data_7YWF # _model_server_result.job_id GvOFN9oZs4bA-wKWBjqcgg _model_server_result.datetime_utc '2024-12-02 10:27:48' _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 7ywf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":202}' # _entry.id 7YWF # _exptl.entry_id 7YWF _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 154.251 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (2R,3S)-1,4-DIMERCAPTOBUTANE-2,3-DIOL _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 7YWF _cell.length_a 158.05 _cell.length_b 158.05 _cell.length_c 48.72 _cell.Z_PDB 27 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7YWF _symmetry.cell_setting ? _symmetry.Int_Tables_number 146 _symmetry.space_group_name_Hall 'R 3' _symmetry.space_group_name_H-M 'H 3' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_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 _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 5 _struct_asym.id I _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 GAL _pdbx_entity_branch_link.comp_id_2 GAL _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n D GAL 1 D 1 GAL D 1 GAL 2 n D GAL 2 D 2 GAL D 2 GAL 2 n E GAL 1 E 1 GAL E 1 GAL 2 n E GAL 2 E 2 GAL E 2 GAL 2 n F GAL 1 F 1 GAL F 1 GAL 2 n F GAL 2 F 2 GAL F 2 GAL # 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 covale ? covale1 D O4 GAL . D GAL 1 1_555 D C1 GAL . D GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.461 ? covale ? covale2 E O4 GAL . E GAL 1 1_555 E C1 GAL . E GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.466 ? covale ? covale3 F O4 GAL . F GAL 1 1_555 F C1 GAL . F GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? # _chem_comp.formula 'C4 H10 O2 S2' _chem_comp.formula_weight 154.251 _chem_comp.id DTU _chem_comp.mon_nstd_flag . _chem_comp.name (2R,3S)-1,4-DIMERCAPTOBUTANE-2,3-DIOL _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 S1 C1 DTU sing 83 n n S1 H1 DTU sing 84 n n C1 C2 DTU sing 85 n n C1 H1C1 DTU sing 86 n n C1 H1C2 DTU sing 87 n n C2 O2 DTU sing 88 n n C2 C3 DTU sing 89 n n C2 H2 DTU sing 90 n n O2 HA DTU sing 91 n n C3 O3 DTU sing 92 n n C3 C4 DTU sing 93 n n C3 H3 DTU sing 94 n n O3 HB DTU sing 95 n n C4 S4 DTU sing 96 n n C4 H4C1 DTU sing 97 n n C4 H4C2 DTU sing 98 n n S4 H4 DTU sing 99 n n # _atom_sites.entry_id 7YWF _atom_sites.fract_transf_matrix[1][1] 0.006327 _atom_sites.fract_transf_matrix[1][2] 0.003653 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007306 _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] 0.020525 _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 G 3 TRS A 1 201 201 TRS TRS . H 4 PO4 B 1 201 211 PO4 PO4 . I 5 DTU B 1 202 221 DTU DTU . J 6 HOH A 1 301 4 HOH HOH . J 6 HOH A 2 302 1 HOH HOH . K 6 HOH B 1 301 5 HOH HOH . K 6 HOH B 2 302 2 HOH HOH . L 6 HOH C 1 201 3 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 S S1 DTU . . . I 5 47.028 39.673 25.916 1 136.77 ? S1 DTU 202 B 1 HETATM 2 C C1 DTU . . . I 5 46.146 40.893 26.922 1 123.04 ? C1 DTU 202 B 1 HETATM 3 C C2 DTU . . . I 5 44.735 41.131 26.43 1 119.34 ? C2 DTU 202 B 1 HETATM 4 O O2 DTU . . . I 5 44.031 39.893 26.393 1 132.39 ? O2 DTU 202 B 1 HETATM 5 C C3 DTU . . . I 5 43.949 42.133 27.288 1 120.04 ? C3 DTU 202 B 1 HETATM 6 O O3 DTU . . . I 5 44.58 43.408 27.229 1 111.72 ? O3 DTU 202 B 1 HETATM 7 C C4 DTU . . . I 5 42.496 42.267 26.885 1 128.1 ? C4 DTU 202 B 1 HETATM 8 S S4 DTU . . . I 5 41.607 43.448 27.931 1 148.29 ? S4 DTU 202 B 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 266 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 8 #