data_3F8J # _model_server_result.job_id QRQJoaWDpgwkUhVpLg6Uhg _model_server_result.datetime_utc '2025-08-31 18:56:28' _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 3f8j # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":199}' # _entry.id 3F8J # _exptl.entry_id 3F8J _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _entity.pdbx_number_of_molecules 9 _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 3F8J _cell.length_a 61.67 _cell.length_b 91.59 _cell.length_c 118.51 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3F8J _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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,I,J,K,L,M,N,O _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 ? 4 D N N ? 4 E N N ? 4 F N N ? 4 G N N ? 4 H N N ? 4 I N N ? 4 J N N ? 4 K N N ? 4 L 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 covale ? covale1 B O3' DG 5 F DG 406 1_555 B P 5CM 6 F 5CM 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.608 ? covale ? covale2 B O3' 5CM 6 F 5CM 407 1_555 B P DG 7 F DG 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.614 ? hydrog WATSON-CRICK hydrog1 B N3 DC 1 F DC 402 1_555 C N1 DG 12 G DG 433 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 B N4 DC 1 F DC 402 1_555 C O6 DG 12 G DG 433 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 B O2 DC 1 F DC 402 1_555 C N2 DG 12 G DG 433 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 B N3 DC 2 F DC 403 1_555 C N1 DG 11 G DG 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 B N4 DC 2 F DC 403 1_555 C O6 DG 11 G DG 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 B O2 DC 2 F DC 403 1_555 C N2 DG 11 G DG 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 B N1 DA 3 F DA 404 1_555 C N3 DT 10 G DT 431 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 B N6 DA 3 F DA 404 1_555 C O4 DT 10 G DT 431 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 B N3 DT 4 F DT 405 1_555 C N1 DA 9 G DA 430 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 B O4 DT 4 F DT 405 1_555 C N6 DA 9 G DA 430 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 B N1 DG 5 F DG 406 1_555 C N3 DC 8 G DC 428 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 B N2 DG 5 F DG 406 1_555 C O2 DC 8 G DC 428 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 B O6 DG 5 F DG 406 1_555 C N4 DC 8 G DC 428 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 B N1 DG 7 F DG 408 1_555 C N3 DC 6 G DC 426 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 B N2 DG 7 F DG 408 1_555 C O2 DC 6 G DC 426 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 B O6 DG 7 F DG 408 1_555 C N4 DC 6 G DC 426 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 B N3 DC 8 F DC 409 1_555 C N1 DG 5 G DG 425 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 B N4 DC 8 F DC 409 1_555 C O6 DG 5 G DG 425 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 B O2 DC 8 F DC 409 1_555 C N2 DG 5 G DG 425 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 B N3 DT 9 F DT 410 1_555 C N1 DA 4 G DA 424 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 B O4 DT 9 F DT 410 1_555 C N6 DA 4 G DA 424 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 B N1 DG 10 F DG 411 1_555 C N3 DC 3 G DC 423 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 B N2 DG 10 F DG 411 1_555 C O2 DC 3 G DC 423 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 B O6 DG 10 F DG 411 1_555 C N4 DC 3 G DC 423 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 B N1 DA 11 F DA 412 1_555 C N3 DT 2 G DT 422 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 B N6 DA 11 F DA 412 1_555 C O4 DT 2 G DT 422 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 B N3 DC 12 F DC 413 1_555 C N1 DG 1 G DG 421 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog28 B N4 DC 12 F DC 413 1_555 C O6 DG 1 G DG 421 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog29 B O2 DC 12 F DC 413 1_555 C N2 DG 1 G DG 421 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _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 316 n n C1 C2 GOL sing 317 n n C1 H11 GOL sing 318 n n C1 H12 GOL sing 319 n n O1 HO1 GOL sing 320 n n C2 O2 GOL sing 321 n n C2 C3 GOL sing 322 n n C2 H2 GOL sing 323 n n O2 HO2 GOL sing 324 n n C3 O3 GOL sing 325 n n C3 H31 GOL sing 326 n n C3 H32 GOL sing 327 n n O3 HO3 GOL sing 328 n n # _atom_sites.entry_id 3F8J _atom_sites.fract_transf_matrix[1][1] 0.016215 _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] 0.010918 _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] 0.008438 _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 D 4 GOL B 1 191 191 GOL GOL . E 4 GOL B 1 192 192 GOL GOL . F 4 GOL B 1 193 193 GOL GOL . G 4 GOL B 1 194 194 GOL GOL . H 4 GOL B 1 195 195 GOL GOL . I 4 GOL B 1 196 196 GOL GOL . J 4 GOL B 1 197 197 GOL GOL . K 4 GOL B 1 198 198 GOL GOL . L 4 GOL B 1 199 199 GOL GOL . M 5 HOH B 1 2 2 HOH HOH . M 5 HOH B 2 3 3 HOH HOH . M 5 HOH B 3 4 4 HOH HOH . M 5 HOH B 4 5 5 HOH HOH . M 5 HOH B 5 6 6 HOH HOH . M 5 HOH B 6 7 7 HOH HOH . M 5 HOH B 7 9 9 HOH HOH . M 5 HOH B 8 10 10 HOH HOH . M 5 HOH B 9 11 11 HOH HOH . M 5 HOH B 10 12 12 HOH HOH . M 5 HOH B 11 13 13 HOH HOH . M 5 HOH B 12 14 14 HOH HOH . M 5 HOH B 13 15 15 HOH HOH . M 5 HOH B 14 16 16 HOH HOH . M 5 HOH B 15 17 17 HOH HOH . M 5 HOH B 16 18 18 HOH HOH . M 5 HOH B 17 21 21 HOH HOH . M 5 HOH B 18 23 23 HOH HOH . M 5 HOH B 19 24 24 HOH HOH . M 5 HOH B 20 25 25 HOH HOH . M 5 HOH B 21 27 27 HOH HOH . M 5 HOH B 22 29 29 HOH HOH . M 5 HOH B 23 30 30 HOH HOH . M 5 HOH B 24 32 32 HOH HOH . M 5 HOH B 25 38 38 HOH HOH . M 5 HOH B 26 40 40 HOH HOH . M 5 HOH B 27 41 41 HOH HOH . M 5 HOH B 28 42 42 HOH HOH . M 5 HOH B 29 43 43 HOH HOH . M 5 HOH B 30 44 44 HOH HOH . M 5 HOH B 31 47 47 HOH HOH . M 5 HOH B 32 49 49 HOH HOH . M 5 HOH B 33 50 50 HOH HOH . M 5 HOH B 34 51 51 HOH HOH . M 5 HOH B 35 52 52 HOH HOH . M 5 HOH B 36 53 53 HOH HOH . M 5 HOH B 37 54 54 HOH HOH . M 5 HOH B 38 55 55 HOH HOH . M 5 HOH B 39 59 59 HOH HOH . M 5 HOH B 40 60 60 HOH HOH . M 5 HOH B 41 61 61 HOH HOH . M 5 HOH B 42 62 62 HOH HOH . M 5 HOH B 43 63 63 HOH HOH . M 5 HOH B 44 64 64 HOH HOH . M 5 HOH B 45 65 65 HOH HOH . M 5 HOH B 46 69 69 HOH HOH . M 5 HOH B 47 70 70 HOH HOH . M 5 HOH B 48 71 71 HOH HOH . M 5 HOH B 49 72 72 HOH HOH . M 5 HOH B 50 75 75 HOH HOH . M 5 HOH B 51 77 77 HOH HOH . M 5 HOH B 52 79 79 HOH HOH . M 5 HOH B 53 81 81 HOH HOH . M 5 HOH B 54 82 82 HOH HOH . M 5 HOH B 55 83 83 HOH HOH . M 5 HOH B 56 84 84 HOH HOH . M 5 HOH B 57 86 86 HOH HOH . M 5 HOH B 58 87 87 HOH HOH . M 5 HOH B 59 88 88 HOH HOH . M 5 HOH B 60 89 89 HOH HOH . M 5 HOH B 61 90 90 HOH HOH . M 5 HOH B 62 91 91 HOH HOH . M 5 HOH B 63 92 92 HOH HOH . M 5 HOH B 64 93 93 HOH HOH . M 5 HOH B 65 94 94 HOH HOH . M 5 HOH B 66 96 96 HOH HOH . M 5 HOH B 67 97 97 HOH HOH . M 5 HOH B 68 98 98 HOH HOH . M 5 HOH B 69 100 100 HOH HOH . M 5 HOH B 70 102 102 HOH HOH . M 5 HOH B 71 104 104 HOH HOH . M 5 HOH B 72 105 105 HOH HOH . M 5 HOH B 73 106 106 HOH HOH . M 5 HOH B 74 108 108 HOH HOH . M 5 HOH B 75 110 110 HOH HOH . M 5 HOH B 76 111 111 HOH HOH . M 5 HOH B 77 112 112 HOH HOH . M 5 HOH B 78 113 113 HOH HOH . M 5 HOH B 79 114 114 HOH HOH . M 5 HOH B 80 115 115 HOH HOH . M 5 HOH B 81 116 116 HOH HOH . M 5 HOH B 82 117 117 HOH HOH . M 5 HOH B 83 119 119 HOH HOH . M 5 HOH B 84 120 120 HOH HOH . M 5 HOH B 85 121 121 HOH HOH . M 5 HOH B 86 124 124 HOH HOH . M 5 HOH B 87 126 126 HOH HOH . M 5 HOH B 88 127 127 HOH HOH . M 5 HOH B 89 128 128 HOH HOH . M 5 HOH B 90 129 129 HOH HOH . M 5 HOH B 91 130 130 HOH HOH . M 5 HOH B 92 131 131 HOH HOH . M 5 HOH B 93 134 134 HOH HOH . M 5 HOH B 94 135 135 HOH HOH . M 5 HOH B 95 136 136 HOH HOH . M 5 HOH B 96 138 138 HOH HOH . M 5 HOH B 97 139 139 HOH HOH . M 5 HOH B 98 142 142 HOH HOH . M 5 HOH B 99 144 144 HOH HOH . M 5 HOH B 100 145 145 HOH HOH . M 5 HOH B 101 146 146 HOH HOH . M 5 HOH B 102 147 147 HOH HOH . M 5 HOH B 103 148 148 HOH HOH . M 5 HOH B 104 149 149 HOH HOH . M 5 HOH B 105 150 150 HOH HOH . M 5 HOH B 106 151 151 HOH HOH . M 5 HOH B 107 152 152 HOH HOH . M 5 HOH B 108 154 154 HOH HOH . M 5 HOH B 109 155 155 HOH HOH . M 5 HOH B 110 156 156 HOH HOH . M 5 HOH B 111 157 157 HOH HOH . M 5 HOH B 112 159 159 HOH HOH . M 5 HOH B 113 160 160 HOH HOH . M 5 HOH B 114 161 161 HOH HOH . M 5 HOH B 115 163 163 HOH HOH . M 5 HOH B 116 164 164 HOH HOH . M 5 HOH B 117 169 169 HOH HOH . M 5 HOH B 118 171 171 HOH HOH . M 5 HOH B 119 173 173 HOH HOH . M 5 HOH B 120 174 174 HOH HOH . M 5 HOH B 121 175 175 HOH HOH . M 5 HOH B 122 178 178 HOH HOH . M 5 HOH B 123 179 179 HOH HOH . N 5 HOH F 1 8 8 HOH HOH . N 5 HOH F 2 19 19 HOH HOH . N 5 HOH F 3 20 20 HOH HOH . N 5 HOH F 4 28 28 HOH HOH . N 5 HOH F 5 31 31 HOH HOH . N 5 HOH F 6 78 78 HOH HOH . N 5 HOH F 7 80 80 HOH HOH . N 5 HOH F 8 85 85 HOH HOH . N 5 HOH F 9 107 107 HOH HOH . N 5 HOH F 10 109 109 HOH HOH . N 5 HOH F 11 123 123 HOH HOH . N 5 HOH F 12 125 125 HOH HOH . N 5 HOH F 13 132 132 HOH HOH . N 5 HOH F 14 133 133 HOH HOH . N 5 HOH F 15 137 137 HOH HOH . N 5 HOH F 16 141 141 HOH HOH . N 5 HOH F 17 158 158 HOH HOH . N 5 HOH F 18 167 167 HOH HOH . N 5 HOH F 19 168 168 HOH HOH . N 5 HOH F 20 172 172 HOH HOH . N 5 HOH F 21 177 177 HOH HOH . N 5 HOH F 22 180 180 HOH HOH . O 5 HOH G 1 33 33 HOH HOH . O 5 HOH G 2 46 46 HOH HOH . O 5 HOH G 3 66 66 HOH HOH . O 5 HOH G 4 68 68 HOH HOH . O 5 HOH G 5 74 74 HOH HOH . O 5 HOH G 6 76 76 HOH HOH . O 5 HOH G 7 95 95 HOH HOH . O 5 HOH G 8 99 99 HOH HOH . O 5 HOH G 9 101 101 HOH HOH . O 5 HOH G 10 122 122 HOH HOH . O 5 HOH G 11 140 140 HOH HOH . O 5 HOH G 12 143 143 HOH HOH . O 5 HOH G 13 162 162 HOH HOH . O 5 HOH G 14 165 165 HOH HOH . O 5 HOH G 15 166 166 HOH HOH . O 5 HOH G 16 176 176 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 . . . L 4 28.965 -17.495 -0.468 1 47.79 ? C1 GOL 199 B 1 HETATM 2 O O1 GOL . . . L 4 28.915 -16.332 -1.56 1 45.35 ? O1 GOL 199 B 1 HETATM 3 C C2 GOL . . . L 4 29.862 -17.579 0.587 1 50.33 ? C2 GOL 199 B 1 HETATM 4 O O2 GOL . . . L 4 29.223 -17.943 1.707 1 52.38 ? O2 GOL 199 B 1 HETATM 5 C C3 GOL . . . L 4 30.983 -17.592 0.144 1 48.8 ? C3 GOL 199 B 1 HETATM 6 O O3 GOL . . . L 4 32.289 -17.092 -0.542 1 50.21 ? O3 GOL 199 B 1 # _model_server_stats.io_time_ms 25 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 292 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 6 #