data_8XNL # _model_server_result.job_id h8lPm1RVAFFuiXVU4xQnww _model_server_result.datetime_utc '2024-12-22 09:04:20' _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 8xnl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"AA","auth_seq_id":501}' # _entry.id 8XNL # _exptl.entry_id 8XNL _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 456.344 _entity.id 27 _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 ? # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details 23-meric _pdbx_struct_assembly.oligomeric_count 23 _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 _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 27 _struct_asym.id AA _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 M SG CYS 24 S CYS 24 1_555 M SG CYS 58 S CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf2 Q SG CYS 78 X CYS 78 1_555 Q SG CYS 110 X CYS 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf3 Q SG CYS 88 X CYS 88 1_555 Q SG CYS 100 X CYS 100 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? metalc ? metalc1 B SG CYS 99 B CYS 99 1_555 Y FE1 SF4 . B SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? metalc ? metalc2 B SG CYS 100 B CYS 100 1_555 Y FE3 SF4 . B SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.087 ? metalc ? metalc3 B O CYS 194 B CYS 194 1_555 Y FE2 SF4 . B SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.734 ? metalc ? metalc4 B SG CYS 194 B CYS 194 1_555 Y FE2 SF4 . B SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.133 ? metalc ? metalc5 E SG CYS 139 E CYS 139 1_555 Z FE1 FES . E FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? metalc ? metalc6 E SG CYS 175 E CYS 175 1_555 Z FE2 FES . E FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? metalc ? metalc7 E SG CYS 179 E CYS 179 1_555 Z FE2 FES . E FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.456 ? metalc ? metalc8 F SG CYS 385 F CYS 385 1_555 BA FE2 SF4 . F SF4 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.674 ? metalc ? metalc9 G O PHE 63 G PHE 63 1_555 EA FE1 FES . G FES 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.307 ? metalc ? metalc10 G SG CYS 64 G CYS 64 1_555 EA FE1 FES . G FES 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.909 ? metalc ? metalc11 G SG CYS 92 G CYS 92 1_555 EA FE2 FES . G FES 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.677 ? metalc ? metalc12 G NE2 HIS 124 G HIS 124 1_555 CA FE1 SF4 . G SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.936 ? metalc ? metalc13 G SG CYS 128 G CYS 128 1_555 CA FE3 SF4 . G SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.222 ? metalc ? metalc14 G SG CYS 137 G CYS 137 1_555 CA FE4 SF4 . G SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.346 ? metalc ? metalc15 G SG CYS 179 G CYS 179 1_555 DA FE3 SF4 . G SF4 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.944 ? metalc ? metalc16 G SG CYS 182 G CYS 182 1_555 DA FE2 SF4 . G SF4 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.103 ? metalc ? metalc17 I SG CYS 116 I CYS 116 1_555 KA FE1 SF4 . I SF4 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? metalc ? metalc18 I SG CYS 119 I CYS 119 1_555 KA FE2 SF4 . I SF4 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? metalc ? metalc19 I SG CYS 158 I CYS 158 1_555 JA FE3 SF4 . I SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.173 ? metalc ? metalc20 L SG CYS 79 R CYS 79 1_555 MA ZN ZN . R ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.181 ? metalc ? metalc21 L SG CYS 104 R CYS 104 1_555 MA ZN ZN . R ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.643 ? metalc ? metalc22 L SG CYS 107 R CYS 107 1_555 MA ZN ZN . R ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? # _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 560 n n N1 C10 FMN doub 561 n n C2 O2 FMN doub 562 n n C2 N3 FMN sing 563 n n N3 C4 FMN sing 564 n n N3 HN3 FMN sing 565 n n C4 O4 FMN doub 566 n n C4 C4A FMN sing 567 n n C4A N5 FMN doub 568 n n C4A C10 FMN sing 569 n n N5 C5A FMN sing 570 n n C5A C6 FMN doub 571 n y C5A C9A FMN sing 572 n y C6 C7 FMN sing 573 n y C6 H6 FMN sing 574 n n C7 C7M FMN sing 575 n n C7 C8 FMN doub 576 n y C7M HM71 FMN sing 577 n n C7M HM72 FMN sing 578 n n C7M HM73 FMN sing 579 n n C8 C8M FMN sing 580 n n C8 C9 FMN sing 581 n y C8M HM81 FMN sing 582 n n C8M HM82 FMN sing 583 n n C8M HM83 FMN sing 584 n n C9 C9A FMN doub 585 n y C9 H9 FMN sing 586 n n C9A N10 FMN sing 587 n n N10 C10 FMN sing 588 n n N10 C1' FMN sing 589 n n C1' C2' FMN sing 590 n n C1' "H1'1" FMN sing 591 n n C1' "H1'2" FMN sing 592 n n C2' O2' FMN sing 593 n n C2' C3' FMN sing 594 n n C2' H2' FMN sing 595 n n O2' HO2' FMN sing 596 n n C3' O3' FMN sing 597 n n C3' C4' FMN sing 598 n n C3' H3' FMN sing 599 n n O3' HO3' FMN sing 600 n n C4' O4' FMN sing 601 n n C4' C5' FMN sing 602 n n C4' H4' FMN sing 603 n n O4' HO4' FMN sing 604 n n C5' O5' FMN sing 605 n n C5' "H5'1" FMN sing 606 n n C5' "H5'2" FMN sing 607 n n O5' P FMN sing 608 n n P O1P FMN doub 609 n n P O2P FMN sing 610 n n P O3P FMN sing 611 n n O2P HOP2 FMN sing 612 n n O3P HOP3 FMN sing 613 n n # _atom_sites.entry_id 8XNL _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 X 24 3PE A 1 401 401 3PE 3PE . Y 25 SF4 B 1 301 236 SF4 SF4 . Z 26 FES E 1 301 332 FES FES . AA 27 FMN F 1 501 521 FMN FMN . BA 25 SF4 F 1 502 522 SF4 SF4 . CA 25 SF4 G 1 801 824 SF4 SF4 . DA 25 SF4 G 1 802 825 SF4 SF4 . EA 26 FES G 1 803 826 FES FES . FA 28 UQ9 H 1 401 400 UQ9 UQ9 . GA 29 PC1 H 1 402 402 PC1 PC1 . HA 24 3PE H 1 403 403 3PE 3PE . IA 29 PC1 I 1 301 404 PC1 PC1 . JA 25 SF4 I 1 302 235 SF4 SF4 . KA 25 SF4 I 1 303 236 SF4 SF4 . LA 30 NDP P 1 401 536 NDP NDP . MA 31 ZN R 1 201 221 ZN ZN . NA 32 EHZ W 1 201 201 EHZ EHZ . OA 24 3PE b 1 201 201 3PE 3PE . PA 33 CDL q 1 201 405 CDL CDL . QA 29 PC1 q 1 202 406 PC1 PC1 . # 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 . . . AA 27 326.115 206.87 263.323 1 51.43 0 N1 FMN 501 F 1 HETATM 2 C C2 FMN . . . AA 27 327.205 206.298 263.885 1 51.43 0 C2 FMN 501 F 1 HETATM 3 O O2 FMN . . . AA 27 327.686 206.827 264.904 1 51.43 0 O2 FMN 501 F 1 HETATM 4 N N3 FMN . . . AA 27 327.784 205.192 263.396 1 51.43 0 N3 FMN 501 F 1 HETATM 5 C C4 FMN . . . AA 27 327.324 204.573 262.306 1 51.43 0 C4 FMN 501 F 1 HETATM 6 O O4 FMN . . . AA 27 327.881 203.545 261.871 1 51.43 0 O4 FMN 501 F 1 HETATM 7 C C4A FMN . . . AA 27 326.133 205.134 261.629 1 51.43 0 C4A FMN 501 F 1 HETATM 8 N N5 FMN . . . AA 27 325.605 204.57 260.527 1 51.43 0 N5 FMN 501 F 1 HETATM 9 C C5A FMN . . . AA 27 324.519 205.109 259.934 1 51.43 0 C5A FMN 501 F 1 HETATM 10 C C6 FMN . . . AA 27 323.992 204.51 258.801 1 51.43 0 C6 FMN 501 F 1 HETATM 11 C C7 FMN . . . AA 27 322.877 205.053 258.182 1 51.43 0 C7 FMN 501 F 1 HETATM 12 C C7M FMN . . . AA 27 322.305 204.404 256.953 1 51.43 0 C7M FMN 501 F 1 HETATM 13 C C8 FMN . . . AA 27 322.244 206.272 258.731 1 51.43 0 C8 FMN 501 F 1 HETATM 14 C C8M FMN . . . AA 27 321.036 206.849 258.047 1 51.43 0 C8M FMN 501 F 1 HETATM 15 C C9 FMN . . . AA 27 322.766 206.878 259.865 1 51.43 0 C9 FMN 501 F 1 HETATM 16 C C9A FMN . . . AA 27 323.882 206.336 260.483 1 51.43 0 C9A FMN 501 F 1 HETATM 17 N N10 FMN . . . AA 27 324.423 206.936 261.632 1 51.43 0 N10 FMN 501 F 1 HETATM 18 C C10 FMN . . . AA 27 325.548 206.349 262.223 1 51.43 0 C10 FMN 501 F 1 HETATM 19 C C1' FMN . . . AA 27 323.838 208.139 262.215 1 51.43 0 C1' FMN 501 F 1 HETATM 20 C C2' FMN . . . AA 27 322.911 207.725 263.342 1 51.43 0 C2' FMN 501 F 1 HETATM 21 O O2' FMN . . . AA 27 321.647 207.346 262.797 1 51.43 0 O2' FMN 501 F 1 HETATM 22 C C3' FMN . . . AA 27 322.704 208.873 264.309 1 51.43 0 C3' FMN 501 F 1 HETATM 23 O O3' FMN . . . AA 27 322.269 210.019 263.578 1 51.43 0 O3' FMN 501 F 1 HETATM 24 C C4' FMN . . . AA 27 324.003 209.193 265.023 1 51.43 0 C4' FMN 501 F 1 HETATM 25 O O4' FMN . . . AA 27 324.576 207.979 265.509 1 51.43 0 O4' FMN 501 F 1 HETATM 26 C C5' FMN . . . AA 27 323.757 210.142 266.185 1 51.43 0 C5' FMN 501 F 1 HETATM 27 O O5' FMN . . . AA 27 324.955 210.275 266.94 1 51.43 0 O5' FMN 501 F 1 HETATM 28 P P FMN . . . AA 27 325.522 211.737 267.279 1 51.43 0 P FMN 501 F 1 HETATM 29 O O1P FMN . . . AA 27 325.8 212.327 265.921 1 51.43 0 O1P FMN 501 F 1 HETATM 30 O O2P FMN . . . AA 27 324.402 212.403 268.034 1 51.43 -1 O2P FMN 501 F 1 HETATM 31 O O3P FMN . . . AA 27 326.749 211.46 268.107 1 51.43 0 O3P FMN 501 F 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 69 _model_server_stats.query_time_ms 338 _model_server_stats.encode_time_ms 13 _model_server_stats.element_count 31 #