data_8R3P
#
_model_server_result.job_id            Prwl3B48slKHLtoMjmP1zg 
_model_server_result.datetime_utc      '2024-10-11 02:26:55' 
_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          8r3p 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"I","auth_seq_id":701}' 
#
_entry.id    8R3P 
#
_exptl.entry_id    8R3P 
_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    4 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          110.71 
_cell.angle_gamma         90 
_cell.entry_id            8R3P 
_cell.length_a            249.66 
_cell.length_b            68.22 
_cell.length_c            165.46 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8R3P 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    'C 2y' 
_symmetry.space_group_name_H-M     'C 1 2 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 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,E,F,G,H,M,N 1 1 
C,D,I,J,K,L,O,P 2 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 E N N 
? 2 G N N 
? 2 I N N 
? 2 K 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 OD1 ASP 158 A ASP 158 1_555 F MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.876 ? 
metalc ? metalc2 A OD1 ASN 188 A ASN 188 1_555 F MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? 
metalc ? metalc3 A O ILE 190 A ILE 190 1_555 F MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.584 ? 
metalc ? metalc4 E O2A TPP . A TPP 701 1_555 F MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
metalc ? metalc5 E O1B TPP . A TPP 701 1_555 F MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.938 ? 
metalc ? metalc6 E O2B TPP . A TPP 701 1_555 F MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.791 ? 
metalc ? metalc7 B OD1 ASP 158 B ASP 158 1_555 H MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.856 ? 
metalc ? metalc8 B OD1 ASN 188 B ASN 188 1_555 H MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? 
metalc ? metalc9 B O ILE 190 B ILE 190 1_555 H MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.711 ? 
metalc ? metalc10 G O2A TPP . B TPP 701 1_555 H MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.837 ? 
metalc ? metalc11 C OD1 ASP 158 C ASP 158 1_555 J MG MG . C MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.508 ? 
metalc ? metalc12 C OD1 ASN 188 C ASN 188 1_555 J MG MG . C MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.956 ? 
metalc ? metalc13 I O2A TPP . C TPP 701 1_555 J MG MG . C MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.892 ? 
metalc ? metalc14 I O2B TPP . C TPP 701 1_555 J MG MG . C MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.577 ? 
metalc ? metalc15 D OD1 ASP 158 D ASP 158 1_555 L MG MG . D MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.943 ? 
metalc ? metalc16 D OD1 ASN 188 D ASN 188 1_555 L MG MG . D MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.336 ? 
metalc ? metalc17 K O2A TPP . D TPP 701 1_555 L MG MG . D MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.902 ? 
metalc ? metalc18 K O2B TPP . D TPP 701 1_555 L MG MG . D MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.684 ? 
#
_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 306 n y 
N1' C6' TPP sing 307 n y 
C2' CM2 TPP sing 308 n n 
C2' N3' TPP sing 309 n y 
CM2 HM21 TPP sing 310 n n 
CM2 HM22 TPP sing 311 n n 
CM2 HM23 TPP sing 312 n n 
N3' C4' TPP doub 313 n y 
C4' N4' TPP sing 314 n n 
C4' C5' TPP sing 315 n y 
N4' HN41 TPP sing 316 n n 
N4' HN42 TPP sing 317 n n 
C5' C6' TPP doub 318 n y 
C5' C7' TPP sing 319 n n 
C6' H6' TPP sing 320 n n 
C7' N3 TPP sing 321 n n 
C7' "H7'1" TPP sing 322 n n 
C7' "H7'2" TPP sing 323 n n 
N3 C2 TPP doub 324 n y 
N3 C4 TPP sing 325 n y 
C2 S1 TPP sing 326 n y 
C2 H2 TPP sing 327 n n 
S1 C5 TPP sing 328 n y 
C5 C4 TPP doub 329 n y 
C5 C6 TPP sing 330 n n 
C4 CM4 TPP sing 331 n n 
CM4 HM41 TPP sing 332 n n 
CM4 HM42 TPP sing 333 n n 
CM4 HM43 TPP sing 334 n n 
C6 C7 TPP sing 335 n n 
C6 H61 TPP sing 336 n n 
C6 H62 TPP sing 337 n n 
C7 O7 TPP sing 338 n n 
C7 H71 TPP sing 339 n n 
C7 H72 TPP sing 340 n n 
O7 PA TPP sing 341 n n 
PA O1A TPP doub 342 n n 
PA O2A TPP sing 343 n n 
PA O3A TPP sing 344 n n 
O2A HOA2 TPP sing 345 n n 
O3A PB TPP sing 346 n n 
PB O1B TPP doub 347 n n 
PB O2B TPP sing 348 n n 
PB O3B TPP sing 349 n n 
O2B HOB2 TPP sing 350 n n 
O3B HOB3 TPP sing 351 n n 
#
_atom_sites.entry_id                     8R3P 
_atom_sites.fract_transf_matrix[1][1]    0.004005 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001514 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.014658 
_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]    0.006461 
_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
E 2 TPP A 1 701 701 TPP TPP . 
F 3 MG A 1 702 1 MG MG . 
G 2 TPP B 1 701 701 TPP TPP . 
H 3 MG B 1 702 2 MG MG . 
I 2 TPP C 1 701 701 TPP TPP . 
J 3 MG C 1 702 3 MG MG . 
K 2 TPP D 1 701 701 TPP TPP . 
L 3 MG D 1 702 4 MG MG . 
M 4 HOH A 1 801 2 HOH HOH . 
M 4 HOH A 2 802 4 HOH HOH . 
N 4 HOH B 1 801 14 HOH HOH . 
N 4 HOH B 2 802 9 HOH HOH . 
N 4 HOH B 3 803 13 HOH HOH . 
N 4 HOH B 4 804 3 HOH HOH . 
N 4 HOH B 5 805 10 HOH HOH . 
N 4 HOH B 6 806 7 HOH HOH . 
O 4 HOH C 1 801 6 HOH HOH . 
O 4 HOH C 2 802 5 HOH HOH . 
P 4 HOH D 1 801 11 HOH HOH . 
P 4 HOH D 2 802 8 HOH HOH . 
P 4 HOH D 3 803 1 HOH HOH . 
P 4 HOH D 4 804 15 HOH HOH . 
P 4 HOH D 5 805 12 HOH HOH . 
#
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 . . . I 2 79.363 -19.862 24.18 1 75.26 ? N1' TPP 701 C 1 
HETATM 2 C C2' TPP . . . I 2 80.595 -19.324 24.114 1 77.06 ? C2' TPP 701 C 1 
HETATM 3 C CM2 TPP . . . I 2 80.695 -17.837 24.214 1 67.91 ? CM2 TPP 701 C 1 
HETATM 4 N N3' TPP . . . I 2 81.737 -20.009 23.99 1 77.47 ? N3' TPP 701 C 1 
HETATM 5 C C4' TPP . . . I 2 81.659 -21.347 23.912 1 77.08 ? C4' TPP 701 C 1 
HETATM 6 N N4' TPP . . . I 2 82.811 -22.009 23.782 1 83.45 ? N4' TPP 701 C 1 
HETATM 7 C C5' TPP . . . I 2 80.404 -22.014 23.97 1 70.96 ? C5' TPP 701 C 1 
HETATM 8 C C6' TPP . . . I 2 79.304 -21.196 24.098 1 71.48 ? C6' TPP 701 C 1 
HETATM 9 C C7' TPP . . . I 2 80.268 -23.505 23.866 1 77.39 ? C7' TPP 701 C 1 
HETATM 10 N N3 TPP . . . I 2 80.609 -24.024 22.523 1 78.84 ? N3 TPP 701 C 1 
HETATM 11 C C2 TPP . . . I 2 81.824 -24.39 22.156 1 71.21 ? C2 TPP 701 C 1 
HETATM 12 S S1 TPP . . . I 2 81.877 -24.904 20.563 1 80.45 ? S1 TPP 701 C 1 
HETATM 13 C C5 TPP . . . I 2 80.187 -24.614 20.37 1 83.22 ? C5 TPP 701 C 1 
HETATM 14 C C4 TPP . . . I 2 79.648 -24.133 21.519 1 78.09 ? C4 TPP 701 C 1 
HETATM 15 C CM4 TPP . . . I 2 78.227 -23.752 21.775 1 63.29 ? CM4 TPP 701 C 1 
HETATM 16 C C6 TPP . . . I 2 79.504 -24.912 19.066 1 78.08 ? C6 TPP 701 C 1 
HETATM 17 C C7 TPP . . . I 2 79.825 -23.92 17.974 1 85.1 ? C7 TPP 701 C 1 
HETATM 18 O O7 TPP . . . I 2 80.007 -24.665 16.74 1 86.54 ? O7 TPP 701 C 1 
HETATM 19 P PA TPP . . . I 2 81.31 -24.626 15.842 1 79.34 ? PA TPP 701 C 1 
HETATM 20 O O1A TPP . . . I 2 82.178 -23.471 16.15 1 72.99 ? O1A TPP 701 C 1 
HETATM 21 O O2A TPP . . . I 2 80.844 -24.737 14.408 1 77.4 ? O2A TPP 701 C 1 
HETATM 22 O O3A TPP . . . I 2 82.021 -25.963 16.244 1 77.81 ? O3A TPP 701 C 1 
HETATM 23 P PB TPP . . . I 2 82.741 -27.198 15.561 1 81.23 ? PB TPP 701 C 1 
HETATM 24 O O1B TPP . . . I 2 83.557 -27.936 16.601 1 76.68 ? O1B TPP 701 C 1 
HETATM 25 O O2B TPP . . . I 2 83.559 -26.613 14.409 1 87 ? O2B TPP 701 C 1 
HETATM 26 O O3B TPP . . . I 2 81.58 -28.015 14.953 1 81.38 ? O3B TPP 701 C 1 
#
_model_server_stats.io_time_ms              0 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    21 
_model_server_stats.query_time_ms           294 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           26 
#