data_2YAU # _model_server_result.job_id '_AzU5x-FCZQPi6KVGiRXjg' _model_server_result.datetime_utc '2024-11-17 10:33:09' _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 2yau # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":650}' # _entry.id 2YAU # _exptl.entry_id 2YAU _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 364.368 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2,3,4,6-tetra-O-acetyl-1-thio-beta-D-glucopyranose _entity.pdbx_number_of_molecules 2 _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 2YAU _cell.length_a 103.058 _cell.length_b 103.058 _cell.length_c 191.604 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2YAU _symmetry.cell_setting ? _symmetry.Int_Tables_number 76 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 41' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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,I,J,K,L,M,N _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 F N N ? 5 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 disulf ? disulf1 A SG CYS 109 A CYS 89 1_555 A SG CYS 233 A CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf2 B SG CYS 109 B CYS 89 1_555 B SG CYS 233 B CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? metalc ? metalc1 A SG CYS 72 A CYS 52 1_555 E AU AU . A AU 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? metalc ? metalc2 A SG CYS 77 A CYS 57 1_555 E AU AU . A AU 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? metalc ? metalc3 E AU AU . A AU 600 1_555 G CL CL . A CL 1489 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.514 ? metalc ? metalc4 B SG CYS 72 B CYS 52 1_555 K AU AU . B AU 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.099 ? metalc ? metalc5 B SG CYS 77 B CYS 57 1_555 K AU AU . B AU 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? metalc ? metalc6 K AU AU . B AU 600 1_555 M CL CL . B CL 1489 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.511 ? # _chem_comp.formula 'C14 H20 O9 S' _chem_comp.formula_weight 364.368 _chem_comp.id TS8 _chem_comp.mon_nstd_flag . _chem_comp.name 2,3,4,6-tetra-O-acetyl-1-thio-beta-D-glucopyranose _chem_comp.type 'd-saccharide, beta linking' _chem_comp.pdbx_synonyms 3,4,5-TRIACETYLOXY-6-(ACETYLOXYMETHYL)OXANE-2-THIOL;2,3,4,6-tetra-O-acetyl-1-thio-beta-D-glucose;2,3,4,6-tetra-O-acetyl-1-thio-D-glucose;2,3,4,6-tetra-O-acetyl-1-thio-glucose # 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 S C1 TS8 sing 509 n n S HS TS8 sing 510 n n O5 C1 TS8 sing 511 n n C1 C2 TS8 sing 512 n n C1 H1 TS8 sing 513 n n C3 C2 TS8 sing 514 n n C2 O2 TS8 sing 515 n n C2 H2 TS8 sing 516 n n O2 CAY TS8 sing 517 n n O3 C3 TS8 sing 518 n n C4 C3 TS8 sing 519 n n C3 H3 TS8 sing 520 n n CAG O3 TS8 sing 521 n n C5 C4 TS8 sing 522 n n C4 O4 TS8 sing 523 n n C4 H4 TS8 sing 524 n n O4 CAX TS8 sing 525 n n C6 C5 TS8 sing 526 n n O5 C5 TS8 sing 527 n n C5 H5 TS8 sing 528 n n O6 C6 TS8 sing 529 n n C6 H61 TS8 sing 530 n n C6 H62 TS8 sing 531 n n CAW O6 TS8 sing 532 n n CAD CAW TS8 sing 533 n n CAD HAD TS8 sing 534 n n CAD HADA TS8 sing 535 n n CAD HADB TS8 sing 536 n n CAX CAE TS8 sing 537 n n CAE HAE TS8 sing 538 n n CAE HAEA TS8 sing 539 n n CAE HAEB TS8 sing 540 n n CAY CAF TS8 sing 541 n n CAF HAF TS8 sing 542 n n CAF HAFA TS8 sing 543 n n CAF HAFB TS8 sing 544 n n CAZ CAG TS8 sing 545 n n CAG OAK TS8 doub 546 n n OAH CAW TS8 doub 547 n n OAI CAX TS8 doub 548 n n CAY OAJ TS8 doub 549 n n CAZ HAZ TS8 sing 550 n n CAZ HAZA TS8 sing 551 n n CAZ HAZB TS8 sing 552 n n # _pdbx_chem_comp_identifier.comp_id TS8 _pdbx_chem_comp_identifier.identifier b-D-Glcp1SH2Ac3Ac4Ac6Ac _pdbx_chem_comp_identifier.type 'IUPAC CARBOHYDRATE SYMBOL' _pdbx_chem_comp_identifier.program PDB-CARE _pdbx_chem_comp_identifier.program_version 1 # _atom_sites.entry_id 2YAU _atom_sites.fract_transf_matrix[1][1] 0.009703 _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] 0.009703 _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] 0.005219 _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 2 FAD A 1 500 500 FAD FAD . D 3 NDP A 1 550 550 NDP NDP . E 4 AU A 1 600 600 AU AU . F 5 TS8 A 1 650 650 TS8 TS8 . G 6 CL A 1 1489 1489 CL CL . H 7 SO4 A 1 1490 1490 SO4 SO4 . I 2 FAD B 1 500 500 FAD FAD . J 3 NDP B 1 550 550 NDP NDP . K 4 AU B 1 600 600 AU AU . L 5 TS8 B 1 650 650 TS8 TS8 . M 6 CL B 1 1489 1489 CL CL . N 7 SO4 B 1 1490 1490 SO4 SO4 . # 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 S S TS8 . . . L 5 -3.976 -25.73 11.738 0.7 77.71 ? S TS8 650 B 1 HETATM 2 C C1 TS8 . . . L 5 -5.738 -25.955 11.957 0.7 78.9 ? C1 TS8 650 B 1 HETATM 3 C C2 TS8 . . . L 5 -6.177 -27.199 11.171 0.7 79.3 ? C2 TS8 650 B 1 HETATM 4 O O2 TS8 . . . L 5 -7.385 -26.896 10.435 0.7 78.98 ? O2 TS8 650 B 1 HETATM 5 C C3 TS8 . . . L 5 -6.341 -28.393 12.122 0.7 79.79 ? C3 TS8 650 B 1 HETATM 6 O O3 TS8 . . . L 5 -5.075 -28.715 12.739 0.7 79.07 ? O3 TS8 650 B 1 HETATM 7 C C4 TS8 . . . L 5 -7.419 -28.055 13.166 0.7 80.33 ? C4 TS8 650 B 1 HETATM 8 O O4 TS8 . . . L 5 -8.724 -28.009 12.568 0.7 80.41 ? O4 TS8 650 B 1 HETATM 9 C C5 TS8 . . . L 5 -7.182 -26.694 13.833 0.7 80.14 ? C5 TS8 650 B 1 HETATM 10 O O5 TS8 . . . L 5 -5.967 -26.069 13.374 0.7 79.27 ? O5 TS8 650 B 1 HETATM 11 C C6 TS8 . . . L 5 -7.146 -26.853 15.358 0.7 80.46 ? C6 TS8 650 B 1 HETATM 12 O O6 TS8 . . . L 5 -8.456 -27.097 15.887 0.7 80.46 ? O6 TS8 650 B 1 HETATM 13 C CAD TS8 . . . L 5 -7.665 -27.939 18.185 0.7 80.34 ? CAD TS8 650 B 1 HETATM 14 C CAE TS8 . . . L 5 -10.332 -29.384 13.969 0.7 79.76 ? CAE TS8 650 B 1 HETATM 15 C CAF TS8 . . . L 5 -9.428 -27.912 9.294 0.7 77.73 ? CAF TS8 650 B 1 HETATM 16 C CAG TS8 . . . L 5 -4.727 -30.136 12.841 0.7 78.43 ? CAG TS8 650 B 1 HETATM 17 O OAH TS8 . . . L 5 -9.7 -28.571 17.118 0.7 79.94 ? OAH TS8 650 B 1 HETATM 18 O OAI TS8 . . . L 5 -9.44 -30.08 11.852 0.7 79.34 ? OAI TS8 650 B 1 HETATM 19 O OAJ TS8 . . . L 5 -7.243 -28.78 9.036 0.7 77.9 ? OAJ TS8 650 B 1 HETATM 20 O OAK TS8 . . . L 5 -4.177 -30.668 11.89 0.7 77.71 ? OAK TS8 650 B 1 HETATM 21 C CAW TS8 . . . L 5 -8.673 -27.918 17.071 0.7 80.35 ? CAW TS8 650 B 1 HETATM 22 C CAX TS8 . . . L 5 -9.496 -29.231 12.732 0.7 79.91 ? CAX TS8 650 B 1 HETATM 23 C CAY TS8 . . . L 5 -7.952 -27.929 9.554 0.7 78.42 ? CAY TS8 650 B 1 HETATM 24 C CAZ TS8 . . . L 5 -5.019 -30.908 14.102 0.7 77.81 ? CAZ TS8 650 B 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 28 _model_server_stats.query_time_ms 510 _model_server_stats.encode_time_ms 15 _model_server_stats.element_count 24 #