data_2O1X # _model_server_result.job_id WMEBqYk0HtTNaag3WLqwwQ _model_server_result.datetime_utc '2024-11-05 01:18:36' _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 2o1x # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":1001}' # _entry.id 2O1X # _exptl.entry_id 2O1X _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 425.314 _entity.id 3 _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 98.91 _cell.angle_gamma 90 _cell.entry_id 2O1X _cell.length_a 78.261 _cell.length_b 154.062 _cell.length_c 124.881 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2O1X _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _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 PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_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 1 1 C,D,I,J,K,L 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 ? 3 F N N ? 3 H N N ? 3 J N N ? 3 L 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 154 A ASP 154 1_555 E MG MG . A MG 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.076 ? metalc ? metalc2 A ND2 ASN 183 A ASN 183 1_555 E MG MG . A MG 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? metalc ? metalc3 A O MET 185 A MET 185 1_555 E MG MG . A MG 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.521 ? metalc ? metalc4 F O2B TPP . A TPP 1001 1_555 E MG MG . A MG 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.933 ? metalc ? metalc5 F O1A TPP . A TPP 1001 1_555 E MG MG . A MG 2001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.228 ? metalc ? metalc6 B OD2 ASP 154 B ASP 154 1_555 G MG MG . B MG 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.988 ? metalc ? metalc7 B ND2 ASN 183 B ASN 183 1_555 G MG MG . B MG 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.876 ? metalc ? metalc8 B O MET 185 B MET 185 1_555 G MG MG . B MG 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.334 ? metalc ? metalc9 H O3B TPP . B TPP 1002 1_555 G MG MG . B MG 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.804 ? metalc ? metalc10 H O2A TPP . B TPP 1002 1_555 G MG MG . B MG 2002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? metalc ? metalc11 C OD2 ASP 154 C ASP 154 1_555 I MG MG . C MG 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.946 ? metalc ? metalc12 C OD1 ASN 183 C ASN 183 1_555 I MG MG . C MG 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.001 ? metalc ? metalc13 J O1B TPP . C TPP 1003 1_555 I MG MG . C MG 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.48 ? metalc ? metalc14 J O1A TPP . C TPP 1003 1_555 I MG MG . C MG 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.248 ? metalc ? metalc15 D OD2 ASP 154 D ASP 154 1_555 K MG MG . D MG 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.739 ? metalc ? metalc16 D OD1 ASN 183 D ASN 183 1_555 K MG MG . D MG 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.855 ? metalc ? metalc17 D O MET 185 D MET 185 1_555 K MG MG . D MG 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.406 ? metalc ? metalc18 L O2A TPP . D TPP 1004 1_555 K MG MG . D MG 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.35 ? metalc ? metalc19 L O1B TPP . D TPP 1004 1_555 K MG MG . D MG 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.966 ? # _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 304 n y N1' C6' TPP sing 305 n y C2' CM2 TPP sing 306 n n C2' N3' TPP sing 307 n y CM2 HM21 TPP sing 308 n n CM2 HM22 TPP sing 309 n n CM2 HM23 TPP sing 310 n n N3' C4' TPP doub 311 n y C4' N4' TPP sing 312 n n C4' C5' TPP sing 313 n y N4' HN41 TPP sing 314 n n N4' HN42 TPP sing 315 n n C5' C6' TPP doub 316 n y C5' C7' TPP sing 317 n n C6' H6' TPP sing 318 n n C7' N3 TPP sing 319 n n C7' "H7'1" TPP sing 320 n n C7' "H7'2" TPP sing 321 n n N3 C2 TPP doub 322 n y N3 C4 TPP sing 323 n y C2 S1 TPP sing 324 n y C2 H2 TPP sing 325 n n S1 C5 TPP sing 326 n y C5 C4 TPP doub 327 n y C5 C6 TPP sing 328 n n C4 CM4 TPP sing 329 n n CM4 HM41 TPP sing 330 n n CM4 HM42 TPP sing 331 n n CM4 HM43 TPP sing 332 n n C6 C7 TPP sing 333 n n C6 H61 TPP sing 334 n n C6 H62 TPP sing 335 n n C7 O7 TPP sing 336 n n C7 H71 TPP sing 337 n n C7 H72 TPP sing 338 n n O7 PA TPP sing 339 n n PA O1A TPP doub 340 n n PA O2A TPP sing 341 n n PA O3A TPP sing 342 n n O2A HOA2 TPP sing 343 n n O3A PB TPP sing 344 n n PB O1B TPP doub 345 n n PB O2B TPP sing 346 n n PB O3B TPP sing 347 n n O2B HOB2 TPP sing 348 n n O3B HOB3 TPP sing 349 n n # _atom_sites.entry_id 2O1X _atom_sites.fract_transf_matrix[1][1] 0.012778 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002003 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006491 _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] 0.008105 _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 MG A 1 2001 2001 MG MG . F 3 TPP A 1 1001 1001 TPP TDP . G 2 MG B 1 2002 2002 MG MG . H 3 TPP B 1 1002 1002 TPP TDP . I 2 MG C 1 2003 2003 MG MG . J 3 TPP C 1 1003 1003 TPP TDP . K 2 MG D 1 2004 2004 MG MG . L 3 TPP D 1 1004 1004 TPP TDP . # 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 . . . F 3 21.113 -0.584 16.68 1 2.58 ? N1' TPP 1001 A 1 HETATM 2 C C2' TPP . . . F 3 21.388 -0.569 17.984 1 2.66 ? C2' TPP 1001 A 1 HETATM 3 C CM2 TPP . . . F 3 22.833 -0.764 18.447 1 2.31 ? CM2 TPP 1001 A 1 HETATM 4 N N3' TPP . . . F 3 20.405 -0.38 18.875 1 2.36 ? N3' TPP 1001 A 1 HETATM 5 C C4' TPP . . . F 3 19.13 -0.212 18.495 1 2.29 ? C4' TPP 1001 A 1 HETATM 6 N N4' TPP . . . F 3 18.196 -0.027 19.428 1 2.04 ? N4' TPP 1001 A 1 HETATM 7 C C5' TPP . . . F 3 18.819 -0.237 17.137 1 2.42 ? C5' TPP 1001 A 1 HETATM 8 C C6' TPP . . . F 3 19.875 -0.421 16.255 1 3.04 ? C6' TPP 1001 A 1 HETATM 9 C C7' TPP . . . F 3 17.446 -0.041 16.487 1 2.96 ? C7' TPP 1001 A 1 HETATM 10 N N3 TPP . . . F 3 16.37 -0.894 17.018 1 3.43 ? N3 TPP 1001 A 1 HETATM 11 C C2 TPP . . . F 3 15.566 -0.453 18.018 1 3.67 ? C2 TPP 1001 A 1 HETATM 12 S S1 TPP . . . F 3 14.421 -1.757 18.343 1 5.91 ? S1 TPP 1001 A 1 HETATM 13 C C5 TPP . . . F 3 15.029 -2.783 17.126 1 3.67 ? C5 TPP 1001 A 1 HETATM 14 C C4 TPP . . . F 3 16.096 -2.134 16.516 1 3.05 ? C4 TPP 1001 A 1 HETATM 15 C CM4 TPP . . . F 3 16.846 -2.814 15.377 1 2.71 ? CM4 TPP 1001 A 1 HETATM 16 C C6 TPP . . . F 3 14.433 -4.14 16.834 1 3.36 ? C6 TPP 1001 A 1 HETATM 17 C C7 TPP . . . F 3 14.444 -4.995 18.065 1 3.02 ? C7 TPP 1001 A 1 HETATM 18 O O7 TPP . . . F 3 14.244 -6.312 17.629 1 2.39 ? O7 TPP 1001 A 1 HETATM 19 P PA TPP . . . F 3 13.703 -7.289 18.689 1 2.31 ? PA TPP 1001 A 1 HETATM 20 O O1A TPP . . . F 3 13.355 -8.685 17.9 1 2 ? O1A TPP 1001 A 1 HETATM 21 O O2A TPP . . . F 3 14.587 -7.447 19.861 1 2.12 ? O2A TPP 1001 A 1 HETATM 22 O O3A TPP . . . F 3 12.364 -6.539 19.263 1 3.26 ? O3A TPP 1001 A 1 HETATM 23 P PB TPP . . . F 3 10.828 -6.653 18.769 1 4.02 ? PB TPP 1001 A 1 HETATM 24 O O1B TPP . . . F 3 10.564 -5.488 17.636 1 4.82 ? O1B TPP 1001 A 1 HETATM 25 O O2B TPP . . . F 3 10.609 -8.128 18.083 1 5.42 ? O2B TPP 1001 A 1 HETATM 26 O O3B TPP . . . F 3 9.916 -6.46 19.899 1 4.22 ? O3B TPP 1001 A 1 # _model_server_stats.io_time_ms 38 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 23 _model_server_stats.query_time_ms 273 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 26 #