data_3O56 # _model_server_result.job_id UC5LmrITyhPc_WM7OYRKeQ _model_server_result.datetime_utc '2024-10-11 00:25:20' _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 3o56 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":507}' # _entry.id 3O56 # _exptl.entry_id 3O56 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 6 _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 90 _cell.angle_gamma 90 _cell.entry_id 3O56 _cell.length_a 88.531 _cell.length_b 94.592 _cell.length_c 105.089 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3O56 _symmetry.cell_setting ? _symmetry.Int_Tables_number 24 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 ? 6 H N N ? 6 I 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 metalc ? metalc1 B ZN ZN . A ZN 1 1_555 J O HOH . A HOH 51 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? metalc ? metalc2 B ZN ZN . A ZN 1 1_555 A NE2 HIS 88 A HIS 238 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.104 ? metalc ? metalc3 B ZN ZN . A ZN 1 1_555 A NE2 HIS 124 A HIS 274 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.276 ? metalc ? metalc4 B ZN ZN . A ZN 1 1_555 A OD2 ASP 125 A ASP 275 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.936 ? metalc ? metalc5 B ZN ZN . A ZN 1 1_555 A OD1 ASP 242 A ASP 392 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.988 ? metalc ? metalc6 J O HOH . A HOH 49 1_555 C MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.172 ? metalc ? metalc7 J O HOH . A HOH 50 1_555 C MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.238 ? metalc ? metalc8 J O HOH . A HOH 51 1_555 C MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc9 J O HOH . A HOH 52 1_555 C MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.162 ? metalc ? metalc10 J O HOH . A HOH 53 1_555 C MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.978 ? metalc ? metalc11 A OD1 ASP 125 A ASP 275 1_555 C MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.142 ? # _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 3O56 _atom_sites.fract_transf_matrix[1][1] 0.011296 _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] 0.010572 _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] 0.009516 _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 ZN A 1 1 1 ZN ZN . C 3 MG A 1 504 1 MG MG . D 4 ARS A 1 505 1 ARS ARS . E 4 ARS A 1 2 2 ARS ARS . F 4 ARS A 1 3 3 ARS ARS . G 5 ZG1 A 1 506 1 ZG1 ZG1 . H 6 GOL A 1 507 1 GOL GOL . I 6 GOL A 1 508 2 GOL GOL . J 7 HOH A 1 4 4 HOH HOH . J 7 HOH A 2 5 5 HOH HOH . J 7 HOH A 3 6 6 HOH HOH . J 7 HOH A 4 7 7 HOH HOH . J 7 HOH A 5 8 8 HOH HOH . J 7 HOH A 6 9 9 HOH HOH . J 7 HOH A 7 10 10 HOH HOH . J 7 HOH A 8 11 11 HOH HOH . J 7 HOH A 9 12 12 HOH HOH . J 7 HOH A 10 13 13 HOH HOH . J 7 HOH A 11 14 14 HOH HOH . J 7 HOH A 12 15 15 HOH HOH . J 7 HOH A 13 16 16 HOH HOH . J 7 HOH A 14 17 17 HOH HOH . J 7 HOH A 15 18 18 HOH HOH . J 7 HOH A 16 19 19 HOH HOH . J 7 HOH A 17 20 20 HOH HOH . J 7 HOH A 18 21 21 HOH HOH . J 7 HOH A 19 22 22 HOH HOH . J 7 HOH A 20 23 23 HOH HOH . J 7 HOH A 21 24 24 HOH HOH . J 7 HOH A 22 25 25 HOH HOH . J 7 HOH A 23 26 26 HOH HOH . J 7 HOH A 24 27 27 HOH HOH . J 7 HOH A 25 28 28 HOH HOH . J 7 HOH A 26 29 29 HOH HOH . J 7 HOH A 27 30 30 HOH HOH . J 7 HOH A 28 31 31 HOH HOH . J 7 HOH A 29 32 32 HOH HOH . J 7 HOH A 30 33 33 HOH HOH . J 7 HOH A 31 34 34 HOH HOH . J 7 HOH A 32 35 35 HOH HOH . J 7 HOH A 33 36 36 HOH HOH . J 7 HOH A 34 37 37 HOH HOH . J 7 HOH A 35 38 38 HOH HOH . J 7 HOH A 36 39 39 HOH HOH . J 7 HOH A 37 40 40 HOH HOH . J 7 HOH A 38 41 41 HOH HOH . J 7 HOH A 39 42 42 HOH HOH . J 7 HOH A 40 43 43 HOH HOH . J 7 HOH A 41 44 44 HOH HOH . J 7 HOH A 42 45 45 HOH HOH . J 7 HOH A 43 46 46 HOH HOH . J 7 HOH A 44 47 47 HOH HOH . J 7 HOH A 45 48 48 HOH HOH . J 7 HOH A 46 49 49 HOH HOH . J 7 HOH A 47 50 50 HOH HOH . J 7 HOH A 48 51 51 HOH HOH . J 7 HOH A 49 52 52 HOH HOH . J 7 HOH A 50 53 53 HOH HOH . J 7 HOH A 51 54 54 HOH HOH . J 7 HOH A 52 55 55 HOH HOH . J 7 HOH A 53 56 56 HOH HOH . J 7 HOH A 54 57 57 HOH HOH . J 7 HOH A 55 58 58 HOH HOH . J 7 HOH A 56 59 59 HOH HOH . J 7 HOH A 57 60 60 HOH HOH . J 7 HOH A 58 61 61 HOH HOH . J 7 HOH A 59 62 62 HOH HOH . J 7 HOH A 60 63 63 HOH HOH . J 7 HOH A 61 64 64 HOH HOH . J 7 HOH A 62 65 65 HOH HOH . J 7 HOH A 63 66 66 HOH HOH . J 7 HOH A 64 67 67 HOH HOH . J 7 HOH A 65 68 68 HOH HOH . J 7 HOH A 66 69 69 HOH HOH . J 7 HOH A 67 70 70 HOH HOH . J 7 HOH A 68 71 71 HOH HOH . J 7 HOH A 69 72 72 HOH HOH . J 7 HOH A 70 73 73 HOH HOH . J 7 HOH A 71 74 74 HOH HOH . J 7 HOH A 72 75 75 HOH HOH . J 7 HOH A 73 76 76 HOH HOH . J 7 HOH A 74 77 77 HOH HOH . J 7 HOH A 75 78 78 HOH HOH . J 7 HOH A 76 79 79 HOH HOH . J 7 HOH A 77 80 80 HOH HOH . J 7 HOH A 78 81 81 HOH HOH . J 7 HOH A 79 82 82 HOH HOH . J 7 HOH A 80 83 83 HOH HOH . J 7 HOH A 81 84 84 HOH HOH . J 7 HOH A 82 85 85 HOH HOH . J 7 HOH A 83 86 86 HOH HOH . J 7 HOH A 84 87 87 HOH HOH . J 7 HOH A 85 88 88 HOH HOH . J 7 HOH A 86 89 89 HOH HOH . J 7 HOH A 87 90 90 HOH HOH . J 7 HOH A 88 91 91 HOH HOH . J 7 HOH A 89 92 92 HOH HOH . J 7 HOH A 90 93 93 HOH HOH . J 7 HOH A 91 94 94 HOH HOH . J 7 HOH A 92 95 95 HOH HOH . J 7 HOH A 93 96 96 HOH HOH . J 7 HOH A 94 97 97 HOH HOH . J 7 HOH A 95 98 98 HOH HOH . J 7 HOH A 96 99 99 HOH HOH . J 7 HOH A 97 100 100 HOH HOH . J 7 HOH A 98 101 101 HOH HOH . J 7 HOH A 99 102 102 HOH HOH . J 7 HOH A 100 103 103 HOH HOH . J 7 HOH A 101 104 104 HOH HOH . J 7 HOH A 102 105 105 HOH HOH . J 7 HOH A 103 106 106 HOH HOH . J 7 HOH A 104 107 107 HOH HOH . J 7 HOH A 105 108 108 HOH HOH . J 7 HOH A 106 109 109 HOH HOH . J 7 HOH A 107 110 110 HOH HOH . J 7 HOH A 108 111 111 HOH HOH . J 7 HOH A 109 112 112 HOH HOH . J 7 HOH A 110 113 113 HOH HOH . J 7 HOH A 111 114 114 HOH HOH . J 7 HOH A 112 115 115 HOH HOH . J 7 HOH A 113 116 116 HOH HOH . J 7 HOH A 114 117 117 HOH HOH . J 7 HOH A 115 118 118 HOH HOH . J 7 HOH A 116 119 119 HOH HOH . J 7 HOH A 117 120 120 HOH HOH . J 7 HOH A 118 121 121 HOH HOH . J 7 HOH A 119 122 122 HOH HOH . J 7 HOH A 120 123 123 HOH HOH . J 7 HOH A 121 124 124 HOH HOH . J 7 HOH A 122 509 1 HOH HOH . J 7 HOH A 123 510 2 HOH HOH . J 7 HOH A 124 511 3 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 . . . H 6 48.317 54.804 30.409 1 102.7 ? C1 GOL 507 A 1 HETATM 2 O O1 GOL . . . H 6 49.713 55.004 30.485 1 101.97 ? O1 GOL 507 A 1 HETATM 3 C C2 GOL . . . H 6 47.63 55.448 31.615 1 103.61 ? C2 GOL 507 A 1 HETATM 4 O O2 GOL . . . H 6 46.346 54.883 31.799 1 102.35 ? O2 GOL 507 A 1 HETATM 5 C C3 GOL . . . H 6 47.547 56.972 31.461 1 103.42 ? C3 GOL 507 A 1 HETATM 6 O O3 GOL . . . H 6 46.276 57.379 30.998 1 102.82 ? O3 GOL 507 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 325 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 6 #