data_5YPP # _model_server_result.job_id 59SWv0qd_Ns7hhEOFAOwXA _model_server_result.datetime_utc '2024-11-22 14:05:16' _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 5ypp # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":103}' # _entry.id 5YPP # _exptl.entry_id 5YPP _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 106.12 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description DI(HYDROXYETHYL)ETHER _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 119.99 _cell.angle_gamma 90 _cell.entry_id 5YPP _cell.length_a 66.03 _cell.length_b 80.62 _cell.length_c 66.04 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5YPP _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 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 PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 PISA dimeric 2 author_and_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,B,G,H,I,J,K,W,X 1 1 C,D,L,M,N,O,P,Y,Z 2 1 E,F,Q,R,S,T,U,V,AA,BA 3 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 I N N ? 3 J N N ? 3 K N N ? 3 N N N ? 3 O N N ? 3 P N N ? 3 R N N ? 3 U N N ? 3 V N N # _chem_comp.formula 'C4 H10 O3' _chem_comp.formula_weight 106.12 _chem_comp.id PEG _chem_comp.mon_nstd_flag . _chem_comp.name DI(HYDROXYETHYL)ETHER _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 PEG sing 243 n n C1 C2 PEG sing 244 n n C1 H11 PEG sing 245 n n C1 H12 PEG sing 246 n n O1 HO1 PEG sing 247 n n C2 O2 PEG sing 248 n n C2 H21 PEG sing 249 n n C2 H22 PEG sing 250 n n O2 C3 PEG sing 251 n n C3 C4 PEG sing 252 n n C3 H31 PEG sing 253 n n C3 H32 PEG sing 254 n n C4 O4 PEG sing 255 n n C4 H41 PEG sing 256 n n C4 H42 PEG sing 257 n n O4 HO4 PEG sing 258 n n # _atom_sites.entry_id 5YPP _atom_sites.fract_transf_matrix[1][1] 0.015145 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.00874 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012404 _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] 0.017483 _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 G 2 VAL A 1 101 101 VAL VAL . H 2 VAL A 1 102 101 VAL VAL . I 3 PEG A 1 103 3 PEG PEG . J 3 PEG B 1 101 1 PEG PEG . K 3 PEG B 1 102 2 PEG PEG . L 2 VAL C 1 101 101 VAL VAL . M 2 VAL C 1 102 101 VAL VAL . N 3 PEG C 1 103 4 PEG PEG . O 3 PEG C 1 104 5 PEG PEG . P 3 PEG D 1 101 6 PEG PEG . Q 2 VAL E 1 101 101 VAL VAL . R 3 PEG E 1 102 8 PEG PEG . S 2 VAL F 1 101 101 VAL VAL . T 4 ACT F 1 102 2 ACT ACT . U 3 PEG F 1 103 7 PEG PEG . V 3 PEG F 1 104 9 PEG PEG . W 5 HOH A 1 201 20 HOH HOH . W 5 HOH A 2 202 105 HOH HOH . W 5 HOH A 3 203 44 HOH HOH . W 5 HOH A 4 204 39 HOH HOH . W 5 HOH A 5 205 2 HOH HOH . W 5 HOH A 6 206 86 HOH HOH . W 5 HOH A 7 207 12 HOH HOH . W 5 HOH A 8 208 137 HOH HOH . W 5 HOH A 9 209 1 HOH HOH . W 5 HOH A 10 210 70 HOH HOH . W 5 HOH A 11 211 45 HOH HOH . W 5 HOH A 12 212 34 HOH HOH . W 5 HOH A 13 213 149 HOH HOH . W 5 HOH A 14 214 79 HOH HOH . W 5 HOH A 15 215 51 HOH HOH . W 5 HOH A 16 216 82 HOH HOH . W 5 HOH A 17 217 139 HOH HOH . W 5 HOH A 18 218 155 HOH HOH . W 5 HOH A 19 219 178 HOH HOH . W 5 HOH A 20 220 69 HOH HOH . W 5 HOH A 21 221 161 HOH HOH . W 5 HOH A 22 222 84 HOH HOH . W 5 HOH A 23 223 115 HOH HOH . W 5 HOH A 24 224 75 HOH HOH . W 5 HOH A 25 225 187 HOH HOH . X 5 HOH B 1 201 28 HOH HOH . X 5 HOH B 2 202 190 HOH HOH . X 5 HOH B 3 203 9 HOH HOH . X 5 HOH B 4 204 61 HOH HOH . X 5 HOH B 5 205 126 HOH HOH . X 5 HOH B 6 206 116 HOH HOH . X 5 HOH B 7 207 88 HOH HOH . X 5 HOH B 8 208 89 HOH HOH . X 5 HOH B 9 209 192 HOH HOH . X 5 HOH B 10 210 87 HOH HOH . X 5 HOH B 11 211 140 HOH HOH . X 5 HOH B 12 212 64 HOH HOH . X 5 HOH B 13 213 25 HOH HOH . X 5 HOH B 14 214 72 HOH HOH . X 5 HOH B 15 215 114 HOH HOH . X 5 HOH B 16 216 78 HOH HOH . X 5 HOH B 17 217 95 HOH HOH . X 5 HOH B 18 218 163 HOH HOH . Y 5 HOH C 1 201 173 HOH HOH . Y 5 HOH C 2 202 59 HOH HOH . Y 5 HOH C 3 203 16 HOH HOH . Y 5 HOH C 4 204 174 HOH HOH . Y 5 HOH C 5 205 30 HOH HOH . Y 5 HOH C 6 206 8 HOH HOH . Y 5 HOH C 7 207 62 HOH HOH . Y 5 HOH C 8 208 119 HOH HOH . Y 5 HOH C 9 209 191 HOH HOH . Y 5 HOH C 10 210 36 HOH HOH . Y 5 HOH C 11 211 179 HOH HOH . Y 5 HOH C 12 212 11 HOH HOH . Y 5 HOH C 13 213 134 HOH HOH . Y 5 HOH C 14 214 90 HOH HOH . Y 5 HOH C 15 215 145 HOH HOH . Y 5 HOH C 16 216 151 HOH HOH . Y 5 HOH C 17 217 167 HOH HOH . Y 5 HOH C 18 218 68 HOH HOH . Y 5 HOH C 19 219 185 HOH HOH . Z 5 HOH D 1 201 13 HOH HOH . Z 5 HOH D 2 202 29 HOH HOH . Z 5 HOH D 3 203 26 HOH HOH . Z 5 HOH D 4 204 7 HOH HOH . Z 5 HOH D 5 205 6 HOH HOH . Z 5 HOH D 6 206 98 HOH HOH . Z 5 HOH D 7 207 120 HOH HOH . Z 5 HOH D 8 208 176 HOH HOH . Z 5 HOH D 9 209 152 HOH HOH . Z 5 HOH D 10 210 15 HOH HOH . Z 5 HOH D 11 211 153 HOH HOH . Z 5 HOH D 12 212 100 HOH HOH . Z 5 HOH D 13 213 93 HOH HOH . Z 5 HOH D 14 214 47 HOH HOH . Z 5 HOH D 15 215 96 HOH HOH . Z 5 HOH D 16 216 175 HOH HOH . Z 5 HOH D 17 217 188 HOH HOH . Z 5 HOH D 18 218 102 HOH HOH . Z 5 HOH D 19 219 165 HOH HOH . Z 5 HOH D 20 220 50 HOH HOH . Z 5 HOH D 21 221 32 HOH HOH . Z 5 HOH D 22 222 97 HOH HOH . Z 5 HOH D 23 223 101 HOH HOH . Z 5 HOH D 24 224 124 HOH HOH . Z 5 HOH D 25 225 181 HOH HOH . AA 5 HOH E 1 201 3 HOH HOH . AA 5 HOH E 2 202 183 HOH HOH . AA 5 HOH E 3 203 122 HOH HOH . AA 5 HOH E 4 204 186 HOH HOH . AA 5 HOH E 5 205 4 HOH HOH . AA 5 HOH E 6 206 136 HOH HOH . AA 5 HOH E 7 207 18 HOH HOH . AA 5 HOH E 8 208 24 HOH HOH . AA 5 HOH E 9 209 10 HOH HOH . AA 5 HOH E 10 210 123 HOH HOH . AA 5 HOH E 11 211 55 HOH HOH . AA 5 HOH E 12 212 170 HOH HOH . AA 5 HOH E 13 213 76 HOH HOH . AA 5 HOH E 14 214 108 HOH HOH . AA 5 HOH E 15 215 27 HOH HOH . AA 5 HOH E 16 216 49 HOH HOH . AA 5 HOH E 17 217 112 HOH HOH . AA 5 HOH E 18 218 54 HOH HOH . AA 5 HOH E 19 219 157 HOH HOH . AA 5 HOH E 20 220 169 HOH HOH . AA 5 HOH E 21 221 158 HOH HOH . AA 5 HOH E 22 222 109 HOH HOH . AA 5 HOH E 23 223 182 HOH HOH . AA 5 HOH E 24 224 148 HOH HOH . AA 5 HOH E 25 225 110 HOH HOH . BA 5 HOH F 1 201 66 HOH HOH . BA 5 HOH F 2 202 177 HOH HOH . BA 5 HOH F 3 203 193 HOH HOH . BA 5 HOH F 4 204 104 HOH HOH . BA 5 HOH F 5 205 133 HOH HOH . BA 5 HOH F 6 206 130 HOH HOH . BA 5 HOH F 7 207 17 HOH HOH . BA 5 HOH F 8 208 14 HOH HOH . BA 5 HOH F 9 209 106 HOH HOH . BA 5 HOH F 10 210 146 HOH HOH . BA 5 HOH F 11 211 141 HOH HOH . BA 5 HOH F 12 212 189 HOH HOH . BA 5 HOH F 13 213 41 HOH HOH . BA 5 HOH F 14 214 168 HOH HOH . BA 5 HOH F 15 215 31 HOH HOH . BA 5 HOH F 16 216 71 HOH HOH . BA 5 HOH F 17 217 147 HOH HOH . BA 5 HOH F 18 218 156 HOH HOH . BA 5 HOH F 19 219 166 HOH HOH . BA 5 HOH F 20 220 142 HOH HOH . BA 5 HOH F 21 221 184 HOH HOH . BA 5 HOH F 22 222 43 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 PEG . . . N 3 -21.572 42.102 9.349 1 51.89 ? C1 PEG 103 C 1 HETATM 2 O O1 PEG . . . N 3 -20.853 40.956 9.714 1 45 ? O1 PEG 103 C 1 HETATM 3 C C2 PEG . . . N 3 -21.485 43.155 10.456 1 56.37 ? C2 PEG 103 C 1 HETATM 4 O O2 PEG . . . N 3 -21.984 44.381 9.988 1 59.02 ? O2 PEG 103 C 1 HETATM 5 C C3 PEG . . . N 3 -22.544 45.199 10.978 1 60.34 ? C3 PEG 103 C 1 HETATM 6 C C4 PEG . . . N 3 -23.157 46.451 10.348 1 59.89 ? C4 PEG 103 C 1 HETATM 7 O O4 PEG . . . N 3 -24.318 46.116 9.635 1 56.66 ? O4 PEG 103 C 1 # _model_server_stats.io_time_ms 26 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 290 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 7 #