data_3NFK # _model_server_result.job_id MWhwronakV22mTsP0EGPig _model_server_result.datetime_utc '2024-12-13 15:39:45' _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 3nfk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":1}' # _entry.id 3NFK # _exptl.entry_id 3NFK _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 90 _cell.angle_gamma 90 _cell.entry_id 3NFK _cell.length_a 53.43 _cell.length_b 53.7 _cell.length_c 81.8 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3NFK _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 PISA tetrameric 4 software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E,F,G,I 1 1 B,D,H,J 2 1 C,I 3 2 A,B,D,E,F,G,H,J 3 1 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 3_645 -x+1,y-1/2,-z+1/2 -1 0 0 0 1 0 0 0 -1 53.43 -26.85 40.9 # 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 A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 93 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 590 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id SG _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 93 _struct_conn.ptnr2_auth_asym_id B _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 590 _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 2.076 _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 3NFK _atom_sites.fract_transf_matrix[1][1] 0.018716 _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] 0.018622 _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] 0.012225 _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 1 1 GOL GOL . F 3 GOL A 1 605 1 GOL GOL . G 4 HOH A 1 2 2 HOH HOH . G 4 HOH A 2 4 4 HOH HOH . G 4 HOH A 3 5 5 HOH HOH . G 4 HOH A 4 6 6 HOH HOH . G 4 HOH A 5 8 8 HOH HOH . G 4 HOH A 6 9 9 HOH HOH . G 4 HOH A 7 10 10 HOH HOH . G 4 HOH A 8 11 11 HOH HOH . G 4 HOH A 9 13 13 HOH HOH . G 4 HOH A 10 14 14 HOH HOH . G 4 HOH A 11 15 15 HOH HOH . G 4 HOH A 12 17 17 HOH HOH . G 4 HOH A 13 18 18 HOH HOH . G 4 HOH A 14 19 19 HOH HOH . G 4 HOH A 15 20 20 HOH HOH . G 4 HOH A 16 22 22 HOH HOH . G 4 HOH A 17 23 23 HOH HOH . G 4 HOH A 18 24 24 HOH HOH . G 4 HOH A 19 25 25 HOH HOH . G 4 HOH A 20 26 26 HOH HOH . G 4 HOH A 21 27 27 HOH HOH . G 4 HOH A 22 28 28 HOH HOH . G 4 HOH A 23 29 29 HOH HOH . G 4 HOH A 24 31 31 HOH HOH . G 4 HOH A 25 32 32 HOH HOH . G 4 HOH A 26 34 34 HOH HOH . G 4 HOH A 27 36 36 HOH HOH . G 4 HOH A 28 37 37 HOH HOH . G 4 HOH A 29 40 40 HOH HOH . G 4 HOH A 30 42 42 HOH HOH . G 4 HOH A 31 49 49 HOH HOH . G 4 HOH A 32 50 50 HOH HOH . G 4 HOH A 33 55 55 HOH HOH . G 4 HOH A 34 59 59 HOH HOH . G 4 HOH A 35 61 61 HOH HOH . G 4 HOH A 36 66 66 HOH HOH . G 4 HOH A 37 72 72 HOH HOH . G 4 HOH A 38 73 73 HOH HOH . G 4 HOH A 39 74 74 HOH HOH . G 4 HOH A 40 75 75 HOH HOH . G 4 HOH A 41 79 79 HOH HOH . G 4 HOH A 42 88 88 HOH HOH . G 4 HOH A 43 91 91 HOH HOH . G 4 HOH A 44 94 94 HOH HOH . G 4 HOH A 45 96 96 HOH HOH . G 4 HOH A 46 98 98 HOH HOH . G 4 HOH A 47 99 99 HOH HOH . G 4 HOH A 48 101 101 HOH HOH . G 4 HOH A 49 103 103 HOH HOH . G 4 HOH A 50 104 104 HOH HOH . G 4 HOH A 51 105 105 HOH HOH . G 4 HOH A 52 106 106 HOH HOH . G 4 HOH A 53 108 108 HOH HOH . G 4 HOH A 54 109 109 HOH HOH . G 4 HOH A 55 111 111 HOH HOH . G 4 HOH A 56 113 113 HOH HOH . G 4 HOH A 57 117 117 HOH HOH . G 4 HOH A 58 125 125 HOH HOH . G 4 HOH A 59 127 127 HOH HOH . G 4 HOH A 60 130 130 HOH HOH . G 4 HOH A 61 131 131 HOH HOH . G 4 HOH A 62 133 133 HOH HOH . G 4 HOH A 63 134 134 HOH HOH . G 4 HOH A 64 137 137 HOH HOH . G 4 HOH A 65 138 138 HOH HOH . G 4 HOH A 66 139 139 HOH HOH . G 4 HOH A 67 142 142 HOH HOH . G 4 HOH A 68 150 150 HOH HOH . G 4 HOH A 69 151 151 HOH HOH . G 4 HOH A 70 161 161 HOH HOH . G 4 HOH A 71 163 163 HOH HOH . G 4 HOH A 72 164 164 HOH HOH . G 4 HOH A 73 170 170 HOH HOH . G 4 HOH A 74 173 173 HOH HOH . G 4 HOH A 75 179 179 HOH HOH . G 4 HOH A 76 180 180 HOH HOH . G 4 HOH A 77 182 182 HOH HOH . G 4 HOH A 78 187 187 HOH HOH . G 4 HOH A 79 188 188 HOH HOH . G 4 HOH A 80 196 196 HOH HOH . G 4 HOH A 81 199 199 HOH HOH . G 4 HOH A 82 203 203 HOH HOH . G 4 HOH A 83 205 205 HOH HOH . G 4 HOH A 84 212 212 HOH HOH . G 4 HOH A 85 216 216 HOH HOH . G 4 HOH A 86 221 221 HOH HOH . G 4 HOH A 87 249 249 HOH HOH . G 4 HOH A 88 250 250 HOH HOH . G 4 HOH A 89 256 256 HOH HOH . G 4 HOH A 90 258 258 HOH HOH . G 4 HOH A 91 262 262 HOH HOH . G 4 HOH A 92 266 266 HOH HOH . G 4 HOH A 93 280 280 HOH HOH . G 4 HOH A 94 303 303 HOH HOH . G 4 HOH A 95 307 307 HOH HOH . G 4 HOH A 96 311 311 HOH HOH . G 4 HOH A 97 315 315 HOH HOH . G 4 HOH A 98 318 318 HOH HOH . G 4 HOH A 99 323 323 HOH HOH . H 4 HOH B 1 12 12 HOH HOH . H 4 HOH B 2 16 16 HOH HOH . H 4 HOH B 3 30 30 HOH HOH . H 4 HOH B 4 33 33 HOH HOH . H 4 HOH B 5 35 35 HOH HOH . H 4 HOH B 6 38 38 HOH HOH . H 4 HOH B 7 39 39 HOH HOH . H 4 HOH B 8 43 43 HOH HOH . H 4 HOH B 9 44 44 HOH HOH . H 4 HOH B 10 47 47 HOH HOH . H 4 HOH B 11 48 48 HOH HOH . H 4 HOH B 12 52 52 HOH HOH . H 4 HOH B 13 57 57 HOH HOH . H 4 HOH B 14 60 60 HOH HOH . H 4 HOH B 15 63 63 HOH HOH . H 4 HOH B 16 64 64 HOH HOH . H 4 HOH B 17 71 71 HOH HOH . H 4 HOH B 18 77 77 HOH HOH . H 4 HOH B 19 78 78 HOH HOH . H 4 HOH B 20 80 80 HOH HOH . H 4 HOH B 21 82 82 HOH HOH . H 4 HOH B 22 83 83 HOH HOH . H 4 HOH B 23 84 84 HOH HOH . H 4 HOH B 24 85 85 HOH HOH . H 4 HOH B 25 89 89 HOH HOH . H 4 HOH B 26 90 90 HOH HOH . H 4 HOH B 27 93 93 HOH HOH . H 4 HOH B 28 95 95 HOH HOH . H 4 HOH B 29 110 110 HOH HOH . H 4 HOH B 30 112 112 HOH HOH . H 4 HOH B 31 115 115 HOH HOH . H 4 HOH B 32 116 116 HOH HOH . H 4 HOH B 33 122 122 HOH HOH . H 4 HOH B 34 123 123 HOH HOH . H 4 HOH B 35 129 129 HOH HOH . H 4 HOH B 36 136 136 HOH HOH . H 4 HOH B 37 147 147 HOH HOH . H 4 HOH B 38 149 149 HOH HOH . H 4 HOH B 39 152 152 HOH HOH . H 4 HOH B 40 158 158 HOH HOH . H 4 HOH B 41 159 159 HOH HOH . H 4 HOH B 42 167 167 HOH HOH . H 4 HOH B 43 178 178 HOH HOH . H 4 HOH B 44 181 181 HOH HOH . H 4 HOH B 45 185 185 HOH HOH . H 4 HOH B 46 192 192 HOH HOH . H 4 HOH B 47 198 198 HOH HOH . H 4 HOH B 48 217 217 HOH HOH . H 4 HOH B 49 224 224 HOH HOH . H 4 HOH B 50 226 226 HOH HOH . H 4 HOH B 51 298 298 HOH HOH . H 4 HOH B 52 302 302 HOH HOH . H 4 HOH B 53 310 310 HOH HOH . H 4 HOH B 54 312 312 HOH HOH . H 4 HOH B 55 313 313 HOH HOH . H 4 HOH B 56 314 314 HOH HOH . H 4 HOH B 57 316 316 HOH HOH . H 4 HOH B 58 317 317 HOH HOH . H 4 HOH B 59 322 322 HOH HOH . I 4 HOH C 1 14 3 HOH HOH . I 4 HOH C 2 15 7 HOH HOH . I 4 HOH C 3 21 21 HOH HOH . I 4 HOH C 4 41 41 HOH HOH . I 4 HOH C 5 45 45 HOH HOH . I 4 HOH C 6 53 53 HOH HOH . I 4 HOH C 7 54 54 HOH HOH . I 4 HOH C 8 58 58 HOH HOH . I 4 HOH C 9 65 65 HOH HOH . I 4 HOH C 10 67 67 HOH HOH . I 4 HOH C 11 69 69 HOH HOH . I 4 HOH C 12 81 81 HOH HOH . I 4 HOH C 13 87 87 HOH HOH . I 4 HOH C 14 92 92 HOH HOH . I 4 HOH C 15 107 107 HOH HOH . I 4 HOH C 16 118 118 HOH HOH . I 4 HOH C 17 191 191 HOH HOH . J 4 HOH D 1 51 51 HOH HOH . J 4 HOH D 2 56 56 HOH HOH . J 4 HOH D 3 68 68 HOH HOH . J 4 HOH D 4 76 76 HOH HOH . J 4 HOH D 5 296 296 HOH HOH . J 4 HOH D 6 309 309 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 15.466 -25.894 15.333 1 37.25 ? C1 GOL 1 A 1 HETATM 2 O O1 GOL . . . E 3 16.758 -25.259 15.128 1 38.59 ? O1 GOL 1 A 1 HETATM 3 C C2 GOL . . . E 3 15.509 -26.958 16.437 1 36.37 ? C2 GOL 1 A 1 HETATM 4 O O2 GOL . . . E 3 16.653 -26.735 17.21 1 37.74 ? O2 GOL 1 A 1 HETATM 5 C C3 GOL . . . E 3 14.443 -26.614 17.426 1 35.33 ? C3 GOL 1 A 1 HETATM 6 O O3 GOL . . . E 3 14.293 -27.667 18.332 1 30.41 ? O3 GOL 1 A 1 # _model_server_stats.io_time_ms 53 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 341 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 6 #