data_5N8X # _model_server_result.job_id pwIlKdZ2Y41At26HrBRnGg _model_server_result.datetime_utc '2025-07-02 00:56:30' _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 5n8x # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":505}' # _entry.id 5N8X # _exptl.entry_id 5N8X _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 90 _cell.angle_beta 90 _cell.angle_gamma 120 _cell.entry_id 5N8X _cell.length_a 93.506 _cell.length_b 93.506 _cell.length_c 99.626 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5N8X _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 ? 3 C N N ? 3 D N N ? 3 E N N ? 3 F N N ? 3 G N N # _struct_conn.conn_type_id metalc _struct_conn.details ? _struct_conn.id metalc1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id OD1 _struct_conn.ptnr1_label_comp_id ASP _struct_conn.ptnr1_label_seq_id 238 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id ASP _struct_conn.ptnr1_auth_seq_id 238 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id MN _struct_conn.ptnr2_label_comp_id MN _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id MN _struct_conn.ptnr2_auth_seq_id 501 _struct_conn.ptnr2_symmetry 1_555 _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 2.51 _struct_conn.pdbx_value_order ? # _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 5N8X _atom_sites.fract_transf_matrix[1][1] 0.010695 _atom_sites.fract_transf_matrix[1][2] 0.006174 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012349 _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] 0.010038 _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 B 2 MN A 1 501 1 MN MN . C 3 GOL A 1 502 1 GOL GOL . D 3 GOL A 1 503 2 GOL GOL . E 3 GOL A 1 504 3 GOL GOL . F 3 GOL A 1 505 4 GOL GOL . G 3 GOL A 1 506 5 GOL GOL . H 4 HOH A 1 601 54 HOH HOH . H 4 HOH A 2 602 44 HOH HOH . H 4 HOH A 3 603 62 HOH HOH . H 4 HOH A 4 604 56 HOH HOH . H 4 HOH A 5 605 51 HOH HOH . H 4 HOH A 6 606 43 HOH HOH . H 4 HOH A 7 607 45 HOH HOH . H 4 HOH A 8 608 3 HOH HOH . H 4 HOH A 9 609 61 HOH HOH . H 4 HOH A 10 610 15 HOH HOH . H 4 HOH A 11 611 70 HOH HOH . H 4 HOH A 12 612 1 HOH HOH . H 4 HOH A 13 613 10 HOH HOH . H 4 HOH A 14 614 25 HOH HOH . H 4 HOH A 15 615 16 HOH HOH . H 4 HOH A 16 616 41 HOH HOH . H 4 HOH A 17 617 69 HOH HOH . H 4 HOH A 18 618 34 HOH HOH . H 4 HOH A 19 619 63 HOH HOH . H 4 HOH A 20 620 67 HOH HOH . H 4 HOH A 21 621 40 HOH HOH . H 4 HOH A 22 622 60 HOH HOH . H 4 HOH A 23 623 42 HOH HOH . H 4 HOH A 24 624 7 HOH HOH . H 4 HOH A 25 625 47 HOH HOH . H 4 HOH A 26 626 50 HOH HOH . H 4 HOH A 27 627 46 HOH HOH . H 4 HOH A 28 628 22 HOH HOH . H 4 HOH A 29 629 74 HOH HOH . H 4 HOH A 30 630 68 HOH HOH . H 4 HOH A 31 631 24 HOH HOH . H 4 HOH A 32 632 73 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 . . . F 3 35.008 26.66 12.145 1 64.27 ? C1 GOL 505 A 1 HETATM 2 O O1 GOL . . . F 3 34.065 27.654 11.73 1 64.21 ? O1 GOL 505 A 1 HETATM 3 C C2 GOL . . . F 3 36.233 27.333 12.753 1 64.26 ? C2 GOL 505 A 1 HETATM 4 O O2 GOL . . . F 3 35.972 27.693 14.115 1 64.19 ? O2 GOL 505 A 1 HETATM 5 C C3 GOL . . . F 3 37.413 26.37 12.664 1 64.24 ? C3 GOL 505 A 1 HETATM 6 O O3 GOL . . . F 3 38.495 26.78 13.511 1 64.37 ? O3 GOL 505 A 1 # _model_server_stats.io_time_ms 0 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 260 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 6 #