data_8IBE # _model_server_result.job_id y4HUwuFJADwNokqO8i5vgg _model_server_result.datetime_utc '2024-11-05 04:57:14' _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 8ibe # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"DA","auth_seq_id":501}' # _entry.id 8IBE # _exptl.entry_id 8IBE _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 456.344 _entity.id 29 _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 29 _struct_asym.id DA _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 Q SG CYS 36 X CYS 36 1_555 Q SG CYS 66 X CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf2 Q SG CYS 46 X CYS 46 1_555 Q SG CYS 56 X CYS 56 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf3 Q SG CYS 78 X CYS 78 1_555 Q SG CYS 110 X CYS 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf4 Q SG CYS 88 X CYS 88 1_555 Q SG CYS 100 X CYS 100 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? metalc ? metalc1 B SG CYS 100 B CYS 100 1_555 Y FE2 SF4 . B SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.992 ? metalc ? metalc2 B SG CYS 164 B CYS 164 1_555 Y FE3 SF4 . B SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.103 ? metalc ? metalc3 B O CYS 194 B CYS 194 1_555 Y FE2 SF4 . B SF4 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.713 ? metalc ? metalc4 E SG CYS 139 E CYS 139 1_555 CA FE1 FES . E FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.96 ? metalc ? metalc5 E SG CYS 175 E CYS 175 1_555 CA FE2 FES . E FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.447 ? metalc ? metalc6 E SG CYS 179 E CYS 179 1_555 CA FE2 FES . E FES 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.087 ? metalc ? metalc7 F SG CYS 385 F CYS 385 1_555 EA FE2 SF4 . F SF4 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.477 ? metalc ? metalc8 G O PHE 63 G PHE 63 1_555 HA FE1 FES . G FES 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.495 ? metalc ? metalc9 G SG CYS 64 G CYS 64 1_555 HA FE1 FES . G FES 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? metalc ? metalc10 G SG CYS 78 G CYS 78 1_555 HA FE2 FES . G FES 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.009 ? metalc ? metalc11 G SG CYS 92 G CYS 92 1_555 HA FE2 FES . G FES 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.529 ? metalc ? metalc12 G NE2 HIS 124 G HIS 124 1_555 FA FE1 SF4 . G SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.963 ? metalc ? metalc13 G SG CYS 128 G CYS 128 1_555 FA FE3 SF4 . G SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.116 ? metalc ? metalc14 G SG CYS 137 G CYS 137 1_555 FA FE4 SF4 . G SF4 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? metalc ? metalc15 I SG CYS 116 I CYS 116 1_555 MA FE4 SF4 . I SF4 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.318 ? metalc ? metalc16 I SG CYS 119 I CYS 119 1_555 MA FE1 SF4 . I SF4 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.999 ? metalc ? metalc17 I SG CYS 158 I CYS 158 1_555 LA FE4 SF4 . I SF4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.326 ? metalc ? metalc18 I SG CYS 162 I CYS 162 1_555 MA FE2 SF4 . I SF4 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.116 ? metalc ? metalc19 L SG CYS 79 R CYS 79 1_555 OA ZN ZN . R ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.346 ? metalc ? metalc20 L NE2 HIS 88 R HIS 88 1_555 OA ZN ZN . R ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.91 ? metalc ? metalc21 L SG CYS 104 R CYS 104 1_555 OA ZN ZN . R ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.327 ? metalc ? metalc22 L SG CYS 107 R CYS 107 1_555 OA ZN ZN . R ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.317 ? # _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 8IBE _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 1 201 201 3PE 3PE . Y 25 SF4 B 1 301 236 SF4 SF4 . Z 26 UQ1 B 1 302 502 UQ1 UQ1 . AA 27 PC1 B 1 303 406 PC1 PC1 . BA 27 PC1 B 1 304 436 PC1 PC1 . CA 28 FES E 1 301 332 FES FES . DA 29 FMN F 1 501 521 FMN FMN . EA 25 SF4 F 1 502 522 SF4 SF4 . FA 25 SF4 G 1 801 824 SF4 SF4 . GA 25 SF4 G 1 802 825 SF4 SF4 . HA 28 FES G 1 803 826 FES FES . IA 30 UQ9 H 1 400 400 UQ9 UQ9 . JA 24 3PE H 1 401 401 3PE 3PE . KA 24 3PE I 1 301 403 3PE 3PE . LA 25 SF4 I 1 302 235 SF4 SF4 . MA 25 SF4 I 1 303 236 SF4 SF4 . NA 31 NDP P 1 401 536 NDP NDP . OA 32 ZN R 1 201 221 ZN ZN . PA 33 EHZ W 1 201 201 EHZ EHZ . QA 34 CDL a 1 101 405 CDL CDL . # 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 . . . DA 29 325.428 204.099 264.02 1 51.43 0 N1 FMN 501 F 1 HETATM 2 C C2 FMN . . . DA 29 326.483 203.498 264.615 1 51.43 0 C2 FMN 501 F 1 HETATM 3 O O2 FMN . . . DA 29 326.986 204.037 265.621 1 51.43 0 O2 FMN 501 F 1 HETATM 4 N N3 FMN . . . DA 29 327.009 202.348 264.171 1 51.43 0 N3 FMN 501 F 1 HETATM 5 C C4 FMN . . . DA 29 326.531 201.712 263.102 1 51.43 0 C4 FMN 501 F 1 HETATM 6 O O4 FMN . . . DA 29 327.032 200.643 262.698 1 51.43 0 O4 FMN 501 F 1 HETATM 7 C C4A FMN . . . DA 29 325.382 202.3 262.395 1 51.43 0 C4A FMN 501 F 1 HETATM 8 N N5 FMN . . . DA 29 324.848 201.712 261.312 1 51.43 0 N5 FMN 501 F 1 HETATM 9 C C5A FMN . . . DA 29 323.798 202.27 260.685 1 51.43 0 C5A FMN 501 F 1 HETATM 10 C C6 FMN . . . DA 29 323.272 201.637 259.573 1 51.43 0 C6 FMN 501 F 1 HETATM 11 C C7 FMN . . . DA 29 322.193 202.194 258.913 1 51.43 0 C7 FMN 501 F 1 HETATM 12 C C7M FMN . . . DA 29 321.623 201.507 257.704 1 51.43 0 C7M FMN 501 F 1 HETATM 13 C C8 FMN . . . DA 29 321.601 203.464 259.396 1 51.43 0 C8 FMN 501 F 1 HETATM 14 C C8M FMN . . . DA 29 320.428 204.058 258.667 1 51.43 0 C8M FMN 501 F 1 HETATM 15 C C9 FMN . . . DA 29 322.126 204.104 260.51 1 51.43 0 C9 FMN 501 F 1 HETATM 16 C C9A FMN . . . DA 29 323.208 203.546 261.174 1 51.43 0 C9A FMN 501 F 1 HETATM 17 N N10 FMN . . . DA 29 323.761 204.172 262.307 1 51.43 0 N10 FMN 501 F 1 HETATM 18 C C10 FMN . . . DA 29 324.85 203.562 262.934 1 51.43 0 C10 FMN 501 F 1 HETATM 19 C C1' FMN . . . DA 29 323.241 205.425 262.846 1 51.43 0 C1' FMN 501 F 1 HETATM 20 C C2' FMN . . . DA 29 322.199 205.108 263.9 1 51.43 0 C2' FMN 501 F 1 HETATM 21 O O2' FMN . . . DA 29 320.926 205.031 263.259 1 51.43 0 O2' FMN 501 F 1 HETATM 22 C C3' FMN . . . DA 29 322.152 206.187 264.966 1 51.43 0 C3' FMN 501 F 1 HETATM 23 O O3' FMN . . . DA 29 321.834 207.439 264.355 1 51.43 0 O3' FMN 501 F 1 HETATM 24 C C4' FMN . . . DA 29 323.495 206.303 265.668 1 51.43 0 C4' FMN 501 F 1 HETATM 25 O O4' FMN . . . DA 29 323.944 204.996 266.035 1 51.43 0 O4' FMN 501 F 1 HETATM 26 C C5' FMN . . . DA 29 323.376 207.182 266.907 1 51.43 0 C5' FMN 501 F 1 HETATM 27 O O5' FMN . . . DA 29 324.656 207.348 267.511 1 51.43 0 O5' FMN 501 F 1 HETATM 28 P P FMN . . . DA 29 325.118 208.811 267.991 1 51.43 0 P FMN 501 F 1 HETATM 29 O O1P FMN . . . DA 29 325.899 209.351 266.82 1 51.43 0 O1P FMN 501 F 1 HETATM 30 O O2P FMN . . . DA 29 323.819 209.528 268.254 1 51.43 -1 O2P FMN 501 F 1 HETATM 31 O O3P FMN . . . DA 29 325.949 208.554 269.223 1 51.43 0 O3P FMN 501 F 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 56 _model_server_stats.query_time_ms 299 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 31 #