data_5KHO # _model_server_result.job_id lakGZOZk20Bhw3o4360Z0Q _model_server_result.datetime_utc '2024-11-24 10:31:55' _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 5kho # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":301}' # _entry.id 5KHO # _exptl.entry_id 5KHO _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 90 _cell.angle_gamma 90 _cell.entry_id 5KHO _cell.length_a 101.54 _cell.length_b 154.76 _cell.length_c 38.8 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5KHO _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,M _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 E _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 metalc ? metalc1 C OG SER 17 C SER 17 1_555 F MG MG . C MG 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.496 ? metalc ? metalc2 C OG1 THR 35 C THR 35 1_555 F MG MG . C MG 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.252 ? metalc ? metalc3 F MG MG . C MG 200 1_555 G O2B GNP . C GNP 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.917 ? metalc ? metalc4 F MG MG . C MG 200 1_555 G O2G GNP . C GNP 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.847 ? metalc ? metalc5 F MG MG . C MG 200 1_555 L O HOH . C HOH 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.181 ? metalc ? metalc6 F MG MG . C MG 200 1_555 L O HOH . C HOH 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? metalc ? metalc7 D OG SER 17 D SER 17 1_555 H MG MG . D MG 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.127 ? metalc ? metalc8 D OG1 THR 35 D THR 35 1_555 H MG MG . D MG 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.223 ? metalc ? metalc9 H MG MG . D MG 200 1_555 I O1G GNP . D GNP 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? metalc ? metalc10 H MG MG . D MG 200 1_555 I O1B GNP . D GNP 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? metalc ? metalc11 H MG MG . D MG 200 1_555 M O HOH . D HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.976 ? metalc ? metalc12 H MG MG . D MG 200 1_555 M O HOH . D HOH 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.932 ? # _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 180 n n C1 C2 GOL sing 181 n n C1 H11 GOL sing 182 n n C1 H12 GOL sing 183 n n O1 HO1 GOL sing 184 n n C2 O2 GOL sing 185 n n C2 C3 GOL sing 186 n n C2 H2 GOL sing 187 n n O2 HO2 GOL sing 188 n n C3 O3 GOL sing 189 n n C3 H31 GOL sing 190 n n C3 H32 GOL sing 191 n n O3 HO3 GOL sing 192 n n # _atom_sites.entry_id 5KHO _atom_sites.fract_transf_matrix[1][1] 0.009848 _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] 0.006462 _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] 0.025773 _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 E 3 GOL A 1 301 1 GOL GOL . F 4 MG C 1 200 200 MG MG . G 5 GNP C 1 201 201 GNP GNP . H 4 MG D 1 200 200 MG MG . I 5 GNP D 1 201 201 GNP GNP . J 6 HOH A 1 401 2 HOH HOH . J 6 HOH A 2 402 11 HOH HOH . K 6 HOH B 1 301 3 HOH HOH . L 6 HOH C 1 301 13 HOH HOH . L 6 HOH C 2 302 4 HOH HOH . L 6 HOH C 3 303 5 HOH HOH . L 6 HOH C 4 304 6 HOH HOH . M 6 HOH D 1 301 8 HOH HOH . M 6 HOH D 2 302 7 HOH HOH . M 6 HOH D 3 303 14 HOH HOH . M 6 HOH D 4 304 9 HOH HOH . M 6 HOH D 5 305 1 HOH HOH . M 6 HOH D 6 306 10 HOH HOH . M 6 HOH D 7 307 12 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 . . . E 3 -16.472 22.983 -14.997 1 84.27 ? C1 GOL 301 A 1 HETATM 2 O O1 GOL . . . E 3 -17.785 23.292 -15.46 1 87.37 ? O1 GOL 301 A 1 HETATM 3 C C2 GOL . . . E 3 -15.536 22.765 -16.163 1 82.84 ? C2 GOL 301 A 1 HETATM 4 O O2 GOL . . . E 3 -15.642 23.9 -17.017 1 87.92 ? O2 GOL 301 A 1 HETATM 5 C C3 GOL . . . E 3 -14.137 22.677 -15.578 1 82.22 ? C3 GOL 301 A 1 HETATM 6 O O3 GOL . . . E 3 -13.197 23.395 -16.382 1 77.9 ? O3 GOL 301 A 1 # _model_server_stats.io_time_ms 58 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 327 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 6 #