data_5XTD # _model_server_result.job_id '_utHsvTg2iFU6JNfj622OQ' _model_server_result.datetime_utc '2024-11-23 03:20:33' _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 5xtd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"UA","auth_seq_id":502}' # _entry.id 5XTD # _exptl.entry_id 5XTD _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 456.344 _entity.id 46 _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 90 _cell.entry_id 5XTD _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5XTD _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 45-meric _pdbx_struct_assembly.oligomeric_count 45 _pdbx_struct_assembly.details author_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,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,QA,RA,SA,TA,UA,VA,WA,XA,YA,ZA,AB,BB,CB,DB,EB,FB,GB,HB,IB,JB,KB,LB,MB,NB,OB,PB,QB,RB,SB,TB,UB,VB,WB _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 ? _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 46 _struct_asym.id UA _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 disulf ? disulf1 T SG CYS 94 V CYS 95 1_555 T SG CYS 114 V CYS 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf2 AA SG CYS 111 c CYS 144 1_555 JA SG CYS 279 l CYS 279 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? disulf ? disulf3 BA SG CYS 149 d CYS 149 1_555 CA SG CYS 88 e CYS 141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf4 FA SG CYS 32 h CYS 33 1_555 FA SG CYS 65 h CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf5 FA SG CYS 42 h CYS 43 1_555 FA SG CYS 55 h CYS 56 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf6 QA SG CYS 75 u CYS 78 1_555 QA SG CYS 107 u CYS 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? disulf ? disulf7 RA SG CYS 69 v CYS 69 1_555 RA SG CYS 80 v CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.94 ? metalc ? metalc1 A NE2 GLN 355 A GLN 381 1_555 TA FE1 SF4 . A SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.515 ? metalc ? metalc2 B N CYS 80 B CYS 114 1_555 VA FE2 SF4 . B SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.665 ? metalc ? metalc3 B N GLY 120 B GLY 154 1_555 WA FE4 SF4 . B SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.794 ? metalc ? metalc4 C SG CYS 32 C CYS 89 1_555 YA FE2 SF4 . C SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.587 ? metalc ? metalc5 L NE2 HIS 95 M HIS 124 1_555 BB FE3 SF4 . M SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.14 ? metalc ? metalc6 L SG CYS 108 M CYS 137 1_555 BB FE4 SF4 . M SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.56 ? covale ? covale1 L SG CYS 147 M CYS 176 1_555 CB S3 SF4 . M SF4 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.146 ? metalc ? metalc7 L SG CYS 147 M CYS 176 1_555 CB FE1 SF4 . M SF4 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.24 ? metalc ? metalc8 L O CYS 150 M CYS 179 1_555 CB FE1 SF4 . M SF4 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.567 ? metalc ? metalc9 N SG CYS 141 O CYS 176 1_555 EB FE2 FES . O FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.516 ? metalc ? metalc10 N SG CYS 145 O CYS 180 1_555 EB FE2 FES . O FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.608 ? # _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' # _atom_sites.entry_id 5XTD _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 TA 45 SF4 A 1 501 501 SF4 SF4 . UA 46 FMN A 1 502 502 FMN FMN . VA 45 SF4 B 1 301 301 SF4 SF4 . WA 45 SF4 B 1 302 302 SF4 SF4 . XA 47 PLX B 1 303 401 PLX PLX . YA 45 SF4 C 1 301 301 SF4 SF4 . ZA 48 8Q1 E 1 201 201 8Q1 8Q1 . AB 49 NDP J 1 401 401 NDP NDP . BB 45 SF4 M 1 801 801 SF4 SF4 . CB 45 SF4 M 1 802 802 SF4 SF4 . DB 50 FES M 1 803 803 FES FES . EB 50 FES O 1 301 301 FES FES . FB 47 PLX U 1 101 101 PLX PLX . GB 51 CDL V 1 201 201 CDL CDL . HB 52 PEE V 1 202 202 PEE PEE . IB 47 PLX V 1 203 203 PLX PLX . JB 52 PEE W 1 201 201 PEE PEE . KB 47 PLX b 1 201 201 PLX PLX . LB 47 PLX g 1 201 201 PLX PLX . MB 47 PLX g 1 202 202 PLX PLX . NB 47 PLX g 1 203 203 PLX PLX . OB 51 CDL i 1 401 401 CDL CDL . PB 52 PEE l 1 701 701 PEE PEE . QB 52 PEE l 1 702 702 PEE PEE . RB 51 CDL l 1 703 703 CDL CDL . SB 51 CDL l 1 704 704 CDL CDL . TB 51 CDL n 1 101 101 CDL CDL . UB 48 8Q1 p 1 201 201 8Q1 8Q1 . VB 47 PLX r 1 501 501 PLX PLX . WB 47 PLX r 1 502 502 PLX PLX . # 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 . . . UA 46 209.07 141.885 360.747 1 53.86 ? N1 FMN 502 A 1 HETATM 2 C C2 FMN . . . UA 46 208.811 142.08 359.435 1 50.53 ? C2 FMN 502 A 1 HETATM 3 O O2 FMN . . . UA 46 209.693 142.608 358.739 1 39.87 ? O2 FMN 502 A 1 HETATM 4 N N3 FMN . . . UA 46 207.658 141.734 358.85 1 47.75 ? N3 FMN 502 A 1 HETATM 5 C C4 FMN . . . UA 46 206.677 141.159 359.535 1 39.8 ? C4 FMN 502 A 1 HETATM 6 O O4 FMN . . . UA 46 205.622 140.844 358.96 1 37.12 ? O4 FMN 502 A 1 HETATM 7 C C4A FMN . . . UA 46 206.873 140.908 360.981 1 30.06 ? C4A FMN 502 A 1 HETATM 8 N N5 FMN . . . UA 46 205.927 140.333 361.744 1 12.59 ? N5 FMN 502 A 1 HETATM 9 C C5A FMN . . . UA 46 206.145 140.123 363.056 1 33.02 ? C5A FMN 502 A 1 HETATM 10 C C6 FMN . . . UA 46 205.16 139.532 363.827 1 40.71 ? C6 FMN 502 A 1 HETATM 11 C C7 FMN . . . UA 46 205.383 139.313 365.175 1 55.27 ? C7 FMN 502 A 1 HETATM 12 C C7M FMN . . . UA 46 204.309 138.67 366.006 1 61.58 ? C7M FMN 502 A 1 HETATM 13 C C8 FMN . . . UA 46 206.667 139.715 365.794 1 63.17 ? C8 FMN 502 A 1 HETATM 14 C C8M FMN . . . UA 46 206.92 139.482 367.254 1 71.41 ? C8M FMN 502 A 1 HETATM 15 C C9 FMN . . . UA 46 207.65 140.305 365.029 1 55.82 ? C9 FMN 502 A 1 HETATM 16 C C9A FMN . . . UA 46 207.426 140.52 363.685 1 45.2 ? C9A FMN 502 A 1 HETATM 17 N N10 FMN . . . UA 46 208.42 141.117 362.915 1 40.75 ? N10 FMN 502 A 1 HETATM 18 C C10 FMN . . . UA 46 208.165 141.317 361.556 1 45.69 ? C10 FMN 502 A 1 HETATM 19 C C1' FMN . . . UA 46 209.689 141.502 363.525 1 21.62 ? C1' FMN 502 A 1 HETATM 20 C C2' FMN . . . UA 46 209.712 143.001 363.753 1 13.62 ? C2' FMN 502 A 1 HETATM 21 O O2' FMN . . . UA 46 210.221 143.619 362.568 1 7.11 ? O2' FMN 502 A 1 HETATM 22 C C3' FMN . . . UA 46 210.565 143.356 364.965 1 24.7 ? C3' FMN 502 A 1 HETATM 23 O O3' FMN . . . UA 46 211.947 143.489 364.627 1 31.01 ? O3' FMN 502 A 1 HETATM 24 C C4' FMN . . . UA 46 210.461 142.256 366 1 20.68 ? C4' FMN 502 A 1 HETATM 25 O O4' FMN . . . UA 46 209.095 142.138 366.395 1 10.67 ? O4' FMN 502 A 1 HETATM 26 C C5' FMN . . . UA 46 211.333 142.567 367.205 1 35.3 ? C5' FMN 502 A 1 HETATM 27 O O5' FMN . . . UA 46 211.993 141.372 367.613 1 55.76 ? O5' FMN 502 A 1 HETATM 28 P P FMN . . . UA 46 212.631 141.253 369.08 1 33.3 ? P FMN 502 A 1 HETATM 29 O O1P FMN . . . UA 46 213.027 139.806 369.155 1 46.6 ? O1P FMN 502 A 1 HETATM 30 O O2P FMN . . . UA 46 211.496 141.632 369.993 1 26.8 ? O2P FMN 502 A 1 HETATM 31 O O3P FMN . . . UA 46 213.783 142.222 369.093 1 26.8 ? O3P FMN 502 A 1 # _model_server_stats.io_time_ms 27 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 84 _model_server_stats.query_time_ms 578 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 31 #