data_8SC6 # _model_server_result.job_id M4zrOIzBp5oDKcgE0-yidA _model_server_result.datetime_utc '2025-07-01 23:51:15' _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 8sc6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":601}' # _entry.id 8SC6 # _exptl.entry_id 8SC6 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 265.355 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 3-(4-AMINO-2-METHYL-PYRIMIDIN-5-YLMETHYL)-5-(2-HYDROXY-ETHYL)-4-METHYL-THIAZOL-3-IUM _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 90 _cell.entry_id 8SC6 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8SC6 _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 monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B _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 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 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _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 disulf ? disulf1 A SG CYS 50 A CYS 50 1_555 A SG CYS 121 A CYS 121 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf2 A SG CYS 62 A CYS 62 1_555 A SG CYS 102 A CYS 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 A SG CYS 88 A CYS 88 1_555 A SG CYS 142 A CYS 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? # _chem_comp.formula 'C12 H17 N4 O S 1' _chem_comp.formula_weight 265.355 _chem_comp.id VIB _chem_comp.mon_nstd_flag . _chem_comp.name 3-(4-AMINO-2-METHYL-PYRIMIDIN-5-YLMETHYL)-5-(2-HYDROXY-ETHYL)-4-METHYL-THIAZOL-3-IUM _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'THIAMIN;VITAMIN B1' # 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 CM2 C2A VIB sing 374 n n CM2 HM21 VIB sing 375 n n CM2 HM22 VIB sing 376 n n CM2 HM23 VIB sing 377 n n N4A C4A VIB sing 378 n n N4A H4A1 VIB sing 379 n n N4A H4A2 VIB sing 380 n n CM4 C4 VIB sing 381 n n CM4 HM41 VIB sing 382 n n CM4 HM42 VIB sing 383 n n CM4 HM43 VIB sing 384 n n O1 C7 VIB sing 385 n n O1 HO1 VIB sing 386 n n C7 C6 VIB sing 387 n n C7 HC71 VIB sing 388 n n C7 HC72 VIB sing 389 n n C6 C5 VIB sing 390 n n C6 HC61 VIB sing 391 n n C6 HC62 VIB sing 392 n n C2 S1 VIB sing 393 n y C2 N3 VIB doub 394 n y C2 HC2 VIB sing 395 n n S1 C5 VIB sing 396 n y C5 C4 VIB doub 397 n y C4 N3 VIB sing 398 n y N3 C7A VIB sing 399 n n C7A C5A VIB sing 400 n n C7A H7A1 VIB sing 401 n n C7A H7A2 VIB sing 402 n n C4A N3A VIB sing 403 n y C4A C5A VIB doub 404 n y N3A C2A VIB doub 405 n y C2A N1A VIB sing 406 n y N1A C6A VIB doub 407 n y C6A C5A VIB sing 408 n y C6A H6AC VIB sing 409 n n # _atom_sites.entry_id 8SC6 _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 # _pdbx_nonpoly_scheme.asym_id B _pdbx_nonpoly_scheme.entity_id 2 _pdbx_nonpoly_scheme.mon_id VIB _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 601 _pdbx_nonpoly_scheme.auth_seq_num 601 _pdbx_nonpoly_scheme.pdb_mon_id VIB _pdbx_nonpoly_scheme.auth_mon_id VIB _pdbx_nonpoly_scheme.pdb_ins_code . # 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 C CM2 VIB . . . B 2 111.197 105.53 107.291 1 64.53 ? CM2 VIB 601 A 1 HETATM 2 N N4A VIB . . . B 2 113.008 102.578 104.128 1 66.83 ? N4A VIB 601 A 1 HETATM 3 C CM4 VIB . . . B 2 109.951 99.686 104.155 1 66 ? CM4 VIB 601 A 1 HETATM 4 O O1 VIB . . . B 2 109.068 96.038 104.089 1 64.32 ? O1 VIB 601 A 1 HETATM 5 C C7 VIB . . . B 2 108.172 96.133 105.167 1 64.32 ? C7 VIB 601 A 1 HETATM 6 C C6 VIB . . . B 2 108.085 97.597 105.585 1 66.42 ? C6 VIB 601 A 1 HETATM 7 C C2 VIB . . . B 2 111.416 98.589 107.323 1 71.35 ? C2 VIB 601 A 1 HETATM 8 S S1 VIB . . . B 2 110.086 97.606 107.547 1 84.63 ? S1 VIB 601 A 1 HETATM 9 C C5 VIB . . . B 2 109.398 98.12 106.058 1 73.47 ? C5 VIB 601 A 1 HETATM 10 C C4 VIB . . . B 2 110.211 99.022 105.454 1 72.32 ? C4 VIB 601 A 1 HETATM 11 N N3 VIB . . . B 2 111.352 99.269 106.2 1 74.62 ? N3 VIB 601 A 1 HETATM 12 C C7A VIB . . . B 2 112.427 100.2 105.798 1 68.18 ? C7A VIB 601 A 1 HETATM 13 C C4A VIB . . . B 2 112.413 102.716 105.328 1 68.68 ? C4A VIB 601 A 1 HETATM 14 N N3A VIB . . . B 2 112.11 103.958 105.71 1 69.28 ? N3A VIB 601 A 1 HETATM 15 C C2A VIB . . . B 2 111.527 104.131 106.883 1 70.87 ? C2A VIB 601 A 1 HETATM 16 N N1A VIB . . . B 2 111.207 103.163 107.737 1 72.97 ? N1A VIB 601 A 1 HETATM 17 C C6A VIB . . . B 2 111.509 101.93 107.357 1 65.35 ? C6A VIB 601 A 1 HETATM 18 C C5A VIB . . . B 2 112.116 101.616 106.161 1 66.14 ? C5A VIB 601 A 1 # _model_server_stats.io_time_ms 56 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 292 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 18 #