data_5WRD # _model_server_result.job_id fajAYeMbSS5EInpFzbe8-Q _model_server_result.datetime_utc '2025-04-02 06:38:52' _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 5wrd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":201}' # _entry.id 5WRD # _exptl.entry_id 5WRD _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 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 120.29 _cell.angle_gamma 90 _cell.entry_id 5WRD _cell.length_a 113.412 _cell.length_b 44.613 _cell.length_c 63.582 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5WRD _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 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 ? monomeric 1 author_defined_assembly 3 ? monomeric 1 author_defined_assembly 4 PISA dimeric 2 software_defined_assembly 5 PISA dimeric 2 software_defined_assembly 6 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,E,G 1 1 B,F,H 2 1 C,I 3 1 D,J 4 1 A,C,E,G,I 5 1 B,D,F,H,J 6 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 E N N ? 3 F N N # _struct_conn.conn_type_id disulf _struct_conn.details ? _struct_conn.id disulf1 _struct_conn.ptnr1_label_asym_id C _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 14 _struct_conn.ptnr1_auth_asym_id C _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 1248 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id D _struct_conn.ptnr2_label_atom_id SG _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 14 _struct_conn.ptnr2_auth_asym_id D _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 1248 _struct_conn.ptnr2_symmetry 3_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 2.061 _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 5WRD _atom_sites.fract_transf_matrix[1][1] 0.008817 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.005151 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.022415 _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] 0.018215 _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 1 201 1 GOL GOL . F 3 GOL B 1 201 2 GOL GOL . G 4 HOH A 1 301 22 HOH HOH . G 4 HOH A 2 302 43 HOH HOH . G 4 HOH A 3 303 55 HOH HOH . G 4 HOH A 4 304 33 HOH HOH . G 4 HOH A 5 305 6 HOH HOH . G 4 HOH A 6 306 17 HOH HOH . G 4 HOH A 7 307 16 HOH HOH . G 4 HOH A 8 308 9 HOH HOH . G 4 HOH A 9 309 30 HOH HOH . G 4 HOH A 10 310 15 HOH HOH . G 4 HOH A 11 311 29 HOH HOH . G 4 HOH A 12 312 50 HOH HOH . G 4 HOH A 13 313 51 HOH HOH . G 4 HOH A 14 314 52 HOH HOH . G 4 HOH A 15 315 40 HOH HOH . G 4 HOH A 16 316 37 HOH HOH . G 4 HOH A 17 317 47 HOH HOH . H 4 HOH B 1 301 2 HOH HOH . H 4 HOH B 2 302 19 HOH HOH . H 4 HOH B 3 303 49 HOH HOH . H 4 HOH B 4 304 57 HOH HOH . H 4 HOH B 5 305 4 HOH HOH . H 4 HOH B 6 306 46 HOH HOH . H 4 HOH B 7 307 11 HOH HOH . H 4 HOH B 8 308 10 HOH HOH . H 4 HOH B 9 309 12 HOH HOH . H 4 HOH B 10 310 18 HOH HOH . H 4 HOH B 11 311 3 HOH HOH . H 4 HOH B 12 312 8 HOH HOH . H 4 HOH B 13 313 14 HOH HOH . H 4 HOH B 14 314 13 HOH HOH . H 4 HOH B 15 315 45 HOH HOH . H 4 HOH B 16 316 5 HOH HOH . H 4 HOH B 17 317 48 HOH HOH . H 4 HOH B 18 318 23 HOH HOH . H 4 HOH B 19 319 24 HOH HOH . H 4 HOH B 20 320 58 HOH HOH . H 4 HOH B 21 321 36 HOH HOH . H 4 HOH B 22 322 7 HOH HOH . H 4 HOH B 23 323 54 HOH HOH . H 4 HOH B 24 324 27 HOH HOH . H 4 HOH B 25 325 56 HOH HOH . H 4 HOH B 26 326 28 HOH HOH . H 4 HOH B 27 327 59 HOH HOH . I 4 HOH C 1 1301 38 HOH HOH . J 4 HOH D 1 1301 1 HOH HOH . J 4 HOH D 2 1302 39 HOH HOH . J 4 HOH D 3 1303 42 HOH HOH . J 4 HOH D 4 1304 21 HOH HOH . J 4 HOH D 5 1305 53 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 18.111 -1.781 21.255 1 41.34 ? C1 GOL 201 A 1 HETATM 2 O O1 GOL . . . E 3 17.61 -0.927 20.235 1 30.77 ? O1 GOL 201 A 1 HETATM 3 C C2 GOL . . . E 3 18.574 -3.066 20.685 1 39.22 ? C2 GOL 201 A 1 HETATM 4 O O2 GOL . . . E 3 18.957 -4.093 21.616 1 33.6 ? O2 GOL 201 A 1 HETATM 5 C C3 GOL . . . E 3 19.661 -2.978 19.629 1 30.7 ? C3 GOL 201 A 1 HETATM 6 O O3 GOL . . . E 3 19.184 -4.088 18.768 1 29.44 ? O3 GOL 201 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 218 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 6 #