data_8DSJ # _model_server_result.job_id OZD647V62z_r6le6cnoBJA _model_server_result.datetime_utc '2025-01-11 13:00:28' _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 8dsj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":405}' # _entry.id 8DSJ # _exptl.entry_id 8DSJ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _entity.pdbx_number_of_molecules 5 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 84.85 _cell.angle_beta 89.96 _cell.angle_gamma 78.5 _cell.entry_id 8DSJ _cell.length_a 38.14 _cell.length_b 53.263 _cell.length_c 86.424 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8DSJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 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 ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,F,G 1 1 B,H,I,J,K,L,M 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 G N N ? 3 K N N ? 3 L N N ? 3 M 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 3 A CYS 47 1_555 A SG CYS 142 A CYS 186 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? disulf ? disulf2 A SG CYS 37 A CYS 81 1_555 A SG CYS 82 A CYS 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf3 A SG CYS 70 A CYS 114 1_555 A SG CYS 87 A CYS 131 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? disulf ? disulf4 A SG CYS 183 A CYS 227 1_555 A SG CYS 290 A CYS 334 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? disulf ? disulf5 A SG CYS 249 A CYS 293 1_555 A SG CYS 271 A CYS 315 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf6 B SG CYS 3 K CYS 47 1_555 B SG CYS 142 K CYS 186 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf7 B SG CYS 37 K CYS 81 1_555 B SG CYS 82 K CYS 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf8 B SG CYS 70 K CYS 114 1_555 B SG CYS 87 K CYS 131 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? disulf ? disulf9 B SG CYS 183 K CYS 227 1_555 B SG CYS 290 K CYS 334 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf10 B SG CYS 249 K CYS 293 1_555 B SG CYS 271 K CYS 315 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? metalc ? metalc1 A ND1 HIS 63 A HIS 107 1_555 C CU CU . A CU 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? metalc ? metalc2 A ND1 HIS 64 A HIS 108 1_555 C CU CU . A CU 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? metalc ? metalc3 A ND1 HIS 128 A HIS 172 1_555 C CU CU . A CU 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? metalc ? metalc4 A NE2 HIS 198 A HIS 242 1_555 D CU CU . A CU 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? metalc ? metalc5 A NE2 HIS 200 A HIS 244 1_555 D CU CU . A CU 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? metalc ? metalc6 A SD MET 270 A MET 314 1_555 D CU CU . A CU 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? metalc ? metalc7 B ND1 HIS 63 K HIS 107 1_555 H CU CU . K CU 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? metalc ? metalc8 B ND1 HIS 64 K HIS 108 1_555 H CU CU . K CU 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? metalc ? metalc9 B ND1 HIS 128 K HIS 172 1_555 H CU CU . K CU 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? metalc ? metalc10 B NE2 HIS 198 K HIS 242 1_555 I CU CU . K CU 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? metalc ? metalc11 B NE2 HIS 200 K HIS 244 1_555 I CU CU . K CU 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? metalc ? metalc12 B SD MET 270 K MET 314 1_555 I CU CU . K CU 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.326 ? # _chem_comp.formula 'C3 H8 O3' _chem_comp.formula_weight 92.094 _chem_comp.id GOL _chem_comp.mon_nstd_flag . _chem_comp.name GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms GLYCERIN;PROPANE-1,2,3-TRIOL # 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 C1 O1 GOL sing 129 n n C1 C2 GOL sing 130 n n C1 H11 GOL sing 131 n n C1 H12 GOL sing 132 n n O1 HO1 GOL sing 133 n n C2 O2 GOL sing 134 n n C2 C3 GOL sing 135 n n C2 H2 GOL sing 136 n n O2 HO2 GOL sing 137 n n C3 O3 GOL sing 138 n n C3 H31 GOL sing 139 n n C3 H32 GOL sing 140 n n O3 HO3 GOL sing 141 n n # _atom_sites.entry_id 8DSJ _atom_sites.fract_transf_matrix[1][1] 0.026219 _atom_sites.fract_transf_matrix[1][2] -0.005332 _atom_sites.fract_transf_matrix[1][3] 0.000473 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.019159 _atom_sites.fract_transf_matrix[2][3] -0.001762 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.01162 _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 CU A 1 401 357 CU CU . D 2 CU A 1 402 358 CU CU . E 2 CU A 1 403 359 CU CU . F 3 GOL A 1 404 602 GOL GOL . G 3 GOL A 1 405 603 GOL GOL . H 2 CU K 1 401 357 CU CU . I 2 CU K 1 402 358 CU CU . J 2 CU K 1 403 359 CU CU . K 3 GOL K 1 404 601 GOL GOL . L 3 GOL K 1 405 602 GOL GOL . M 3 GOL K 1 406 603 GOL GOL . # 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 C1 GOL . . . L 3 8.4 -0.845 -13.295 1 40.59 ? C1 GOL 405 K 1 HETATM 2 O O1 GOL . . . L 3 8.206 0.255 -12.407 1 38.05 ? O1 GOL 405 K 1 HETATM 3 C C2 GOL . . . L 3 7.101 -1.317 -13.919 1 41.06 ? C2 GOL 405 K 1 HETATM 4 O O2 GOL . . . L 3 7.354 -1.775 -15.248 1 43.4 ? O2 GOL 405 K 1 HETATM 5 C C3 GOL . . . L 3 6.404 -2.407 -13.125 1 40.46 ? C3 GOL 405 K 1 HETATM 6 O O3 GOL . . . L 3 6.926 -3.707 -13.402 1 38.17 ? O3 GOL 405 K 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 274 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 6 #