data_8DA8 # _model_server_result.job_id dabn0gUYsfwa4Adh8_THSg _model_server_result.datetime_utc '2025-08-01 04:46:11' _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 8da8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":101}' # _entry.id 8DA8 # _exptl.entry_id 8DA8 _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 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 97.64 _cell.angle_gamma 90 _cell.entry_id 8DA8 _cell.length_a 50.251 _cell.length_b 54.556 _cell.length_c 34.721 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8DA8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall 'C 2y' _symmetry.space_group_name_H-M 'C 1 2 1' # _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 _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 3 _struct_asym.id C _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 covale ? covale1 B C GLN 27 B GLN 26 1_555 B N MLY 28 B MLY 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.315 ? covale ? covale2 B C MLY 28 B MLY 27 1_555 B N MLY 29 B MLY 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.339 ? covale ? covale3 B C MLY 29 B MLY 28 1_555 B N ALA 30 B ALA 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.343 ? covale ? covale4 B C ILE 32 B ILE 31 1_555 B N MLY 33 B MLY 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale5 B C MLY 33 B MLY 32 1_555 B N SER 34 B SER 33 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale6 B C ALA 49 B ALA 48 1_555 B N MLY 50 B MLY 49 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.347 ? covale ? covale7 B C MLY 50 B MLY 49 1_555 B N LYS 51 B LYS 50 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.313 ? # _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 # _atom_sites.entry_id 8DA8 _atom_sites.fract_transf_matrix[1][1] 0.0199 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002669 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01833 _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] 0.029059 _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 3 GOL B 1 101 101 GOL GOL . D 4 HOH A 1 101 106 HOH HOH . D 4 HOH A 2 102 55 HOH HOH . D 4 HOH A 3 103 60 HOH HOH . D 4 HOH A 4 104 37 HOH HOH . D 4 HOH A 5 105 67 HOH HOH . D 4 HOH A 6 106 80 HOH HOH . D 4 HOH A 7 107 65 HOH HOH . D 4 HOH A 8 108 95 HOH HOH . D 4 HOH A 9 109 43 HOH HOH . D 4 HOH A 10 110 105 HOH HOH . D 4 HOH A 11 111 45 HOH HOH . D 4 HOH A 12 112 27 HOH HOH . D 4 HOH A 13 113 13 HOH HOH . D 4 HOH A 14 114 34 HOH HOH . D 4 HOH A 15 115 4 HOH HOH . D 4 HOH A 16 116 46 HOH HOH . D 4 HOH A 17 117 18 HOH HOH . D 4 HOH A 18 118 44 HOH HOH . D 4 HOH A 19 119 66 HOH HOH . D 4 HOH A 20 120 6 HOH HOH . D 4 HOH A 21 121 16 HOH HOH . D 4 HOH A 22 122 49 HOH HOH . D 4 HOH A 23 123 77 HOH HOH . D 4 HOH A 24 124 29 HOH HOH . D 4 HOH A 25 125 41 HOH HOH . D 4 HOH A 26 126 1 HOH HOH . D 4 HOH A 27 127 28 HOH HOH . D 4 HOH A 28 128 10 HOH HOH . D 4 HOH A 29 129 109 HOH HOH . D 4 HOH A 30 130 7 HOH HOH . D 4 HOH A 31 131 102 HOH HOH . D 4 HOH A 32 132 14 HOH HOH . D 4 HOH A 33 133 99 HOH HOH . D 4 HOH A 34 134 51 HOH HOH . D 4 HOH A 35 135 57 HOH HOH . D 4 HOH A 36 136 53 HOH HOH . D 4 HOH A 37 137 88 HOH HOH . D 4 HOH A 38 138 79 HOH HOH . D 4 HOH A 39 139 108 HOH HOH . D 4 HOH A 40 140 94 HOH HOH . D 4 HOH A 41 141 54 HOH HOH . D 4 HOH A 42 142 92 HOH HOH . D 4 HOH A 43 143 63 HOH HOH . D 4 HOH A 44 144 38 HOH HOH . D 4 HOH A 45 145 78 HOH HOH . D 4 HOH A 46 146 30 HOH HOH . D 4 HOH A 47 147 58 HOH HOH . D 4 HOH A 48 148 76 HOH HOH . D 4 HOH A 49 149 101 HOH HOH . D 4 HOH A 50 150 86 HOH HOH . E 4 HOH B 1 201 96 HOH HOH . E 4 HOH B 2 202 47 HOH HOH . E 4 HOH B 3 203 5 HOH HOH . E 4 HOH B 4 204 12 HOH HOH . E 4 HOH B 5 205 111 HOH HOH . E 4 HOH B 6 206 19 HOH HOH . E 4 HOH B 7 207 8 HOH HOH . E 4 HOH B 8 208 115 HOH HOH . E 4 HOH B 9 209 17 HOH HOH . E 4 HOH B 10 210 42 HOH HOH . E 4 HOH B 11 211 3 HOH HOH . E 4 HOH B 12 212 52 HOH HOH . E 4 HOH B 13 213 24 HOH HOH . E 4 HOH B 14 214 25 HOH HOH . E 4 HOH B 15 215 64 HOH HOH . E 4 HOH B 16 216 69 HOH HOH . E 4 HOH B 17 217 2 HOH HOH . E 4 HOH B 18 218 31 HOH HOH . E 4 HOH B 19 219 26 HOH HOH . E 4 HOH B 20 220 61 HOH HOH . E 4 HOH B 21 221 103 HOH HOH . E 4 HOH B 22 222 40 HOH HOH . E 4 HOH B 23 223 11 HOH HOH . E 4 HOH B 24 224 22 HOH HOH . E 4 HOH B 25 225 70 HOH HOH . E 4 HOH B 26 226 9 HOH HOH . E 4 HOH B 27 227 114 HOH HOH . E 4 HOH B 28 228 93 HOH HOH . E 4 HOH B 29 229 113 HOH HOH . E 4 HOH B 30 230 21 HOH HOH . E 4 HOH B 31 231 32 HOH HOH . E 4 HOH B 32 232 90 HOH HOH . E 4 HOH B 33 233 71 HOH HOH . E 4 HOH B 34 234 35 HOH HOH . E 4 HOH B 35 235 20 HOH HOH . E 4 HOH B 36 236 107 HOH HOH . E 4 HOH B 37 237 62 HOH HOH . E 4 HOH B 38 238 50 HOH HOH . E 4 HOH B 39 239 56 HOH HOH . E 4 HOH B 40 240 75 HOH HOH . E 4 HOH B 41 241 112 HOH HOH . E 4 HOH B 42 242 15 HOH HOH . E 4 HOH B 43 243 110 HOH HOH . E 4 HOH B 44 244 39 HOH HOH . E 4 HOH B 45 245 81 HOH HOH . E 4 HOH B 46 246 91 HOH HOH . E 4 HOH B 47 247 33 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 C C1 GOL . . . C 3 19.55 32.737 35.699 0.5 30.29 ? C1 GOL 101 B 1 HETATM 2 O O1 GOL . . . C 3 18.627 33.648 35.141 0.5 28.91 ? O1 GOL 101 B 1 HETATM 3 C C2 GOL . . . C 3 20.218 31.981 34.517 0.5 19.31 ? C2 GOL 101 B 1 HETATM 4 O O2 GOL . . . C 3 20.571 30.664 34.834 0.5 20.99 ? O2 GOL 101 B 1 HETATM 5 C C3 GOL . . . C 3 21.38 32.881 34.062 0.5 28.27 ? C3 GOL 101 B 1 HETATM 6 O O3 GOL . . . C 3 21.729 32.462 32.77 0.5 38.97 ? O3 GOL 101 B 1 HETATM 7 H H11 GOL . . . C 3 19.129 32.096 36.292 0.5 36.36 ? H11 GOL 101 B 1 HETATM 8 H H12 GOL . . . C 3 20.235 33.177 36.226 0.5 36.36 ? H12 GOL 101 B 1 HETATM 9 H HO1 GOL . . . C 3 18.3 34.093 35.788 0.5 34.7 ? HO1 GOL 101 B 1 HETATM 10 H H2 GOL . . . C 3 19.593 31.871 33.783 0.5 23.18 ? H2 GOL 101 B 1 HETATM 11 H HO2 GOL . . . C 3 19.861 30.219 34.963 0.5 25.19 ? HO2 GOL 101 B 1 HETATM 12 H H31 GOL . . . C 3 22.106 32.806 34.701 0.5 33.93 ? H31 GOL 101 B 1 HETATM 13 H H32 GOL . . . C 3 21.096 33.808 34.104 0.5 33.93 ? H32 GOL 101 B 1 HETATM 14 H HO3 GOL . . . C 3 22.344 32.986 32.498 0.5 46.77 ? HO3 GOL 101 B 1 # _model_server_stats.io_time_ms 119 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 321 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 14 #