data_6U9H
#
_model_server_result.job_id            LYcPjryrMPElZJQL0xXHgQ 
_model_server_result.datetime_utc      '2024-11-28 18:42:13' 
_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":"Y","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 . . . Y 5 231.486 137.314 203.607 1 107.9 0 N1' TPP 703 H 1 
HETATM 2 C C2' TPP . . . Y 5 230.824 137.333 202.479 1 107.9 0 C2' TPP 703 H 1 
HETATM 3 C CM2 TPP . . . Y 5 229.446 136.716 202.422 1 107.9 0 CM2 TPP 703 H 1 
HETATM 4 N N3' TPP . . . Y 5 231.317 137.868 201.398 1 107.9 0 N3' TPP 703 H 1 
HETATM 5 C C4' TPP . . . Y 5 232.503 138.421 201.426 1 107.9 0 C4' TPP 703 H 1 
HETATM 6 N N4' TPP . . . Y 5 233.026 139.009 200.219 1 107.9 0 N4' TPP 703 H 1 
HETATM 7 C C5' TPP . . . Y 5 233.25 138.43 202.587 1 107.9 0 C5' TPP 703 H 1 
HETATM 8 C C6' TPP . . . Y 5 232.681 137.842 203.689 1 107.9 0 C6' TPP 703 H 1 
HETATM 9 C C7' TPP . . . Y 5 234.646 139.021 202.658 1 107.9 0 C7' TPP 703 H 1 
HETATM 10 N N3 TPP . . . Y 5 235.447 137.901 202.23 1 107.9 0 N3 TPP 703 H 1 
HETATM 11 C C2 TPP . . . Y 5 235.731 137.639 200.9 1 107.9 0 C2 TPP 703 H 1 
HETATM 12 S S1 TPP . . . Y 5 236.608 136.305 200.767 1 107.9 0 S1 TPP 703 H 1 
HETATM 13 C C5 TPP . . . Y 5 236.735 135.931 202.291 1 107.9 0 C5 TPP 703 H 1 
HETATM 14 C C4 TPP . . . Y 5 236.051 136.866 203.085 1 107.9 0 C4 TPP 703 H 1 
HETATM 15 C CM4 TPP . . . Y 5 235.974 136.783 204.598 1 107.9 0 CM4 TPP 703 H 1 
HETATM 16 C C6 TPP . . . Y 5 237.494 134.72 202.782 1 107.9 0 C6 TPP 703 H 1 
HETATM 17 C C7 TPP . . . Y 5 237.925 133.882 201.588 1 107.9 0 C7 TPP 703 H 1 
HETATM 18 O O7 TPP . . . Y 5 237.357 132.611 201.673 1 107.9 0 O7 TPP 703 H 1 
HETATM 19 P PA TPP . . . Y 5 236.963 131.902 200.247 1 107.9 0 PA TPP 703 H 1 
HETATM 20 O O1A TPP . . . Y 5 236.063 132.828 199.488 1 107.9 -1 O1A TPP 703 H 1 
HETATM 21 O O2A TPP . . . Y 5 236.236 130.603 200.458 1 107.9 0 O2A TPP 703 H 1 
HETATM 22 O O3A TPP . . . Y 5 238.326 131.669 199.362 1 107.9 0 O3A TPP 703 H 1 
HETATM 23 P PB TPP . . . Y 5 239.79 131.272 199.988 1 107.9 0 PB TPP 703 H 1 
HETATM 24 O O1B TPP . . . Y 5 240.391 130.157 199.177 1 107.9 0 O1B TPP 703 H 1 
HETATM 25 O O2B TPP . . . Y 5 239.609 130.818 201.406 1 107.9 -1 O2B TPP 703 H 1 
HETATM 26 O O3B TPP . . . Y 5 240.662 132.494 199.96 1 107.9 0 O3B TPP 703 H 1 
#
_model_server_stats.io_time_ms              30 
_model_server_stats.parse_time_ms           50 
_model_server_stats.create_model_time_ms    95 
_model_server_stats.query_time_ms           293 
_model_server_stats.encode_time_ms          11 
_model_server_stats.element_count           26 
#