 HOH HOH . G 7 HOH A 7 1107 23 HOH HOH . G 7 HOH A 8 1108 9 HOH HOH . G 7 HOH A 9 1109 5 HOH HOH . G 7 HOH A 10 1110 28 HOH HOH . G 7 HOH A 11 1111 11 HOH HOH . G 7 HOH A 12 1112 36 HOH HOH . G 7 HOH A 13 1113 3 HOH HOH . G 7 HOH A 14 1114 17 HOH HOH . G 7 HOH A 15 1115 13 HOH HOH . G 7 HOH A 16 1116 1 HOH HOH . G 7 HOH A 17 1117 15 HOH HOH . G 7 HOH A 18 1118 19 HOH HOH . G 7 HOH A 19 1119 10 HOH HOH . G 7 HOH A 20 1120 4 HOH HOH . G 7 HOH A 21 1121 25 HOH HOH . G 7 HOH A 22 1122 24 HOH HOH . G 7 HOH A 23 1123 6 HOH HOH . G 7 HOH A 24 1124 21 HOH HOH . G 7 HOH A 25 1125 2 HOH HOH . G 7 HOH A 26 1126 22 HOH HOH . G 7 HOH A 27 1127 12 HOH HOH . G 7 HOH A 28 1128 18 HOH HOH . G 7 HOH A 29 1129 35 HOH HOH . G 7 HOH A 30 1130 29 HOH HOH . G 7 HOH A 31 1131 20 HOH HOH . G 7 HOH A 32 1132 30 HOH HOH . G 7 HOH A 33 1133 33 HOH HOH . G 7 HOH A 34 1134 31 HOH HOH . G 7 HOH A 35 1135 34 HOH HOH . G 7 HOH A 36 1136 26 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 . . . C 3 0.451 21.539 -10.368 1 30.61 ? N1 FMN 1002 A 1 HETATM 2 C C2 FMN . . . C 3 -0.359 20.516 -9.923 1 28.12 ? C2 FMN 1002 A 1 HETATM 3 O O2 FMN . . . C 3 -0.838 19.726 -10.737 1 28.3 ? O2 FMN 1002 A 1 HETATM 4 N N3 FMN . . . C 3 -0.627 20.388 -8.571 1 25.45 ? N3 FMN 1002 A 1 HETATM 5 C C4 FMN . . . C 3 -0.085 21.283 -7.666 1 29.36 ? C4 FMN 1002 A 1 HETATM 6 O O4 FMN . . . C 3 -0.32 21.174 -6.462 1 24.85 ? O4 FMN 1002 A 1 HETATM 7 C C4A FMN . . . C 3 0.734 22.311 -8.119 1 22.19 ? C4A FMN 1002 A 1 HETATM 8 N N5 FMN . . . C 3 1.28 23.203 -7.219 1 25.62 ? N5 FMN 1002 A 1 HETATM 9 C C5A FMN . . . C 3 2.09 24.227 -7.667 1 28.9 ? C5A FMN 1002 A 1 HETATM 10 C C6 FMN . . . C 3 2.628 25.121 -6.75 1 24.81 ? C6 FMN 1002 A 1 HETATM 11 C C7 FMN . . . C 3 3.447 26.159 -7.177 1 22.81 ? C7 FMN 1002 A 1 HETATM 12 C C7M FMN . . . C 3 4.017 27.102 -6.157 1 29.44 ? C7M FMN 1002 A 1 HETATM 13 C C8 FMN . . . C 3 3.728 26.297 -8.536 1 29.89 ? C8 FMN 1002 A 1 HETATM 14 C C8M FMN . . . C 3 4.603 27.408 -9.039 1 25.34 ? C8M FMN 1002 A 1 HETATM 15 C C9 FMN . . . C 3 3.181 25.404 -9.453 1 26.66 ? C9 FMN 1002 A 1 HETATM 16 C C9A FMN . . . C 3 2.363 24.361 -9.026 1 23.65 ? C9A FMN 1002 A 1 HETATM 17 N N10 FMN . . . C 3 1.815 23.465 -9.932 1 25.13 ? N10 FMN 1002 A 1 HETATM 18 C C10 FMN . . . C 3 1.003 22.439 -9.476 1 26.79 ? C10 FMN 1002 A 1 HETATM 19 C C1' FMN . . . C 3 2.096 23.583 -11.406 1 27.93 ? C1' FMN 1002 A 1 HETATM 20 C C2' FMN . . . C 3 1.152 24.588 -12.056 1 32.92 ? C2' FMN 1002 A 1 HETATM 21 O O2' FMN . . . C 3 -0.179 24.164 -11.864 1 34.86 ? O2' FMN 1002 A 1 HETATM 22 C C3' FMN . . . C 3 1.43 24.744 -13.55 1 28.34 ? C3' FMN 1002 A 1 HETATM 23 O O3' FMN . . . C 3 1.217 23.519 -14.212 1 24 ? O3' FMN 1002 A 1 HETATM 24 C C4' FMN . . . C 3 2.866 25.201 -13.78 1 33.01 ? C4' FMN 1002 A 1 HETATM 25 O O4' FMN . . . C 3 3.199 26.197 -12.835 1 27.36 ? O4' FMN 1002 A 1 HETATM 26 C C5' FMN . . . C 3 3.096 25.743 -15.184 1 25.21 ? C5' FMN 1002 A 1 HETATM 27 O O5' FMN . . . C 3 2.215 26.811 -15.429 1 36.17 ? O5' FMN 1002 A 1 HETATM 28 P P FMN . . . C 3 2.774 28.318 -15.433 1 34.61 ? P FMN 1002 A 1 HETATM 29 O O1P FMN . . . C 3 3.156 28.665 -14.013 1 31.42 ? O1P FMN 1002 A 1 HETATM 30 O O2P FMN . . . C 3 1.708 29.268 -15.931 1 26.67 ? O2P FMN 1002 A 1 HETATM 31 O O3P FMN . . . C 3 3.999 28.394 -16.312 1 34.36 ? O3P FMN 1002 A 1 HETATM 32 H HN3 FMN . . . C 3 -1.238 19.616 -8.235 1 30.61 ? HN3 FMN 1002 A 1 HETATM 33 H H6 FMN . . . C 3 2.408 25.007 -5.689 1 29.84 ? H6 FMN 1002 A 1 HETATM 34 H HM71 FMN . . . C 3 4.947 27.528 -6.535 1 35.4 ? HM71 FMN 1002 A 1 HETATM 35 H HM72 FMN . . . C 3 4.215 26.56 -5.232 1 35.4 ? HM72 FMN 1002 A 1 HETATM 36 H HM73 FMN . . . C 3 3.303 27.903 -5.963 1 35.4 ? HM73 FMN 1002 A 1 HETATM 37 H HM81 FMN . . . C 3 4.642 27.375 -10.128 1 30.47 ? HM81 FMN 1002 A 1 HETATM 38 H HM82 FMN . . . C 3 5.609 27.289 -8.636 1 30.47 ? HM82 FMN 1002 A 1 HETATM 39 H HM83 FMN . . . C 3 4.194 28.366 -8.719 1 30.47 ? HM83 FMN 1002 A 1 HETATM 40 H H9 FMN . . . C 3 3.395 25.522 -10.515 1 32.06 ? H9 FMN 1002 A 1 HETATM 41 H "H1'1" FMN . . . C 3 3.128 23.901 -11.556 1 33.58 ? "H1'1" FMN 1002 A 1 HETATM 42 H "H1'2" FMN . . . C 3 1.974 22.609 -11.88 1 33.58 ? "H1'2" FMN 1002 A 1 HETATM 43 H H2' FMN . . . C 3 1.308 25.559 -11.584 1 39.57 ? H2' FMN 1002 A 1 HETATM 44 H HO2' FMN . . . C 3 -0.588 23.968 -12.733 1 41.9 ? HO2' FMN 1002 A 1 HETATM 45 H H3' FMN . . . C 3 0.746 25.492 -13.952 1 34.07 ? H3' FMN 1002 A 1 HETATM 46 H H4' FMN . . . C 3 3.508 24.328 -13.659 1 39.68 ? H4' FMN 1002 A 1 HETATM 47 H HO4' FMN . . . C 3 3.488 27.008 -13.303 1 32.9 ? HO4' FMN 1002 A 1 HETATM 48 H "H5'1" FMN . . . C 3 4.127 26.083 -15.284 1 30.32 ? "H5'1" FMN 1002 A 1 HETATM 49 H "H5'2" FMN . . . C 3 2.932 24.952 -15.916 1 30.32 ? "H5'2" FMN 1002 A 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 316 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 49 #