data_3NJ1 # _model_server_result.job_id 3XmHWtTZ7XZHTPRjsXnuoQ _model_server_result.datetime_utc '2025-06-18 23:52:08' _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 3nj1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":191}' # _entry.id 3NJ1 # _exptl.entry_id 3NJ1 _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 1 _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 120 _cell.entry_id 3NJ1 _cell.length_a 61.754 _cell.length_b 61.754 _cell.length_c 222.002 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3NJ1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 12_565 x,x-y+1,-z+1/6 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 -30.877 53.480533 37.000333 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _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 3NJ1 _atom_sites.fract_transf_matrix[1][1] 0.016193 _atom_sites.fract_transf_matrix[1][2] 0.009349 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018698 _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] 0.004504 _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 PYV A 1 300 300 PYV PYV . C 3 P2M A 1 301 301 P2M P2M . D 4 GOL A 1 191 191 GOL GOL . E 5 HOH A 1 192 192 HOH HOH . E 5 HOH A 2 193 193 HOH HOH . E 5 HOH A 3 194 194 HOH HOH . E 5 HOH A 4 195 195 HOH HOH . E 5 HOH A 5 196 196 HOH HOH . E 5 HOH A 6 197 197 HOH HOH . E 5 HOH A 7 198 198 HOH HOH . E 5 HOH A 8 199 199 HOH HOH . E 5 HOH A 9 200 200 HOH HOH . E 5 HOH A 10 201 201 HOH HOH . E 5 HOH A 11 202 202 HOH HOH . E 5 HOH A 12 203 203 HOH HOH . E 5 HOH A 13 204 204 HOH HOH . E 5 HOH A 14 205 205 HOH HOH . E 5 HOH A 15 206 206 HOH HOH . E 5 HOH A 16 207 207 HOH HOH . E 5 HOH A 17 208 208 HOH HOH . E 5 HOH A 18 209 209 HOH HOH . E 5 HOH A 19 210 210 HOH HOH . E 5 HOH A 20 211 211 HOH HOH . E 5 HOH A 21 212 212 HOH HOH . E 5 HOH A 22 213 213 HOH HOH . E 5 HOH A 23 214 214 HOH HOH . E 5 HOH A 24 215 215 HOH HOH . E 5 HOH A 25 216 216 HOH HOH . E 5 HOH A 26 217 217 HOH HOH . E 5 HOH A 27 218 218 HOH HOH . E 5 HOH A 28 219 219 HOH HOH . E 5 HOH A 29 220 220 HOH HOH . E 5 HOH A 30 221 221 HOH HOH . E 5 HOH A 31 222 222 HOH HOH . E 5 HOH A 32 223 223 HOH HOH . E 5 HOH A 33 224 224 HOH HOH . E 5 HOH A 34 225 225 HOH HOH . E 5 HOH A 35 226 226 HOH HOH . E 5 HOH A 36 227 227 HOH HOH . E 5 HOH A 37 228 228 HOH HOH . E 5 HOH A 38 229 229 HOH HOH . E 5 HOH A 39 230 230 HOH HOH . E 5 HOH A 40 231 231 HOH HOH . E 5 HOH A 41 232 232 HOH HOH . E 5 HOH A 42 233 233 HOH HOH . E 5 HOH A 43 234 234 HOH HOH . E 5 HOH A 44 235 235 HOH HOH . E 5 HOH A 45 236 236 HOH HOH . E 5 HOH A 46 237 237 HOH HOH . E 5 HOH A 47 238 238 HOH HOH . E 5 HOH A 48 239 239 HOH HOH . E 5 HOH A 49 240 240 HOH HOH . E 5 HOH A 50 241 241 HOH HOH . E 5 HOH A 51 242 242 HOH HOH . E 5 HOH A 52 243 243 HOH HOH . E 5 HOH A 53 244 244 HOH HOH . E 5 HOH A 54 245 245 HOH HOH . E 5 HOH A 55 246 246 HOH HOH . E 5 HOH A 56 247 247 HOH HOH . E 5 HOH A 57 248 248 HOH HOH . E 5 HOH A 58 249 249 HOH HOH . E 5 HOH A 59 250 250 HOH HOH . E 5 HOH A 60 251 251 HOH HOH . E 5 HOH A 61 252 252 HOH HOH . E 5 HOH A 62 253 253 HOH HOH . E 5 HOH A 63 254 254 HOH HOH . E 5 HOH A 64 255 255 HOH HOH . E 5 HOH A 65 256 256 HOH HOH . E 5 HOH A 66 257 257 HOH HOH . E 5 HOH A 67 258 258 HOH HOH . E 5 HOH A 68 259 259 HOH HOH . E 5 HOH A 69 260 260 HOH HOH . E 5 HOH A 70 261 261 HOH HOH . E 5 HOH A 71 262 262 HOH HOH . E 5 HOH A 72 263 263 HOH HOH . E 5 HOH A 73 264 264 HOH HOH . E 5 HOH A 74 265 265 HOH HOH . E 5 HOH A 75 266 266 HOH HOH . E 5 HOH A 76 267 267 HOH HOH . E 5 HOH A 77 268 268 HOH HOH . E 5 HOH A 78 269 269 HOH HOH . E 5 HOH A 79 270 270 HOH HOH . E 5 HOH A 80 271 271 HOH HOH . E 5 HOH A 81 272 272 HOH HOH . E 5 HOH A 82 273 273 HOH HOH . E 5 HOH A 83 274 274 HOH HOH . E 5 HOH A 84 275 275 HOH HOH . E 5 HOH A 85 276 276 HOH HOH . E 5 HOH A 86 277 277 HOH HOH . E 5 HOH A 87 278 278 HOH HOH . E 5 HOH A 88 279 279 HOH HOH . E 5 HOH A 89 280 280 HOH HOH . E 5 HOH A 90 281 281 HOH HOH . E 5 HOH A 91 282 282 HOH HOH . E 5 HOH A 92 283 283 HOH HOH . E 5 HOH A 93 284 284 HOH HOH . E 5 HOH A 94 285 285 HOH HOH . E 5 HOH A 95 286 286 HOH HOH . E 5 HOH A 96 287 287 HOH HOH . E 5 HOH A 97 288 288 HOH HOH . E 5 HOH A 98 289 289 HOH HOH . E 5 HOH A 99 290 290 HOH HOH . E 5 HOH A 100 291 291 HOH HOH . E 5 HOH A 101 292 292 HOH HOH . E 5 HOH A 102 293 293 HOH HOH . E 5 HOH A 103 294 294 HOH HOH . E 5 HOH A 104 295 295 HOH HOH . E 5 HOH A 105 296 296 HOH HOH . E 5 HOH A 106 297 297 HOH HOH . E 5 HOH A 107 298 298 HOH HOH . E 5 HOH A 108 299 299 HOH HOH . E 5 HOH A 109 302 302 HOH HOH . E 5 HOH A 110 303 303 HOH HOH . E 5 HOH A 111 304 304 HOH HOH . E 5 HOH A 112 305 301 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 . . . D 4 6.535 15.638 -6.635 1 93.67 ? C1 GOL 191 A 1 HETATM 2 O O1 GOL . . . D 4 6.784 14.535 -7.478 1 100.2 ? O1 GOL 191 A 1 HETATM 3 C C2 GOL . . . D 4 5.317 15.347 -5.765 1 82.6 ? C2 GOL 191 A 1 HETATM 4 O O2 GOL . . . D 4 4.648 16.554 -5.476 1 69.34 ? O2 GOL 191 A 1 HETATM 5 C C3 GOL . . . D 4 4.375 14.408 -6.508 1 81.9 ? C3 GOL 191 A 1 HETATM 6 O O3 GOL . . . D 4 3.136 14.357 -5.835 1 77.19 ? O3 GOL 191 A 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 378 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 6 #