data_1ZYB # _model_server_result.job_id ZPoQU2stIi7CSICNFBJVDg _model_server_result.datetime_utc '2024-12-21 16:15:56' _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 1zyb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":222}' # _entry.id 1ZYB # _exptl.entry_id 1ZYB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _entity.pdbx_number_of_molecules 7 _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 1ZYB _cell.length_a 115.98 _cell.length_b 115.98 _cell.length_c 119.639 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1ZYB _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65 2 2' # _pdbx_struct_assembly.method_details PISA,PQS _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,F,G,H,I _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_564 x,x-y+1,-z-1/6 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 -57.99 100.441626 -19.939833 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 B N N ? 2 C N N ? 2 D N N ? 2 E N N ? 2 F N N ? 2 G N N ? 2 H 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 disulf ? disulf1 A SG CYS 65 A CYS 53 1_555 A SG CYS 121 A CYS 109 1_555 ? B ? ? B ? ? ? ? ? ? ? 2.055 ? covale ? covale1 A C HIS 12 A HIS 0 1_555 A N MSE 13 A MSE 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale2 A C MSE 13 A MSE 1 1_555 A N GLU 14 A GLU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale3 A C THR 15 A THR 3 1_555 A N MSE 16 A MSE 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale4 A C MSE 16 A MSE 4 1_555 A N PHE 17 A PHE 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.321 ? covale ? covale5 A C GLY 102 A GLY 90 1_555 A N MSE 103 A MSE 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale6 A C MSE 103 A MSE 91 1_555 A N ASN 104 A ASN 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale7 A C TYR 141 A TYR 129 1_555 A N MSE 142 A MSE 130 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale8 A C MSE 142 A MSE 130 1_555 A N ASN 143 A ASN 131 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? covale ? covale9 A C LYS 188 A LYS 176 1_555 A N MSE 189 A MSE 177 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.307 ? covale ? covale10 A C MSE 189 A MSE 177 1_555 A N ASP 190 A ASP 178 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? # _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 1ZYB _atom_sites.fract_transf_matrix[1][1] 0.00862 _atom_sites.fract_transf_matrix[1][2] 0.00498 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00996 _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] 0.00836 _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 GOL A 1 221 1 GOL GOL . C 2 GOL A 1 222 2 GOL GOL . D 2 GOL A 1 223 3 GOL GOL . E 2 GOL A 1 224 4 GOL GOL . F 2 GOL A 1 225 5 GOL GOL . G 2 GOL A 1 226 6 GOL GOL . H 2 GOL A 1 227 7 GOL GOL . I 3 HOH A 1 228 8 HOH HOH . I 3 HOH A 2 229 9 HOH HOH . I 3 HOH A 3 230 10 HOH HOH . I 3 HOH A 4 231 11 HOH HOH . I 3 HOH A 5 232 12 HOH HOH . I 3 HOH A 6 233 13 HOH HOH . I 3 HOH A 7 234 14 HOH HOH . I 3 HOH A 8 235 15 HOH HOH . I 3 HOH A 9 236 16 HOH HOH . I 3 HOH A 10 237 17 HOH HOH . I 3 HOH A 11 238 18 HOH HOH . I 3 HOH A 12 239 19 HOH HOH . I 3 HOH A 13 240 20 HOH HOH . I 3 HOH A 14 241 21 HOH HOH . I 3 HOH A 15 242 22 HOH HOH . I 3 HOH A 16 243 23 HOH HOH . I 3 HOH A 17 244 24 HOH HOH . I 3 HOH A 18 245 25 HOH HOH . I 3 HOH A 19 246 26 HOH HOH . I 3 HOH A 20 247 27 HOH HOH . I 3 HOH A 21 248 28 HOH HOH . I 3 HOH A 22 249 29 HOH HOH . I 3 HOH A 23 250 30 HOH HOH . I 3 HOH A 24 251 31 HOH HOH . I 3 HOH A 25 252 32 HOH HOH . I 3 HOH A 26 253 33 HOH HOH . I 3 HOH A 27 254 34 HOH HOH . I 3 HOH A 28 255 35 HOH HOH . I 3 HOH A 29 256 36 HOH HOH . I 3 HOH A 30 257 37 HOH HOH . I 3 HOH A 31 258 38 HOH HOH . I 3 HOH A 32 259 39 HOH HOH . I 3 HOH A 33 260 40 HOH HOH . I 3 HOH A 34 261 41 HOH HOH . I 3 HOH A 35 262 42 HOH HOH . I 3 HOH A 36 263 43 HOH HOH . I 3 HOH A 37 264 44 HOH HOH . I 3 HOH A 38 265 45 HOH HOH . I 3 HOH A 39 266 46 HOH HOH . I 3 HOH A 40 267 47 HOH HOH . I 3 HOH A 41 268 48 HOH HOH . I 3 HOH A 42 269 49 HOH HOH . I 3 HOH A 43 270 50 HOH HOH . I 3 HOH A 44 271 51 HOH HOH . I 3 HOH A 45 272 52 HOH HOH . I 3 HOH A 46 273 53 HOH HOH . I 3 HOH A 47 274 54 HOH HOH . I 3 HOH A 48 275 55 HOH HOH . I 3 HOH A 49 276 56 HOH HOH . I 3 HOH A 50 277 57 HOH HOH . I 3 HOH A 51 278 58 HOH HOH . I 3 HOH A 52 279 59 HOH HOH . I 3 HOH A 53 280 60 HOH HOH . I 3 HOH A 54 281 61 HOH HOH . I 3 HOH A 55 282 62 HOH HOH . I 3 HOH A 56 283 63 HOH HOH . I 3 HOH A 57 284 64 HOH HOH . I 3 HOH A 58 285 65 HOH HOH . I 3 HOH A 59 286 66 HOH HOH . I 3 HOH A 60 287 67 HOH HOH . I 3 HOH A 61 288 68 HOH HOH . I 3 HOH A 62 289 69 HOH HOH . I 3 HOH A 63 290 70 HOH HOH . I 3 HOH A 64 291 71 HOH HOH . I 3 HOH A 65 292 72 HOH HOH . I 3 HOH A 66 293 73 HOH HOH . I 3 HOH A 67 294 74 HOH HOH . I 3 HOH A 68 295 75 HOH HOH . I 3 HOH A 69 296 76 HOH HOH . I 3 HOH A 70 297 77 HOH HOH . I 3 HOH A 71 298 78 HOH HOH . I 3 HOH A 72 299 79 HOH HOH . I 3 HOH A 73 300 80 HOH HOH . I 3 HOH A 74 301 81 HOH HOH . I 3 HOH A 75 302 82 HOH HOH . I 3 HOH A 76 303 83 HOH HOH . I 3 HOH A 77 304 84 HOH HOH . I 3 HOH A 78 305 85 HOH HOH . I 3 HOH A 79 306 86 HOH HOH . I 3 HOH A 80 307 87 HOH HOH . I 3 HOH A 81 308 88 HOH HOH . I 3 HOH A 82 309 89 HOH HOH . I 3 HOH A 83 310 90 HOH HOH . I 3 HOH A 84 311 91 HOH HOH . I 3 HOH A 85 312 92 HOH HOH . I 3 HOH A 86 313 93 HOH HOH . I 3 HOH A 87 314 94 HOH HOH . I 3 HOH A 88 315 95 HOH HOH . I 3 HOH A 89 316 96 HOH HOH . I 3 HOH A 90 317 97 HOH HOH . I 3 HOH A 91 318 98 HOH HOH . I 3 HOH A 92 319 99 HOH HOH . I 3 HOH A 93 320 100 HOH HOH . I 3 HOH A 94 321 101 HOH HOH . I 3 HOH A 95 322 102 HOH HOH . I 3 HOH A 96 323 103 HOH HOH . I 3 HOH A 97 324 104 HOH HOH . I 3 HOH A 98 325 105 HOH HOH . I 3 HOH A 99 326 106 HOH HOH . I 3 HOH A 100 327 107 HOH HOH . I 3 HOH A 101 328 108 HOH HOH . I 3 HOH A 102 329 109 HOH HOH . I 3 HOH A 103 330 110 HOH HOH . I 3 HOH A 104 331 111 HOH HOH . I 3 HOH A 105 332 112 HOH HOH . I 3 HOH A 106 333 113 HOH HOH . I 3 HOH A 107 334 114 HOH HOH . I 3 HOH A 108 335 115 HOH HOH . I 3 HOH A 109 336 116 HOH HOH . I 3 HOH A 110 337 117 HOH HOH . I 3 HOH A 111 338 118 HOH HOH . I 3 HOH A 112 339 119 HOH HOH . I 3 HOH A 113 340 120 HOH HOH . I 3 HOH A 114 341 121 HOH HOH . I 3 HOH A 115 342 122 HOH HOH . I 3 HOH A 116 343 123 HOH HOH . I 3 HOH A 117 344 124 HOH HOH . I 3 HOH A 118 345 125 HOH HOH . I 3 HOH A 119 346 126 HOH HOH . I 3 HOH A 120 347 127 HOH HOH . I 3 HOH A 121 348 128 HOH HOH . I 3 HOH A 122 349 129 HOH HOH . I 3 HOH A 123 350 130 HOH HOH . I 3 HOH A 124 351 131 HOH HOH . I 3 HOH A 125 352 132 HOH HOH . I 3 HOH A 126 353 133 HOH HOH . I 3 HOH A 127 354 134 HOH HOH . I 3 HOH A 128 355 135 HOH HOH . I 3 HOH A 129 356 136 HOH HOH . I 3 HOH A 130 357 137 HOH HOH . I 3 HOH A 131 358 138 HOH HOH . I 3 HOH A 132 359 139 HOH HOH . I 3 HOH A 133 360 140 HOH HOH . I 3 HOH A 134 361 141 HOH HOH . I 3 HOH A 135 362 142 HOH HOH . I 3 HOH A 136 363 143 HOH HOH . I 3 HOH A 137 364 144 HOH HOH . I 3 HOH A 138 365 145 HOH HOH . I 3 HOH A 139 366 146 HOH HOH . I 3 HOH A 140 367 147 HOH HOH . I 3 HOH A 141 368 148 HOH HOH . I 3 HOH A 142 369 149 HOH HOH . I 3 HOH A 143 370 150 HOH HOH . I 3 HOH A 144 371 151 HOH HOH . I 3 HOH A 145 372 152 HOH HOH . I 3 HOH A 146 373 153 HOH HOH . I 3 HOH A 147 374 154 HOH HOH . I 3 HOH A 148 375 155 HOH HOH . I 3 HOH A 149 376 156 HOH HOH . I 3 HOH A 150 377 157 HOH HOH . I 3 HOH A 151 378 158 HOH HOH . I 3 HOH A 152 379 159 HOH HOH . I 3 HOH A 153 380 160 HOH HOH . I 3 HOH A 154 381 161 HOH HOH . I 3 HOH A 155 382 162 HOH HOH . I 3 HOH A 156 383 163 HOH HOH . I 3 HOH A 157 384 164 HOH HOH . I 3 HOH A 158 385 165 HOH HOH . I 3 HOH A 159 386 166 HOH HOH . I 3 HOH A 160 387 167 HOH HOH . I 3 HOH A 161 388 168 HOH HOH . I 3 HOH A 162 389 169 HOH HOH . I 3 HOH A 163 390 170 HOH HOH . I 3 HOH A 164 391 171 HOH HOH . I 3 HOH A 165 392 172 HOH HOH . I 3 HOH A 166 393 173 HOH HOH . I 3 HOH A 167 394 174 HOH HOH . I 3 HOH A 168 395 175 HOH HOH . I 3 HOH A 169 396 176 HOH HOH . I 3 HOH A 170 397 177 HOH HOH . I 3 HOH A 171 398 178 HOH HOH . I 3 HOH A 172 399 179 HOH HOH . I 3 HOH A 173 400 180 HOH HOH . I 3 HOH A 174 401 181 HOH HOH . I 3 HOH A 175 402 182 HOH HOH . I 3 HOH A 176 403 183 HOH HOH . I 3 HOH A 177 404 184 HOH HOH . I 3 HOH A 178 405 185 HOH HOH . I 3 HOH A 179 406 186 HOH HOH . I 3 HOH A 180 407 187 HOH HOH . I 3 HOH A 181 408 188 HOH HOH . I 3 HOH A 182 409 189 HOH HOH . I 3 HOH A 183 410 190 HOH HOH . I 3 HOH A 184 411 191 HOH HOH . I 3 HOH A 185 412 192 HOH HOH . I 3 HOH A 186 413 193 HOH HOH . I 3 HOH A 187 414 194 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 . . . C 2 -25.133 30.223 -0.519 1 80.09 ? C1 GOL 222 A 1 HETATM 2 O O1 GOL . . . C 2 -25.247 30.172 -1.931 1 83.81 ? O1 GOL 222 A 1 HETATM 3 C C2 GOL . . . C 2 -24.98 28.828 0.072 1 81.13 ? C2 GOL 222 A 1 HETATM 4 O O2 GOL . . . C 2 -26.182 28.083 -0.083 1 85.34 ? O2 GOL 222 A 1 HETATM 5 C C3 GOL . . . C 2 -24.548 28.913 1.544 1 80.8 ? C3 GOL 222 A 1 HETATM 6 O O3 GOL . . . C 2 -25.387 29.748 2.336 1 68.53 ? O3 GOL 222 A 1 # _model_server_stats.io_time_ms 29 _model_server_stats.parse_time_ms 30 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 1268 _model_server_stats.encode_time_ms 19 _model_server_stats.element_count 6 #