data_6U9H # _model_server_result.job_id NsAiIoAUC0MS8wNYQKE2xw _model_server_result.datetime_utc '2024-11-04 23:21:35' _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 6u9h # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"HA","auth_seq_id":703}' # _entry.id 6U9H # _exptl.entry_id 6U9H _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 425.314 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'THIAMINE DIPHOSPHATE' _entity.pdbx_number_of_molecules 8 _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 6U9H _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 6U9H _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 hexadecameric _pdbx_struct_assembly.oligomeric_count 16 _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 _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 S N N ? 5 V N N ? 5 Y N N ? 5 BA N N ? 5 EA N N ? 5 HA N N ? 5 KA N N ? 5 NA 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 metalc ? metalc1 A N ASP 454 A ASP 538 1_555 Q MG MG . A MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? metalc ? metalc2 A OD1 ASP 454 A ASP 538 1_555 Q MG MG . A MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? metalc ? metalc3 Q MG MG . A MG 701 1_555 S O2A TPP . A TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? metalc ? metalc4 Q MG MG . A MG 701 1_555 S O3A TPP . A TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.152 ? metalc ? metalc5 Q MG MG . A MG 701 1_555 S O2B TPP . A TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.534 ? metalc ? metalc6 Q MG MG . A MG 701 1_555 S O1B TPP . A TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? metalc ? metalc7 B O HIS 483 B HIS 567 1_555 T MG MG . B MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.685 ? metalc ? metalc8 T MG MG . B MG 701 1_555 V O1B TPP . B TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.147 ? metalc ? metalc9 T MG MG . B MG 701 1_555 V O1A TPP . B TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? metalc ? metalc10 T MG MG . B MG 701 1_555 V O3B TPP . B TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.926 ? metalc ? metalc11 T MG MG . B MG 701 1_555 V O3A TPP . B TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.136 ? metalc ? metalc12 E N ASP 454 H ASP 538 1_555 W MG MG . H MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.103 ? metalc ? metalc13 E OD1 ASP 454 H ASP 538 1_555 W MG MG . H MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? metalc ? metalc14 W MG MG . H MG 701 1_555 Y O2A TPP . H TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.099 ? metalc ? metalc15 W MG MG . H MG 701 1_555 Y O2B TPP . H TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.395 ? metalc ? metalc16 W MG MG . H MG 701 1_555 Y O1B TPP . H TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.53 ? metalc ? metalc17 W MG MG . H MG 701 1_555 Y O3A TPP . H TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.13 ? metalc ? metalc18 F O HIS 483 I HIS 567 1_555 Z MG MG . I MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.741 ? metalc ? metalc19 Z MG MG . I MG 701 1_555 BA O1B TPP . I TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.179 ? metalc ? metalc20 Z MG MG . I MG 701 1_555 BA O1A TPP . I TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? metalc ? metalc21 Z MG MG . I MG 701 1_555 BA O3A TPP . I TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.124 ? metalc ? metalc22 Z MG MG . I MG 701 1_555 BA O3B TPP . I TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.892 ? metalc ? metalc23 I N ASP 454 L ASP 538 1_555 CA MG MG . L MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.125 ? metalc ? metalc24 I OD1 ASP 454 L ASP 538 1_555 CA MG MG . L MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? metalc ? metalc25 CA MG MG . L MG 701 1_555 EA O3A TPP . L TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.076 ? metalc ? metalc26 CA MG MG . L MG 701 1_555 EA O1B TPP . L TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.629 ? metalc ? metalc27 CA MG MG . L MG 701 1_555 EA O2B TPP . L TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.462 ? metalc ? metalc28 CA MG MG . L MG 701 1_555 EA O2A TPP . L TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.114 ? metalc ? metalc29 J O HIS 483 M HIS 567 1_555 FA MG MG . M MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.677 ? metalc ? metalc30 FA MG MG . M MG 701 1_555 HA O1A TPP . M TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.079 ? metalc ? metalc31 FA MG MG . M MG 701 1_555 HA O1B TPP . M TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.151 ? metalc ? metalc32 FA MG MG . M MG 701 1_555 HA O3A TPP . M TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.135 ? metalc ? metalc33 FA MG MG . M MG 701 1_555 HA O3B TPP . M TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.909 ? metalc ? metalc34 M N ASP 454 P ASP 538 1_555 IA MG MG . P MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? metalc ? metalc35 M OD1 ASP 454 P ASP 538 1_555 IA MG MG . P MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? metalc ? metalc36 IA MG MG . P MG 701 1_555 KA O2B TPP . P TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.659 ? metalc ? metalc37 IA MG MG . P MG 701 1_555 KA O2A TPP . P TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? metalc ? metalc38 IA MG MG . P MG 701 1_555 KA O3A TPP . P TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.136 ? metalc ? metalc39 IA MG MG . P MG 701 1_555 KA O1B TPP . P TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.137 ? metalc ? metalc40 N O HIS 483 Q HIS 567 1_555 LA MG MG . Q MG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.74 ? metalc ? metalc41 LA MG MG . Q MG 701 1_555 NA O1A TPP . Q TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.08 ? metalc ? metalc42 LA MG MG . Q MG 701 1_555 NA O1B TPP . Q TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.185 ? metalc ? metalc43 LA MG MG . Q MG 701 1_555 NA O3A TPP . Q TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.121 ? metalc ? metalc44 LA MG MG . Q MG 701 1_555 NA O3B TPP . Q TPP 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.887 ? # _chem_comp.formula 'C12 H19 N4 O7 P2 S 1' _chem_comp.formula_weight 425.314 _chem_comp.id TPP _chem_comp.mon_nstd_flag . _chem_comp.name 'THIAMINE DIPHOSPHATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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' TPP doub 395 n y N1' C6' TPP sing 396 n y C2' CM2 TPP sing 397 n n C2' N3' TPP sing 398 n y CM2 HM21 TPP sing 399 n n CM2 HM22 TPP sing 400 n n CM2 HM23 TPP sing 401 n n N3' C4' TPP doub 402 n y C4' N4' TPP sing 403 n n C4' C5' TPP sing 404 n y N4' HN41 TPP sing 405 n n N4' HN42 TPP sing 406 n n C5' C6' TPP doub 407 n y C5' C7' TPP sing 408 n n C6' H6' TPP sing 409 n n C7' N3 TPP sing 410 n n C7' "H7'1" TPP sing 411 n n C7' "H7'2" TPP sing 412 n n N3 C2 TPP doub 413 n y N3 C4 TPP sing 414 n y C2 S1 TPP sing 415 n y C2 H2 TPP sing 416 n n S1 C5 TPP sing 417 n y C5 C4 TPP doub 418 n y C5 C6 TPP sing 419 n n C4 CM4 TPP sing 420 n n CM4 HM41 TPP sing 421 n n CM4 HM42 TPP sing 422 n n CM4 HM43 TPP sing 423 n n C6 C7 TPP sing 424 n n C6 H61 TPP sing 425 n n C6 H62 TPP sing 426 n n C7 O7 TPP sing 427 n n C7 H71 TPP sing 428 n n C7 H72 TPP sing 429 n n O7 PA TPP sing 430 n n PA O1A TPP doub 431 n n PA O2A TPP sing 432 n n PA O3A TPP sing 433 n n O2A HOA2 TPP sing 434 n n O3A PB TPP sing 435 n n PB O1B TPP doub 436 n n PB O2B TPP sing 437 n n PB O3B TPP sing 438 n n O2B HOB2 TPP sing 439 n n O3B HOB3 TPP sing 440 n n # _atom_sites.entry_id 6U9H _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 Q 3 MG A 1 701 22 MG MG . R 4 FAD A 1 702 722 FAD FAD . S 5 TPP A 1 703 724 TPP TPP . T 3 MG B 1 701 21 MG MG . U 4 FAD B 1 702 721 FAD FAD . V 5 TPP B 1 703 723 TPP TPP . W 3 MG H 1 701 24 MG MG . X 4 FAD H 1 702 724 FAD FAD . Y 5 TPP H 1 703 726 TPP TPP . Z 3 MG I 1 701 23 MG MG . AA 4 FAD I 1 702 723 FAD FAD . BA 5 TPP I 1 703 725 TPP TPP . CA 3 MG L 1 701 26 MG MG . DA 4 FAD L 1 702 726 FAD FAD . EA 5 TPP L 1 703 728 TPP TPP . FA 3 MG M 1 701 25 MG MG . GA 4 FAD M 1 702 725 FAD FAD . HA 5 TPP M 1 703 727 TPP TPP . IA 3 MG P 1 701 28 MG MG . JA 4 FAD P 1 702 728 FAD FAD . KA 5 TPP P 1 703 730 TPP TPP . LA 3 MG Q 1 701 27 MG MG . MA 4 FAD Q 1 702 727 FAD FAD . NA 5 TPP Q 1 703 729 TPP TPP . # 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' TPP . . . HA 5 131.475 188.112 195.916 1 106.89 0 N1' TPP 703 M 1 HETATM 2 C C2' TPP . . . HA 5 131.997 188.119 197.122 1 106.89 0 C2' TPP 703 M 1 HETATM 3 C CM2 TPP . . . HA 5 132.506 186.839 197.777 1 106.89 0 CM2 TPP 703 M 1 HETATM 4 N N3' TPP . . . HA 5 132.093 189.23 197.798 1 106.89 0 N3' TPP 703 M 1 HETATM 5 C C4' TPP . . . HA 5 131.677 190.374 197.305 1 106.89 0 C4' TPP 703 M 1 HETATM 6 N N4' TPP . . . HA 5 131.817 191.574 198.111 1 106.89 0 N4' TPP 703 M 1 HETATM 7 C C5' TPP . . . HA 5 131.122 190.419 196.035 1 106.89 0 C5' TPP 703 M 1 HETATM 8 C C6' TPP . . . HA 5 131.043 189.221 195.347 1 106.89 0 C6' TPP 703 M 1 HETATM 9 C C7' TPP . . . HA 5 130.628 191.714 195.41 1 106.89 0 C7' TPP 703 M 1 HETATM 10 N N3 TPP . . . HA 5 129.315 192.012 195.92 1 106.89 0 N3 TPP 703 M 1 HETATM 11 C C2 TPP . . . HA 5 129.068 192.729 197.077 1 106.89 0 C2 TPP 703 M 1 HETATM 12 S S1 TPP . . . HA 5 127.481 192.854 197.308 1 106.89 0 S1 TPP 703 M 1 HETATM 13 C C5 TPP . . . HA 5 126.958 192.073 196.034 1 106.89 0 C5 TPP 703 M 1 HETATM 14 C C4 TPP . . . HA 5 128.056 191.619 195.278 1 106.89 0 C4 TPP 703 M 1 HETATM 15 C CM4 TPP . . . HA 5 127.957 190.822 193.986 1 106.89 0 CM4 TPP 703 M 1 HETATM 16 C C6 TPP . . . HA 5 125.492 191.849 195.687 1 106.89 0 C6 TPP 703 M 1 HETATM 17 C C7 TPP . . . HA 5 124.974 190.529 196.246 1 106.89 0 C7 TPP 703 M 1 HETATM 18 O O7 TPP . . . HA 5 124.171 190.711 197.371 1 106.89 0 O7 TPP 703 M 1 HETATM 19 P PA TPP . . . HA 5 122.947 189.629 197.516 1 106.89 0 PA TPP 703 M 1 HETATM 20 O O1A TPP . . . HA 5 122.552 189.191 196.137 1 106.89 0 O1A TPP 703 M 1 HETATM 21 O O2A TPP . . . HA 5 123.392 188.417 198.288 1 106.89 -1 O2A TPP 703 M 1 HETATM 22 O O3A TPP . . . HA 5 121.672 190.367 198.226 1 106.89 0 O3A TPP 703 M 1 HETATM 23 P PB TPP . . . HA 5 121.486 191.965 197.926 1 106.89 0 PB TPP 703 M 1 HETATM 24 O O1B TPP . . . HA 5 121.835 192.198 196.479 1 106.89 0 O1B TPP 703 M 1 HETATM 25 O O2B TPP . . . HA 5 122.431 192.731 198.812 1 106.89 0 O2B TPP 703 M 1 HETATM 26 O O3B TPP . . . HA 5 120.066 192.382 198.183 1 106.89 -1 O3B TPP 703 M 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 62 _model_server_stats.query_time_ms 290 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 26 #