data_4GDZ
#
_model_server_result.job_id            GI-q6hHw2CzI1S6Kz47OBQ 
_model_server_result.datetime_utc      '2024-11-15 17:17:14' 
_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          4gdz 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":202}' 
#
_entry.id    4GDZ 
#
_exptl.entry_id    4GDZ 
_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    3 
_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            4GDZ 
_cell.length_a            125.801 
_cell.length_b            125.801 
_cell.length_c            125.801 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4GDZ 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        213 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 41 3 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2,3 
#
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_555 -z+1/2,-x,y+1/2 0 0 -1 -1 0 0 0 1 0 62.9005 0 62.9005 
3 'crystal symmetry operation' 10_545 -y,z-1/2,-x+1/2 0 -1 0 0 0 1 -1 0 0 0 -62.9005 62.9005 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 3 C N N 
? 3 D N N 
? 3 E 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
covale ? covale1 A C VAL 54 A VAL 75 1_555 A N MSE 55 A MSE 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? 
covale ? covale2 A C MSE 55 A MSE 76 1_555 A N PHE 56 A PHE 77 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? 
covale ? covale3 A C THR 154 A THR 175 1_555 A N MSE 155 A MSE 176 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale4 A C MSE 155 A MSE 176 1_555 A N THR 156 A THR 177 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
metalc ? metalc1 A OD1 ASN 147 A ASN 168 1_555 B MG MG . A MG 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.349 ? 
metalc ? metalc2 A O PRO 148 A PRO 169 1_555 B MG MG . A MG 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.47 ? 
metalc ? metalc3 A O ASN 151 A ASN 172 1_555 B MG MG . A MG 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.188 ? 
metalc ? metalc4 A O ASN 153 A ASN 174 1_555 B MG MG . A MG 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.319 ? 
metalc ? metalc5 B MG MG . A MG 200 1_555 F O HOH . A HOH 383 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.636 ? 
#
_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                     4GDZ 
_atom_sites.fract_transf_matrix[1][1]    0.007949 
_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]    0.007949 
_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]    0.007949 
_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 MG A 1 200 200 MG MG . 
C 3 GOL A 1 201 201 GOL GOL . 
D 3 GOL A 1 202 202 GOL GOL . 
E 3 GOL A 1 203 203 GOL GOL . 
F 4 HOH A 1 301 204 HOH HOH . 
F 4 HOH A 2 302 205 HOH HOH . 
F 4 HOH A 3 303 206 HOH HOH . 
F 4 HOH A 4 304 207 HOH HOH . 
F 4 HOH A 5 305 208 HOH HOH . 
F 4 HOH A 6 306 209 HOH HOH . 
F 4 HOH A 7 307 210 HOH HOH . 
F 4 HOH A 8 308 211 HOH HOH . 
F 4 HOH A 9 309 212 HOH HOH . 
F 4 HOH A 10 310 213 HOH HOH . 
F 4 HOH A 11 311 214 HOH HOH . 
F 4 HOH A 12 312 215 HOH HOH . 
F 4 HOH A 13 313 216 HOH HOH . 
F 4 HOH A 14 314 217 HOH HOH . 
F 4 HOH A 15 315 218 HOH HOH . 
F 4 HOH A 16 316 219 HOH HOH . 
F 4 HOH A 17 317 220 HOH HOH . 
F 4 HOH A 18 318 221 HOH HOH . 
F 4 HOH A 19 319 222 HOH HOH . 
F 4 HOH A 20 320 223 HOH HOH . 
F 4 HOH A 21 321 224 HOH HOH . 
F 4 HOH A 22 322 225 HOH HOH . 
F 4 HOH A 23 323 226 HOH HOH . 
F 4 HOH A 24 324 227 HOH HOH . 
F 4 HOH A 25 325 228 HOH HOH . 
F 4 HOH A 26 326 229 HOH HOH . 
F 4 HOH A 27 327 230 HOH HOH . 
F 4 HOH A 28 328 231 HOH HOH . 
F 4 HOH A 29 329 232 HOH HOH . 
F 4 HOH A 30 330 233 HOH HOH . 
F 4 HOH A 31 331 234 HOH HOH . 
F 4 HOH A 32 332 235 HOH HOH . 
F 4 HOH A 33 333 236 HOH HOH . 
F 4 HOH A 34 334 237 HOH HOH . 
F 4 HOH A 35 335 238 HOH HOH . 
F 4 HOH A 36 336 239 HOH HOH . 
F 4 HOH A 37 337 240 HOH HOH . 
F 4 HOH A 38 338 241 HOH HOH . 
F 4 HOH A 39 339 242 HOH HOH . 
F 4 HOH A 40 340 243 HOH HOH . 
F 4 HOH A 41 341 244 HOH HOH . 
F 4 HOH A 42 342 245 HOH HOH . 
F 4 HOH A 43 343 246 HOH HOH . 
F 4 HOH A 44 344 247 HOH HOH . 
F 4 HOH A 45 345 248 HOH HOH . 
F 4 HOH A 46 346 249 HOH HOH . 
F 4 HOH A 47 347 250 HOH HOH . 
F 4 HOH A 48 348 251 HOH HOH . 
F 4 HOH A 49 349 252 HOH HOH . 
F 4 HOH A 50 350 253 HOH HOH . 
F 4 HOH A 51 351 254 HOH HOH . 
F 4 HOH A 52 352 255 HOH HOH . 
F 4 HOH A 53 353 256 HOH HOH . 
F 4 HOH A 54 354 257 HOH HOH . 
F 4 HOH A 55 355 258 HOH HOH . 
F 4 HOH A 56 356 259 HOH HOH . 
F 4 HOH A 57 357 260 HOH HOH . 
F 4 HOH A 58 358 261 HOH HOH . 
F 4 HOH A 59 359 262 HOH HOH . 
F 4 HOH A 60 360 263 HOH HOH . 
F 4 HOH A 61 361 264 HOH HOH . 
F 4 HOH A 62 362 265 HOH HOH . 
F 4 HOH A 63 363 266 HOH HOH . 
F 4 HOH A 64 364 267 HOH HOH . 
F 4 HOH A 65 365 268 HOH HOH . 
F 4 HOH A 66 366 269 HOH HOH . 
F 4 HOH A 67 367 270 HOH HOH . 
F 4 HOH A 68 368 271 HOH HOH . 
F 4 HOH A 69 369 272 HOH HOH . 
F 4 HOH A 70 370 273 HOH HOH . 
F 4 HOH A 71 371 274 HOH HOH . 
F 4 HOH A 72 372 275 HOH HOH . 
F 4 HOH A 73 373 276 HOH HOH . 
F 4 HOH A 74 374 277 HOH HOH . 
F 4 HOH A 75 375 278 HOH HOH . 
F 4 HOH A 76 376 279 HOH HOH . 
F 4 HOH A 77 377 280 HOH HOH . 
F 4 HOH A 78 378 281 HOH HOH . 
F 4 HOH A 79 379 282 HOH HOH . 
F 4 HOH A 80 380 283 HOH HOH . 
F 4 HOH A 81 381 284 HOH HOH . 
F 4 HOH A 82 382 285 HOH HOH . 
F 4 HOH A 83 383 286 HOH HOH . 
F 4 HOH A 84 384 287 HOH HOH . 
F 4 HOH A 85 385 288 HOH HOH . 
F 4 HOH A 86 386 289 HOH HOH . 
F 4 HOH A 87 387 290 HOH HOH . 
F 4 HOH A 88 388 291 HOH HOH . 
F 4 HOH A 89 389 292 HOH HOH . 
F 4 HOH A 90 390 293 HOH HOH . 
F 4 HOH A 91 391 294 HOH HOH . 
F 4 HOH A 92 392 295 HOH HOH . 
F 4 HOH A 93 393 296 HOH HOH . 
F 4 HOH A 94 394 297 HOH HOH . 
F 4 HOH A 95 395 298 HOH HOH . 
F 4 HOH A 96 396 299 HOH HOH . 
F 4 HOH A 97 397 300 HOH HOH . 
F 4 HOH A 98 398 301 HOH HOH . 
F 4 HOH A 99 399 302 HOH HOH . 
F 4 HOH A 100 400 303 HOH HOH . 
F 4 HOH A 101 401 304 HOH HOH . 
F 4 HOH A 102 402 305 HOH HOH . 
F 4 HOH A 103 403 306 HOH HOH . 
F 4 HOH A 104 404 307 HOH HOH . 
F 4 HOH A 105 405 308 HOH HOH . 
F 4 HOH A 106 406 309 HOH HOH . 
F 4 HOH A 107 407 310 HOH HOH . 
F 4 HOH A 108 408 311 HOH HOH . 
F 4 HOH A 109 409 312 HOH HOH . 
F 4 HOH A 110 410 313 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 3 14.817 -2.072 48.735 1 84.93 ? C1 GOL 202 A 1 
HETATM 2 O O1 GOL . . . D 3 15.248 -1.001 47.875 1 69.54 ? O1 GOL 202 A 1 
HETATM 3 C C2 GOL . . . D 3 13.316 -2.283 48.603 1 79.21 ? C2 GOL 202 A 1 
HETATM 4 O O2 GOL . . . D 3 13.071 -2.91 47.353 1 92.57 ? O2 GOL 202 A 1 
HETATM 5 C C3 GOL . . . D 3 12.645 -0.931 48.626 1 70.21 ? C3 GOL 202 A 1 
HETATM 6 O O3 GOL . . . D 3 11.225 -0.998 48.77 1 48.99 ? O3 GOL 202 A 1 
#
_model_server_stats.io_time_ms              57 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           282 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           6 
#