data_8R3S
#
_model_server_result.job_id            C5ZH5mEsMptR8R78OqRBJQ 
_model_server_result.datetime_utc      '2024-10-11 02:21:53' 
_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          8r3s 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"W","auth_seq_id":701}' 
#
_entry.id    8R3S 
#
_exptl.entry_id    8R3S 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              425.314 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'THIAMINE DIPHOSPHATE' 
_entity.pdbx_number_of_molecules    10 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          90.2 
_cell.angle_gamma         90 
_cell.entry_id            8R3S 
_cell.length_a            94.9 
_cell.length_b            149.9 
_cell.length_c            253.3 
_cell.Z_PDB               20 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8R3S 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    'P 2yb' 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? dimeric 2 author_defined_assembly 1 
? dimeric 2 author_defined_assembly 2 
? dimeric 2 author_defined_assembly 3 
? dimeric 2 author_defined_assembly 4 
? dimeric 2 author_defined_assembly 5 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,K,L,M,N 1 1 
C,D,O,P,Q,R 2 1 
E,F,S,T,U,V 3 1 
G,H,W,X,Y,Z 4 1 
I,J,AA,BA,CA,DA 5 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    x,y,z 
_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
? 2 K N N 
? 2 M N N 
? 2 O N N 
? 2 Q N N 
? 2 S N N 
? 2 U N N 
? 2 W N N 
? 2 Y N N 
? 2 AA N N 
? 2 CA 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 OD2 ASP 156 A ASP 156 1_555 L MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.919 ? 
metalc ? metalc2 A OD1 ASN 186 A ASN 186 1_555 L MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.411 ? 
metalc ? metalc3 A O ILE 188 A ILE 188 1_555 L MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
metalc ? metalc4 K O2A TPP . A TPP 701 1_555 L MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.261 ? 
metalc ? metalc5 K O3B TPP . A TPP 701 1_555 L MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.97 ? 
metalc ? metalc6 B OD2 ASP 156 B ASP 156 1_555 N MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.903 ? 
metalc ? metalc7 B OD1 ASN 186 B ASN 186 1_555 N MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? 
metalc ? metalc8 B O ILE 188 B ILE 188 1_555 N MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.147 ? 
metalc ? metalc9 M O1A TPP . B TPP 701 1_555 N MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.296 ? 
metalc ? metalc10 C OD1 ASP 156 C ASP 156 1_555 P MG MG . C MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.877 ? 
metalc ? metalc11 C OD1 ASN 186 C ASN 186 1_555 P MG MG . C MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.951 ? 
metalc ? metalc12 C O ILE 188 C ILE 188 1_555 P MG MG . C MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.079 ? 
metalc ? metalc13 O O2A TPP . C TPP 701 1_555 P MG MG . C MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.291 ? 
metalc ? metalc14 D OD2 ASP 156 D ASP 156 1_555 R MG MG . D MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.854 ? 
metalc ? metalc15 D OD1 ASN 186 D ASN 186 1_555 R MG MG . D MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.993 ? 
metalc ? metalc16 D O ILE 188 D ILE 188 1_555 R MG MG . D MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.983 ? 
metalc ? metalc17 Q O2A TPP . D TPP 701 1_555 R MG MG . D MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.093 ? 
metalc ? metalc18 Q O2B TPP . D TPP 701 1_555 R MG MG . D MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.935 ? 
metalc ? metalc19 E OD2 ASP 156 E ASP 156 1_555 T MG MG . E MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.913 ? 
metalc ? metalc20 E OD1 ASN 186 E ASN 186 1_555 T MG MG . E MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.105 ? 
metalc ? metalc21 E O ILE 188 E ILE 188 1_555 T MG MG . E MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.992 ? 
metalc ? metalc22 S O2A TPP . E TPP 701 1_555 T MG MG . E MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.977 ? 
metalc ? metalc23 S O1B TPP . E TPP 701 1_555 T MG MG . E MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.825 ? 
metalc ? metalc24 F OD1 ASP 156 F ASP 156 1_555 V MG MG . F MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.976 ? 
metalc ? metalc25 F OD1 ASN 186 F ASN 186 1_555 V MG MG . F MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.944 ? 
metalc ? metalc26 F O ILE 188 F ILE 188 1_555 V MG MG . F MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.285 ? 
metalc ? metalc27 U O2A TPP . F TPP 701 1_555 V MG MG . F MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.173 ? 
metalc ? metalc28 U O3B TPP . F TPP 701 1_555 V MG MG . F MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.905 ? 
metalc ? metalc29 G OD1 ASP 156 G ASP 156 1_555 X MG MG . G MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.9 ? 
metalc ? metalc30 G OD1 ASN 186 G ASN 186 1_555 X MG MG . G MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.372 ? 
metalc ? metalc31 G O ILE 188 G ILE 188 1_555 X MG MG . G MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.125 ? 
metalc ? metalc32 W O3B TPP . G TPP 701 1_555 X MG MG . G MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.414 ? 
metalc ? metalc33 H OD2 ASP 156 H ASP 156 1_555 Z MG MG . H MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.088 ? 
metalc ? metalc34 H OD1 ASN 186 H ASN 186 1_555 Z MG MG . H MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.93 ? 
metalc ? metalc35 H O ILE 188 H ILE 188 1_555 Z MG MG . H MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.204 ? 
metalc ? metalc36 Y O1A TPP . H TPP 701 1_555 Z MG MG . H MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? 
metalc ? metalc37 I OD2 ASP 156 I ASP 156 1_555 BA MG MG . I MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? 
metalc ? metalc38 I OD1 ASN 186 I ASN 186 1_555 BA MG MG . I MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.941 ? 
metalc ? metalc39 I O ILE 188 I ILE 188 1_555 BA MG MG . I MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.326 ? 
metalc ? metalc40 AA O2A TPP . I TPP 701 1_555 BA MG MG . I MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.185 ? 
metalc ? metalc41 AA O3B TPP . I TPP 701 1_555 BA MG MG . I MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.833 ? 
metalc ? metalc42 J OD2 ASP 156 J ASP 156 1_555 DA MG MG . J MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.001 ? 
metalc ? metalc43 J OD1 ASN 186 J ASN 186 1_555 DA MG MG . J MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? 
metalc ? metalc44 J O ILE 188 J ILE 188 1_555 DA MG MG . J MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.545 ? 
metalc ? metalc45 CA O1A TPP . J TPP 701 1_555 DA MG MG . J MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.763 ? 
metalc ? metalc46 CA O2A TPP . J TPP 701 1_555 DA MG MG . J MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.626 ? 
metalc ? metalc47 CA O3B TPP . J TPP 701 1_555 DA MG MG . J MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.471 ? 
#
_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 291 n y 
N1' C6' TPP sing 292 n y 
C2' CM2 TPP sing 293 n n 
C2' N3' TPP sing 294 n y 
CM2 HM21 TPP sing 295 n n 
CM2 HM22 TPP sing 296 n n 
CM2 HM23 TPP sing 297 n n 
N3' C4' TPP doub 298 n y 
C4' N4' TPP sing 299 n n 
C4' C5' TPP sing 300 n y 
N4' HN41 TPP sing 301 n n 
N4' HN42 TPP sing 302 n n 
C5' C6' TPP doub 303 n y 
C5' C7' TPP sing 304 n n 
C6' H6' TPP sing 305 n n 
C7' N3 TPP sing 306 n n 
C7' "H7'1" TPP sing 307 n n 
C7' "H7'2" TPP sing 308 n n 
N3 C2 TPP doub 309 n y 
N3 C4 TPP sing 310 n y 
C2 S1 TPP sing 311 n y 
C2 H2 TPP sing 312 n n 
S1 C5 TPP sing 313 n y 
C5 C4 TPP doub 314 n y 
C5 C6 TPP sing 315 n n 
C4 CM4 TPP sing 316 n n 
CM4 HM41 TPP sing 317 n n 
CM4 HM42 TPP sing 318 n n 
CM4 HM43 TPP sing 319 n n 
C6 C7 TPP sing 320 n n 
C6 H61 TPP sing 321 n n 
C6 H62 TPP sing 322 n n 
C7 O7 TPP sing 323 n n 
C7 H71 TPP sing 324 n n 
C7 H72 TPP sing 325 n n 
O7 PA TPP sing 326 n n 
PA O1A TPP doub 327 n n 
PA O2A TPP sing 328 n n 
PA O3A TPP sing 329 n n 
O2A HOA2 TPP sing 330 n n 
O3A PB TPP sing 331 n n 
PB O1B TPP doub 332 n n 
PB O2B TPP sing 333 n n 
PB O3B TPP sing 334 n n 
O2B HOB2 TPP sing 335 n n 
O3B HOB3 TPP sing 336 n n 
#
_atom_sites.entry_id                     8R3S 
_atom_sites.fract_transf_matrix[1][1]    0.010537 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000037 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.006671 
_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]    0.003948 
_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
K 2 TPP A 1 701 701 TPP TPP . 
L 3 MG A 1 702 6 MG MG . 
M 2 TPP B 1 701 702 TPP TPP . 
N 3 MG B 1 702 1 MG MG . 
O 2 TPP C 1 701 703 TPP TPP . 
P 3 MG C 1 702 2 MG MG . 
Q 2 TPP D 1 701 704 TPP TPP . 
R 3 MG D 1 702 3 MG MG . 
S 2 TPP E 1 701 705 TPP TPP . 
T 3 MG E 1 702 4 MG MG . 
U 2 TPP F 1 701 706 TPP TPP . 
V 3 MG F 1 702 5 MG MG . 
W 2 TPP G 1 701 707 TPP TPP . 
X 3 MG G 1 702 7 MG MG . 
Y 2 TPP H 1 701 708 TPP TPP . 
Z 3 MG H 1 702 8 MG MG . 
AA 2 TPP I 1 701 709 TPP TPP . 
BA 3 MG I 1 702 9 MG MG . 
CA 2 TPP J 1 701 710 TPP TPP . 
DA 3 MG J 1 702 10 MG MG . 
#
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 . . . W 2 -30.218 39.148 -68.832 1 53.35 ? N1' TPP 701 G 1 
HETATM 2 C C2' TPP . . . W 2 -29.349 38.889 -69.824 1 51.98 ? C2' TPP 701 G 1 
HETATM 3 C CM2 TPP . . . W 2 -27.928 38.635 -69.441 1 41.99 ? CM2 TPP 701 G 1 
HETATM 4 N N3' TPP . . . W 2 -29.647 38.836 -71.127 1 54.05 ? N3' TPP 701 G 1 
HETATM 5 C C4' TPP . . . W 2 -30.923 39.062 -71.489 1 57.35 ? C4' TPP 701 G 1 
HETATM 6 N N4' TPP . . . W 2 -31.202 39.004 -72.795 1 52.62 ? N4' TPP 701 G 1 
HETATM 7 C C5' TPP . . . W 2 -31.925 39.335 -70.511 1 63.01 ? C5' TPP 701 G 1 
HETATM 8 C C6' TPP . . . W 2 -31.483 39.37 -69.207 1 59.33 ? C6' TPP 701 G 1 
HETATM 9 C C7' TPP . . . W 2 -33.362 39.617 -70.857 1 64.72 ? C7' TPP 701 G 1 
HETATM 10 N N3 TPP . . . W 2 -33.65 41.068 -70.942 1 84.74 ? N3 TPP 701 G 1 
HETATM 11 C C2 TPP . . . W 2 -33.824 41.843 -69.889 1 77.75 ? C2 TPP 701 G 1 
HETATM 12 S S1 TPP . . . W 2 -34.101 43.44 -70.312 1 76.48 ? S1 TPP 701 G 1 
HETATM 13 C C5 TPP . . . W 2 -33.97 43.058 -71.991 1 69.39 ? C5 TPP 701 G 1 
HETATM 14 C C4 TPP . . . W 2 -33.716 41.741 -72.162 1 72.22 ? C4 TPP 701 G 1 
HETATM 15 C CM4 TPP . . . W 2 -33.534 41.011 -73.449 1 57.35 ? CM4 TPP 701 G 1 
HETATM 16 C C6 TPP . . . W 2 -34.117 44.123 -73.039 1 77.28 ? C6 TPP 701 G 1 
HETATM 17 C C7 TPP . . . W 2 -32.808 44.797 -73.381 1 86.75 ? C7 TPP 701 G 1 
HETATM 18 O O7 TPP . . . W 2 -32.497 45.76 -72.344 1 86.25 ? O7 TPP 701 G 1 
HETATM 19 P PA TPP . . . W 2 -33.217 47.15 -72.183 1 70.31 ? PA TPP 701 G 1 
HETATM 20 O O1A TPP . . . W 2 -32.213 48.224 -72.029 1 55.78 ? O1A TPP 701 G 1 
HETATM 21 O O2A TPP . . . W 2 -34.24 46.99 -71.064 1 65.4 ? O2A TPP 701 G 1 
HETATM 22 O O3A TPP . . . W 2 -34.005 47.283 -73.559 1 64.75 ? O3A TPP 701 G 1 
HETATM 23 P PB TPP . . . W 2 -35.21 48.093 -74.2 1 80.98 ? PB TPP 701 G 1 
HETATM 24 O O1B TPP . . . W 2 -35.328 47.792 -75.658 1 60.85 ? O1B TPP 701 G 1 
HETATM 25 O O2B TPP . . . W 2 -36.438 47.664 -73.381 1 64.41 ? O2B TPP 701 G 1 
HETATM 26 O O3B TPP . . . W 2 -34.89 49.559 -73.885 1 57.53 ? O3B TPP 701 G 1 
#
_model_server_stats.io_time_ms              59 
_model_server_stats.parse_time_ms           17 
_model_server_stats.create_model_time_ms    68 
_model_server_stats.query_time_ms           291 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           26 
#