data_3PVY # _model_server_result.job_id 63FwiPxbTiwxphm6OlLoAg _model_server_result.datetime_utc '2024-10-12 11:21:00' _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 3pvy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":249}' # _entry.id 3PVY # _exptl.entry_id 3PVY _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 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 90 _cell.entry_id 3PVY _cell.length_a 77.471 _cell.length_b 77.471 _cell.length_c 301.047 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3PVY _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # 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 tetrameric 4 author_and_software_defined_assembly 1 PISA monomeric 1 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,F,G,I,J,K,L,N 1 1,2 B,H,M 2 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' 7_465 y-1,x+1,-z 0 1 0 1 0 0 0 0 -1 -77.471 77.471 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 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 # _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 215 n n C1 C2 GOL sing 216 n n C1 H11 GOL sing 217 n n C1 H12 GOL sing 218 n n O1 HO1 GOL sing 219 n n C2 O2 GOL sing 220 n n C2 C3 GOL sing 221 n n C2 H2 GOL sing 222 n n O2 HO2 GOL sing 223 n n C3 O3 GOL sing 224 n n C3 H31 GOL sing 225 n n C3 H32 GOL sing 226 n n O3 HO3 GOL sing 227 n n # _atom_sites.entry_id 3PVY _atom_sites.fract_transf_matrix[1][1] 0.012908 _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] 0.012908 _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] 0.003322 _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 3 COA A 1 310 1 COA COA . E 4 GOL A 1 311 4 GOL GOL . F 4 GOL A 1 312 5 GOL GOL . G 4 GOL A 1 313 6 GOL GOL . H 4 GOL B 1 249 7 GOL GOL . I 4 GOL C 1 249 1 GOL GOL . J 4 GOL C 1 250 2 GOL GOL . K 4 GOL C 1 251 3 GOL GOL . L 5 HOH A 1 314 2 HOH HOH . L 5 HOH A 2 315 6 HOH HOH . L 5 HOH A 3 316 7 HOH HOH . L 5 HOH A 4 317 11 HOH HOH . L 5 HOH A 5 318 13 HOH HOH . L 5 HOH A 6 319 14 HOH HOH . L 5 HOH A 7 320 21 HOH HOH . L 5 HOH A 8 321 22 HOH HOH . L 5 HOH A 9 322 23 HOH HOH . L 5 HOH A 10 323 24 HOH HOH . L 5 HOH A 11 324 26 HOH HOH . L 5 HOH A 12 325 27 HOH HOH . L 5 HOH A 13 326 30 HOH HOH . L 5 HOH A 14 327 31 HOH HOH . L 5 HOH A 15 328 32 HOH HOH . L 5 HOH A 16 329 37 HOH HOH . L 5 HOH A 17 330 38 HOH HOH . L 5 HOH A 18 331 39 HOH HOH . L 5 HOH A 19 332 40 HOH HOH . L 5 HOH A 20 333 41 HOH HOH . L 5 HOH A 21 334 43 HOH HOH . L 5 HOH A 22 335 44 HOH HOH . L 5 HOH A 23 336 45 HOH HOH . L 5 HOH A 24 337 46 HOH HOH . L 5 HOH A 25 338 48 HOH HOH . L 5 HOH A 26 339 49 HOH HOH . L 5 HOH A 27 340 50 HOH HOH . L 5 HOH A 28 341 53 HOH HOH . L 5 HOH A 29 342 54 HOH HOH . L 5 HOH A 30 343 56 HOH HOH . L 5 HOH A 31 344 57 HOH HOH . L 5 HOH A 32 345 58 HOH HOH . L 5 HOH A 33 346 60 HOH HOH . L 5 HOH A 34 347 61 HOH HOH . L 5 HOH A 35 348 63 HOH HOH . L 5 HOH A 36 349 65 HOH HOH . L 5 HOH A 37 350 66 HOH HOH . L 5 HOH A 38 351 68 HOH HOH . L 5 HOH A 39 352 69 HOH HOH . L 5 HOH A 40 353 71 HOH HOH . L 5 HOH A 41 354 72 HOH HOH . L 5 HOH A 42 355 73 HOH HOH . L 5 HOH A 43 356 74 HOH HOH . L 5 HOH A 44 357 76 HOH HOH . L 5 HOH A 45 358 77 HOH HOH . L 5 HOH A 46 359 79 HOH HOH . L 5 HOH A 47 360 82 HOH HOH . L 5 HOH A 48 361 83 HOH HOH . L 5 HOH A 49 362 84 HOH HOH . L 5 HOH A 50 363 87 HOH HOH . L 5 HOH A 51 364 90 HOH HOH . L 5 HOH A 52 365 91 HOH HOH . L 5 HOH A 53 366 95 HOH HOH . L 5 HOH A 54 367 97 HOH HOH . L 5 HOH A 55 368 100 HOH HOH . L 5 HOH A 56 369 101 HOH HOH . L 5 HOH A 57 370 104 HOH HOH . L 5 HOH A 58 371 105 HOH HOH . L 5 HOH A 59 372 106 HOH HOH . L 5 HOH A 60 373 108 HOH HOH . L 5 HOH A 61 374 110 HOH HOH . L 5 HOH A 62 375 112 HOH HOH . L 5 HOH A 63 376 113 HOH HOH . L 5 HOH A 64 377 114 HOH HOH . L 5 HOH A 65 378 117 HOH HOH . L 5 HOH A 66 379 119 HOH HOH . L 5 HOH A 67 380 122 HOH HOH . L 5 HOH A 68 381 123 HOH HOH . L 5 HOH A 69 382 124 HOH HOH . L 5 HOH A 70 383 127 HOH HOH . L 5 HOH A 71 384 128 HOH HOH . L 5 HOH A 72 385 130 HOH HOH . L 5 HOH A 73 386 131 HOH HOH . L 5 HOH A 74 387 133 HOH HOH . L 5 HOH A 75 388 137 HOH HOH . L 5 HOH A 76 389 138 HOH HOH . L 5 HOH A 77 390 139 HOH HOH . L 5 HOH A 78 391 141 HOH HOH . L 5 HOH A 79 392 142 HOH HOH . L 5 HOH A 80 393 145 HOH HOH . L 5 HOH A 81 394 146 HOH HOH . L 5 HOH A 82 395 151 HOH HOH . L 5 HOH A 83 396 154 HOH HOH . L 5 HOH A 84 397 155 HOH HOH . L 5 HOH A 85 398 158 HOH HOH . L 5 HOH A 86 399 163 HOH HOH . L 5 HOH A 87 400 165 HOH HOH . L 5 HOH A 88 401 168 HOH HOH . L 5 HOH A 89 402 169 HOH HOH . L 5 HOH A 90 403 172 HOH HOH . L 5 HOH A 91 404 177 HOH HOH . L 5 HOH A 92 405 179 HOH HOH . L 5 HOH A 93 406 183 HOH HOH . L 5 HOH A 94 407 184 HOH HOH . L 5 HOH A 95 408 185 HOH HOH . L 5 HOH A 96 409 186 HOH HOH . L 5 HOH A 97 410 187 HOH HOH . L 5 HOH A 98 411 189 HOH HOH . L 5 HOH A 99 412 190 HOH HOH . L 5 HOH A 100 413 192 HOH HOH . L 5 HOH A 101 414 194 HOH HOH . L 5 HOH A 102 415 196 HOH HOH . L 5 HOH A 103 416 197 HOH HOH . L 5 HOH A 104 417 202 HOH HOH . L 5 HOH A 105 418 203 HOH HOH . L 5 HOH A 106 419 205 HOH HOH . L 5 HOH A 107 420 206 HOH HOH . L 5 HOH A 108 421 209 HOH HOH . L 5 HOH A 109 422 211 HOH HOH . L 5 HOH A 110 423 212 HOH HOH . L 5 HOH A 111 424 213 HOH HOH . L 5 HOH A 112 425 219 HOH HOH . L 5 HOH A 113 426 220 HOH HOH . L 5 HOH A 114 427 222 HOH HOH . L 5 HOH A 115 428 223 HOH HOH . L 5 HOH A 116 429 224 HOH HOH . L 5 HOH A 117 430 225 HOH HOH . L 5 HOH A 118 431 226 HOH HOH . L 5 HOH A 119 432 227 HOH HOH . L 5 HOH A 120 433 228 HOH HOH . L 5 HOH A 121 434 230 HOH HOH . L 5 HOH A 122 435 231 HOH HOH . L 5 HOH A 123 436 232 HOH HOH . L 5 HOH A 124 437 233 HOH HOH . L 5 HOH A 125 438 237 HOH HOH . L 5 HOH A 126 439 241 HOH HOH . L 5 HOH A 127 440 243 HOH HOH . L 5 HOH A 128 441 244 HOH HOH . L 5 HOH A 129 442 246 HOH HOH . L 5 HOH A 130 443 247 HOH HOH . L 5 HOH A 131 444 248 HOH HOH . L 5 HOH A 132 445 249 HOH HOH . L 5 HOH A 133 446 251 HOH HOH . L 5 HOH A 134 447 252 HOH HOH . L 5 HOH A 135 448 291 HOH HOH . M 5 HOH B 1 250 167 HOH HOH . M 5 HOH B 2 251 174 HOH HOH . M 5 HOH B 3 254 254 HOH HOH . M 5 HOH B 4 255 255 HOH HOH . M 5 HOH B 5 256 256 HOH HOH . M 5 HOH B 6 257 257 HOH HOH . M 5 HOH B 7 258 258 HOH HOH . M 5 HOH B 8 259 259 HOH HOH . M 5 HOH B 9 260 260 HOH HOH . M 5 HOH B 10 261 261 HOH HOH . M 5 HOH B 11 262 262 HOH HOH . M 5 HOH B 12 263 263 HOH HOH . M 5 HOH B 13 264 264 HOH HOH . M 5 HOH B 14 265 265 HOH HOH . M 5 HOH B 15 266 266 HOH HOH . M 5 HOH B 16 267 267 HOH HOH . M 5 HOH B 17 268 268 HOH HOH . M 5 HOH B 18 269 269 HOH HOH . M 5 HOH B 19 270 270 HOH HOH . M 5 HOH B 20 271 271 HOH HOH . M 5 HOH B 21 272 272 HOH HOH . M 5 HOH B 22 273 273 HOH HOH . M 5 HOH B 23 274 274 HOH HOH . M 5 HOH B 24 275 275 HOH HOH . M 5 HOH B 25 276 276 HOH HOH . M 5 HOH B 26 277 277 HOH HOH . M 5 HOH B 27 278 278 HOH HOH . M 5 HOH B 28 279 279 HOH HOH . M 5 HOH B 29 280 280 HOH HOH . M 5 HOH B 30 281 281 HOH HOH . M 5 HOH B 31 282 282 HOH HOH . M 5 HOH B 32 283 283 HOH HOH . M 5 HOH B 33 284 284 HOH HOH . M 5 HOH B 34 285 285 HOH HOH . M 5 HOH B 35 286 286 HOH HOH . M 5 HOH B 36 287 287 HOH HOH . M 5 HOH B 37 288 288 HOH HOH . M 5 HOH B 38 289 289 HOH HOH . M 5 HOH B 39 290 290 HOH HOH . N 5 HOH C 1 252 1 HOH HOH . N 5 HOH C 2 253 253 HOH HOH . N 5 HOH C 3 254 3 HOH HOH . N 5 HOH C 4 255 4 HOH HOH . N 5 HOH C 5 256 5 HOH HOH . N 5 HOH C 6 257 8 HOH HOH . N 5 HOH C 7 258 9 HOH HOH . N 5 HOH C 8 259 10 HOH HOH . N 5 HOH C 9 260 12 HOH HOH . N 5 HOH C 10 261 15 HOH HOH . N 5 HOH C 11 262 16 HOH HOH . N 5 HOH C 12 263 17 HOH HOH . N 5 HOH C 13 264 18 HOH HOH . N 5 HOH C 14 265 19 HOH HOH . N 5 HOH C 15 266 20 HOH HOH . N 5 HOH C 16 267 25 HOH HOH . N 5 HOH C 17 268 28 HOH HOH . N 5 HOH C 18 269 29 HOH HOH . N 5 HOH C 19 270 33 HOH HOH . N 5 HOH C 20 271 34 HOH HOH . N 5 HOH C 21 272 35 HOH HOH . N 5 HOH C 22 273 36 HOH HOH . N 5 HOH C 23 274 42 HOH HOH . N 5 HOH C 24 275 47 HOH HOH . N 5 HOH C 25 276 51 HOH HOH . N 5 HOH C 26 277 52 HOH HOH . N 5 HOH C 27 278 55 HOH HOH . N 5 HOH C 28 279 59 HOH HOH . N 5 HOH C 29 280 62 HOH HOH . N 5 HOH C 30 281 64 HOH HOH . N 5 HOH C 31 282 67 HOH HOH . N 5 HOH C 32 283 70 HOH HOH . N 5 HOH C 33 284 75 HOH HOH . N 5 HOH C 34 285 78 HOH HOH . N 5 HOH C 35 286 80 HOH HOH . N 5 HOH C 36 287 81 HOH HOH . N 5 HOH C 37 288 85 HOH HOH . N 5 HOH C 38 289 86 HOH HOH . N 5 HOH C 39 290 88 HOH HOH . N 5 HOH C 40 291 89 HOH HOH . N 5 HOH C 41 292 92 HOH HOH . N 5 HOH C 42 293 93 HOH HOH . N 5 HOH C 43 294 94 HOH HOH . N 5 HOH C 44 295 96 HOH HOH . N 5 HOH C 45 296 98 HOH HOH . N 5 HOH C 46 297 99 HOH HOH . N 5 HOH C 47 298 102 HOH HOH . N 5 HOH C 48 299 103 HOH HOH . N 5 HOH C 49 300 107 HOH HOH . N 5 HOH C 50 301 109 HOH HOH . N 5 HOH C 51 302 111 HOH HOH . N 5 HOH C 52 303 115 HOH HOH . N 5 HOH C 53 304 116 HOH HOH . N 5 HOH C 54 305 118 HOH HOH . N 5 HOH C 55 306 120 HOH HOH . N 5 HOH C 56 307 121 HOH HOH . N 5 HOH C 57 308 125 HOH HOH . N 5 HOH C 58 309 126 HOH HOH . N 5 HOH C 59 310 129 HOH HOH . N 5 HOH C 60 311 132 HOH HOH . N 5 HOH C 61 312 134 HOH HOH . N 5 HOH C 62 313 135 HOH HOH . N 5 HOH C 63 314 136 HOH HOH . N 5 HOH C 64 315 140 HOH HOH . N 5 HOH C 65 316 143 HOH HOH . N 5 HOH C 66 317 144 HOH HOH . N 5 HOH C 67 318 147 HOH HOH . N 5 HOH C 68 319 148 HOH HOH . N 5 HOH C 69 320 149 HOH HOH . N 5 HOH C 70 321 150 HOH HOH . N 5 HOH C 71 322 152 HOH HOH . N 5 HOH C 72 323 153 HOH HOH . N 5 HOH C 73 324 156 HOH HOH . N 5 HOH C 74 325 157 HOH HOH . N 5 HOH C 75 326 159 HOH HOH . N 5 HOH C 76 327 160 HOH HOH . N 5 HOH C 77 328 161 HOH HOH . N 5 HOH C 78 329 162 HOH HOH . N 5 HOH C 79 330 164 HOH HOH . N 5 HOH C 80 331 166 HOH HOH . N 5 HOH C 81 332 170 HOH HOH . N 5 HOH C 82 333 171 HOH HOH . N 5 HOH C 83 334 173 HOH HOH . N 5 HOH C 84 335 175 HOH HOH . N 5 HOH C 85 336 176 HOH HOH . N 5 HOH C 86 337 178 HOH HOH . N 5 HOH C 87 338 180 HOH HOH . N 5 HOH C 88 339 181 HOH HOH . N 5 HOH C 89 340 182 HOH HOH . N 5 HOH C 90 341 188 HOH HOH . N 5 HOH C 91 342 191 HOH HOH . N 5 HOH C 92 343 193 HOH HOH . N 5 HOH C 93 344 195 HOH HOH . N 5 HOH C 94 345 198 HOH HOH . N 5 HOH C 95 346 199 HOH HOH . N 5 HOH C 96 347 200 HOH HOH . N 5 HOH C 97 348 201 HOH HOH . N 5 HOH C 98 349 204 HOH HOH . N 5 HOH C 99 350 207 HOH HOH . N 5 HOH C 100 351 208 HOH HOH . N 5 HOH C 101 352 210 HOH HOH . N 5 HOH C 102 353 214 HOH HOH . N 5 HOH C 103 354 215 HOH HOH . N 5 HOH C 104 355 216 HOH HOH . N 5 HOH C 105 356 217 HOH HOH . N 5 HOH C 106 357 218 HOH HOH . N 5 HOH C 107 358 221 HOH HOH . N 5 HOH C 108 359 229 HOH HOH . N 5 HOH C 109 360 234 HOH HOH . N 5 HOH C 110 361 235 HOH HOH . N 5 HOH C 111 362 236 HOH HOH . N 5 HOH C 112 363 238 HOH HOH . N 5 HOH C 113 364 239 HOH HOH . N 5 HOH C 114 365 240 HOH HOH . N 5 HOH C 115 366 242 HOH HOH . N 5 HOH C 116 367 245 HOH HOH . N 5 HOH C 117 368 250 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 . . . I 4 -43.965 22.774 -4.703 1 44.02 ? C1 GOL 249 C 1 HETATM 2 O O1 GOL . . . I 4 -45.311 23.06 -4.422 1 42.31 ? O1 GOL 249 C 1 HETATM 3 C C2 GOL . . . I 4 -43.785 21.635 -5.704 1 45.28 ? C2 GOL 249 C 1 HETATM 4 O O2 GOL . . . I 4 -44.946 21.423 -6.484 1 47.37 ? O2 GOL 249 C 1 HETATM 5 C C3 GOL . . . I 4 -42.613 22.007 -6.598 1 44.32 ? C3 GOL 249 C 1 HETATM 6 O O3 GOL . . . I 4 -42.534 21.14 -7.702 1 45.4 ? O3 GOL 249 C 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 25 _model_server_stats.query_time_ms 309 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 6 #