data_1DTW # _model_server_result.job_id CYwxhPL8nKbfRVpAy2NsDQ _model_server_result.datetime_utc '2024-11-04 18:36:39' _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 1dtw # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":403}' # _entry.id 1DTW # _exptl.entry_id 1DTW _exptl.method 'X-RAY DIFFRACTION' # _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 1 _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 120 _cell.entry_id 1DTW _cell.length_a 143.76 _cell.length_b 143.76 _cell.length_c 69.16 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1DTW _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 5_555 x-y,-y,-z+2/3 1 0 0 0 -1 0 0 0 -1 0 0 46.106667 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id E _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 metalc ? metalc1 A O SER 161 A SER 161 1_555 D K K . A K 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.102 ? metalc ? metalc2 A OG SER 161 A SER 161 1_555 D K K . A K 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.934 ? metalc ? metalc3 A O PRO 163 A PRO 163 1_555 D K K . A K 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.992 ? metalc ? metalc4 A OG1 THR 166 A THR 166 1_555 D K K . A K 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.082 ? metalc ? metalc5 A OE1 GLN 167 A GLN 167 1_555 D K K . A K 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.208 ? metalc ? metalc6 A OE1 GLU 193 A GLU 193 1_555 C MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.458 ? metalc ? metalc7 A OD1 ASN 222 A ASN 222 1_555 C MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.132 ? metalc ? metalc8 A O TYR 224 A TYR 224 1_555 C MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? metalc ? metalc9 C MG MG . A MG 401 1_555 E O1A TPP . A TPP 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.14 ? metalc ? metalc10 C MG MG . A MG 401 1_555 E O1B TPP . A TPP 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.385 ? metalc ? metalc11 C MG MG . A MG 401 1_555 G O HOH . A HOH 417 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.227 ? metalc ? metalc12 B O GLY 128 B GLY 128 1_555 F K K . B K 343 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.764 ? metalc ? metalc13 B O LEU 130 B LEU 130 1_555 F K K . B K 343 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.113 ? metalc ? metalc14 B OG1 THR 131 B THR 131 1_555 F K K . B K 343 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.374 ? metalc ? metalc15 B O CYS 178 B CYS 178 1_555 F K K . B K 343 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.086 ? metalc ? metalc16 B O ASP 181 B ASP 181 1_555 F K K . B K 343 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.023 ? metalc ? metalc17 B O ASN 183 B ASN 183 1_555 F K K . B K 343 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.954 ? metalc ? metalc18 F K K . B K 343 1_555 H O HOH . B HOH 364 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.67 ? # _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 1DTW _atom_sites.fract_transf_matrix[1][1] 0.006956 _atom_sites.fract_transf_matrix[1][2] 0.004016 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008032 _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] 0.014459 _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 C 3 MG A 1 401 1 MG MG . D 4 K A 1 402 1 K POT . E 5 TPP A 1 403 1 TPP TDP . F 4 K B 1 343 2 K POT . G 6 HOH A 1 404 3 HOH WAT . G 6 HOH A 2 405 5 HOH WAT . G 6 HOH A 3 406 6 HOH WAT . G 6 HOH A 4 407 7 HOH WAT . G 6 HOH A 5 408 9 HOH WAT . G 6 HOH A 6 409 10 HOH WAT . G 6 HOH A 7 410 12 HOH WAT . G 6 HOH A 8 411 13 HOH WAT . G 6 HOH A 9 412 20 HOH WAT . G 6 HOH A 10 413 21 HOH WAT . G 6 HOH A 11 414 22 HOH WAT . G 6 HOH A 12 415 23 HOH WAT . G 6 HOH A 13 416 30 HOH WAT . G 6 HOH A 14 417 34 HOH WAT . G 6 HOH A 15 418 36 HOH WAT . G 6 HOH A 16 419 37 HOH WAT . G 6 HOH A 17 420 42 HOH WAT . G 6 HOH A 18 421 43 HOH WAT . G 6 HOH A 19 422 46 HOH WAT . H 6 HOH B 1 344 1 HOH WAT . H 6 HOH B 2 345 2 HOH WAT . H 6 HOH B 3 346 4 HOH WAT . H 6 HOH B 4 347 8 HOH WAT . H 6 HOH B 5 348 11 HOH WAT . H 6 HOH B 6 349 14 HOH WAT . H 6 HOH B 7 350 15 HOH WAT . H 6 HOH B 8 351 16 HOH WAT . H 6 HOH B 9 352 17 HOH WAT . H 6 HOH B 10 353 18 HOH WAT . H 6 HOH B 11 354 19 HOH WAT . H 6 HOH B 12 355 24 HOH WAT . H 6 HOH B 13 356 25 HOH WAT . H 6 HOH B 14 357 26 HOH WAT . H 6 HOH B 15 358 27 HOH WAT . H 6 HOH B 16 359 28 HOH WAT . H 6 HOH B 17 360 29 HOH WAT . H 6 HOH B 18 361 31 HOH WAT . H 6 HOH B 19 362 32 HOH WAT . H 6 HOH B 20 363 33 HOH WAT . H 6 HOH B 21 364 35 HOH WAT . H 6 HOH B 22 365 38 HOH WAT . H 6 HOH B 23 366 39 HOH WAT . H 6 HOH B 24 367 40 HOH WAT . H 6 HOH B 25 368 41 HOH WAT . H 6 HOH B 26 369 44 HOH WAT . H 6 HOH B 27 370 45 HOH WAT . H 6 HOH B 28 371 47 HOH WAT . H 6 HOH B 29 372 48 HOH WAT . # 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 . . . E 5 77.064 0.16 11.7 1 40 ? N1' TPP 403 A 1 HETATM 2 C C2' TPP . . . E 5 77.167 1.458 12.176 1 39.99 ? C2' TPP 403 A 1 HETATM 3 C CM2 TPP . . . E 5 77.242 1.741 13.639 1 40.02 ? CM2 TPP 403 A 1 HETATM 4 N N3' TPP . . . E 5 77.208 2.49 11.352 1 40.03 ? N3' TPP 403 A 1 HETATM 5 C C4' TPP . . . E 5 77.148 2.289 9.976 1 40.04 ? C4' TPP 403 A 1 HETATM 6 N N4' TPP . . . E 5 77.201 3.386 9.229 1 40.03 ? N4' TPP 403 A 1 HETATM 7 C C5' TPP . . . E 5 77.042 0.955 9.435 1 40.08 ? C5' TPP 403 A 1 HETATM 8 C C6' TPP . . . E 5 77.004 -0.048 10.353 1 40.06 ? C6' TPP 403 A 1 HETATM 9 C C7' TPP . . . E 5 76.977 0.674 7.938 1 40.16 ? C7' TPP 403 A 1 HETATM 10 N N3 TPP . . . E 5 75.641 1.149 7.374 1 40.2 ? N3 TPP 403 A 1 HETATM 11 C C2 TPP . . . E 5 75.607 2.306 6.728 1 40.2 ? C2 TPP 403 A 1 HETATM 12 S S1 TPP . . . E 5 74.118 2.756 6.162 1 40.2 ? S1 TPP 403 A 1 HETATM 13 C C5 TPP . . . E 5 73.394 1.31 6.802 1 40.25 ? C5 TPP 403 A 1 HETATM 14 C C4 TPP . . . E 5 74.376 0.539 7.431 1 40.23 ? C4 TPP 403 A 1 HETATM 15 C CM4 TPP . . . E 5 74.122 -0.769 8.092 1 40.19 ? CM4 TPP 403 A 1 HETATM 16 C C6 TPP . . . E 5 71.912 1.051 6.634 1 40.29 ? C6 TPP 403 A 1 HETATM 17 C C7 TPP . . . E 5 70.97 2.222 6.417 1 40.3 ? C7 TPP 403 A 1 HETATM 18 O O7 TPP . . . E 5 69.854 2.189 7.294 1 40.25 ? O7 TPP 403 A 1 HETATM 19 P PA TPP . . . E 5 68.54 3.107 7.515 1 40.26 ? PA TPP 403 A 1 HETATM 20 O O1A TPP . . . E 5 67.32 2.405 7.145 1 40.22 ? O1A TPP 403 A 1 HETATM 21 O O2A TPP . . . E 5 68.639 3.646 8.906 1 40.19 ? O2A TPP 403 A 1 HETATM 22 O O3A TPP . . . E 5 68.84 4.342 6.543 1 40.19 ? O3A TPP 403 A 1 HETATM 23 P PB TPP . . . E 5 68.686 4.695 4.948 1 40.16 ? PB TPP 403 A 1 HETATM 24 O O1B TPP . . . E 5 67.919 3.5 4.402 1 40.12 ? O1B TPP 403 A 1 HETATM 25 O O2B TPP . . . E 5 67.763 5.908 4.866 1 40.05 ? O2B TPP 403 A 1 HETATM 26 O O3B TPP . . . E 5 70.035 4.719 4.422 1 40.13 ? O3B TPP 403 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 28 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 26 #