data_8RB8 # _model_server_result.job_id y4mHNRcflZhd80zWCJjthA _model_server_result.datetime_utc '2024-11-22 20:54:38' _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 8rb8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"V","auth_seq_id":410}' # _entry.id 8RB8 # _exptl.entry_id 8RB8 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 456.344 _entity.id 10 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'FLAVIN MONONUCLEOTIDE' _entity.pdbx_number_of_molecules 3 _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 90 _cell.entry_id 8RB8 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8RB8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details heptameric _pdbx_struct_assembly.oligomeric_count 7 _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,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 10 J N N ? 10 V N N ? 10 AA N N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _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 _struct_conn.pdbx_value_order covale ? covale1 C OG1 THR 177 D THR 177 1_555 V P FMN . D FMN 410 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.624 ? covale ? covale2 E OG1 THR 202 G THR 202 1_555 AA P FMN . G FMN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.631 ? metalc ? metalc1 A SG CYS 25 A CYS 25 1_555 H FE1 FES . A FES 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? metalc ? metalc2 A SG CYS 113 A CYS 113 1_555 H FE2 FES . A FES 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.308 ? metalc ? metalc3 H FE2 FES . A FES 200 1_555 D SG CYS 39 E CYS 39 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.309 ? metalc ? metalc4 H FE1 FES . A FES 200 1_555 D SG CYS 122 E CYS 122 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? metalc ? metalc5 B SG CYS 370 C CYS 370 1_555 K FE3 SF4 . C SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.262 ? metalc ? metalc6 B SG CYS 373 C CYS 373 1_555 K FE4 SF4 . C SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? metalc ? metalc7 B SG CYS 376 C CYS 376 1_555 K FE1 SF4 . C SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.26 ? metalc ? metalc8 B SG CYS 380 C CYS 380 1_555 L FE4 SF4 . C SF4 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? metalc ? metalc9 B SG CYS 409 C CYS 409 1_555 L FE1 SF4 . C SF4 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.266 ? metalc ? metalc10 B SG CYS 412 C CYS 412 1_555 L FE2 SF4 . C SF4 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.26 ? metalc ? metalc11 B SG CYS 415 C CYS 415 1_555 L FE3 SF4 . C SF4 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.242 ? metalc ? metalc12 B SG CYS 419 C CYS 419 1_555 K FE2 SF4 . C SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.26 ? metalc ? metalc13 G SG CYS 109 B CYS 109 1_555 CA FE1 SF4 . B SF4 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.274 ? metalc ? metalc14 G SG CYS 112 B CYS 112 1_555 CA FE2 SF4 . B SF4 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.255 ? metalc ? metalc15 G SG CYS 115 B CYS 115 1_555 CA FE3 SF4 . B SF4 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.268 ? metalc ? metalc16 G SG CYS 119 B CYS 119 1_555 BA FE1 SF4 . B SF4 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.273 ? metalc ? metalc17 G SG CYS 139 B CYS 139 1_555 BA FE4 SF4 . B SF4 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.267 ? metalc ? metalc18 G SG CYS 142 B CYS 142 1_555 BA FE3 SF4 . B SF4 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.263 ? metalc ? metalc19 G SG CYS 145 B CYS 145 1_555 BA FE2 SF4 . B SF4 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? metalc ? metalc20 G SG CYS 149 B CYS 149 1_555 CA FE4 SF4 . B SF4 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.263 ? # _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 87 n n N1 C10 FMN doub 88 n n C2 O2 FMN doub 89 n n C2 N3 FMN sing 90 n n N3 C4 FMN sing 91 n n N3 HN3 FMN sing 92 n n C4 O4 FMN doub 93 n n C4 C4A FMN sing 94 n n C4A N5 FMN doub 95 n n C4A C10 FMN sing 96 n n N5 C5A FMN sing 97 n n C5A C6 FMN doub 98 n y C5A C9A FMN sing 99 n y C6 C7 FMN sing 100 n y C6 H6 FMN sing 101 n n C7 C7M FMN sing 102 n n C7 C8 FMN doub 103 n y C7M HM71 FMN sing 104 n n C7M HM72 FMN sing 105 n n C7M HM73 FMN sing 106 n n C8 C8M FMN sing 107 n n C8 C9 FMN sing 108 n y C8M HM81 FMN sing 109 n n C8M HM82 FMN sing 110 n n C8M HM83 FMN sing 111 n n C9 C9A FMN doub 112 n y C9 H9 FMN sing 113 n n C9A N10 FMN sing 114 n n N10 C10 FMN sing 115 n n N10 C1' FMN sing 116 n n C1' C2' FMN sing 117 n n C1' "H1'1" FMN sing 118 n n C1' "H1'2" FMN sing 119 n n C2' O2' FMN sing 120 n n C2' C3' FMN sing 121 n n C2' H2' FMN sing 122 n n O2' HO2' FMN sing 123 n n C3' O3' FMN sing 124 n n C3' C4' FMN sing 125 n n C3' H3' FMN sing 126 n n O3' HO3' FMN sing 127 n n C4' O4' FMN sing 128 n n C4' C5' FMN sing 129 n n C4' H4' FMN sing 130 n n O4' HO4' FMN sing 131 n n C5' O5' FMN sing 132 n n C5' "H5'1" FMN sing 133 n n C5' "H5'2" FMN sing 134 n n O5' P FMN sing 135 n n P O1P FMN doub 136 n n P O2P FMN sing 137 n n P O3P FMN sing 138 n n O2P HOP2 FMN sing 139 n n O3P HOP3 FMN sing 140 n n # _atom_sites.entry_id 8RB8 _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 H 8 FES A 1 200 200 FES FES . I 9 LMT A 1 201 201 LMT LMT . J 10 FMN C 1 500 500 FMN FMN . K 11 SF4 C 1 501 501 SF4 SF4 . L 11 SF4 C 1 502 502 SF4 SF4 . M 9 LMT D 1 401 202 LMT LMT . N 9 LMT D 1 402 204 LMT LMT . O 12 RBF D 1 403 402 RBF RBF . P 9 LMT D 1 404 404 LMT LMT . Q 9 LMT D 1 405 405 LMT LMT . R 9 LMT D 1 406 406 LMT LMT . S 9 LMT D 1 407 407 LMT LMT . T 9 LMT D 1 408 409 LMT LMT . U 9 LMT D 1 409 411 LMT LMT . V 10 FMN D 1 410 177 FMN T1F . W 9 LMT E 1 301 408 LMT LMT . X 9 LMT E 1 302 301 LMT LMT . Y 9 LMT E 1 303 302 LMT LMT . Z 9 LMT E 1 304 303 LMT LMT . AA 10 FMN G 1 301 202 FMN T1F . BA 11 SF4 B 1 201 201 SF4 SF4 . CA 11 SF4 B 1 202 202 SF4 SF4 . # 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 . . . V 10 110.329 91.538 106.553 1 28.19 ? N1 FMN 410 D 1 HETATM 2 C C2 FMN . . . V 10 110.25 92.371 105.482 1 28.5 ? C2 FMN 410 D 1 HETATM 3 O O2 FMN . . . V 10 110.163 91.936 104.327 1 27.19 ? O2 FMN 410 D 1 HETATM 4 N N3 FMN . . . V 10 110.271 93.739 105.672 1 22.02 ? N3 FMN 410 D 1 HETATM 5 C C4 FMN . . . V 10 110.371 94.389 106.887 1 22.3 ? C4 FMN 410 D 1 HETATM 6 O O4 FMN . . . V 10 110.391 95.618 106.928 1 27.46 ? O4 FMN 410 D 1 HETATM 7 C C4A FMN . . . V 10 110.452 93.5 108.022 1 21.15 ? C4A FMN 410 D 1 HETATM 8 N N5 FMN . . . V 10 110.545 94.024 109.209 1 24.61 ? N5 FMN 410 D 1 HETATM 9 C C5A FMN . . . V 10 110.627 93.164 110.295 1 17.66 ? C5A FMN 410 D 1 HETATM 10 C C6 FMN . . . V 10 110.716 93.707 111.576 1 18.48 ? C6 FMN 410 D 1 HETATM 11 C C7 FMN . . . V 10 110.794 92.885 112.694 1 18.59 ? C7 FMN 410 D 1 HETATM 12 C C7M FMN . . . V 10 110.856 93.504 114.066 1 24.54 ? C7M FMN 410 D 1 HETATM 13 C C8 FMN . . . V 10 110.787 91.489 112.533 1 17.49 ? C8 FMN 410 D 1 HETATM 14 C C8M FMN . . . V 10 110.886 90.571 113.723 1 22.29 ? C8M FMN 410 D 1 HETATM 15 C C9 FMN . . . V 10 110.698 90.944 111.257 1 19.62 ? C9 FMN 410 D 1 HETATM 16 C C9A FMN . . . V 10 110.617 91.769 110.144 1 19.5 ? C9A FMN 410 D 1 HETATM 17 N N10 FMN . . . V 10 110.512 91.251 108.842 1 22.51 ? N10 FMN 410 D 1 HETATM 18 C C10 FMN . . . V 10 110.426 92.08 107.754 1 20.05 ? C10 FMN 410 D 1 HETATM 19 C C1' FMN . . . V 10 110.499 89.802 108.612 1 24.36 ? C1' FMN 410 D 1 HETATM 20 C C2' FMN . . . V 10 109.073 89.263 108.589 1 23.07 ? C2' FMN 410 D 1 HETATM 21 O O2' FMN . . . V 10 108.451 89.457 109.859 1 29.78 ? O2' FMN 410 D 1 HETATM 22 C C3' FMN . . . V 10 109.093 87.772 108.254 1 24.62 ? C3' FMN 410 D 1 HETATM 23 O O3' FMN . . . V 10 110.39 87.253 108.528 1 27.07 ? O3' FMN 410 D 1 HETATM 24 C C4' FMN . . . V 10 108.733 87.473 106.798 1 20.38 ? C4' FMN 410 D 1 HETATM 25 O O4' FMN . . . V 10 109.437 88.368 105.937 1 24.5 ? O4' FMN 410 D 1 HETATM 26 C C5' FMN . . . V 10 109.029 86.039 106.42 1 17.53 ? C5' FMN 410 D 1 HETATM 27 O O5' FMN . . . V 10 108.309 85.722 105.213 1 16.42 ? O5' FMN 410 D 1 HETATM 28 P P FMN . . . V 10 106.775 85.304 105.325 1 32.48 ? P FMN 410 D 1 HETATM 29 O O1P FMN . . . V 10 105.949 86.241 104.528 1 34.44 ? O1P FMN 410 D 1 HETATM 30 O O2P FMN . . . V 10 106.474 85.104 106.757 1 23.95 ? O2P FMN 410 D 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 25 _model_server_stats.query_time_ms 306 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 30 #