data_4PK0 # _model_server_result.job_id QkG5Sm_EwQD1RM68tq7zdA _model_server_result.datetime_utc '2024-11-27 09:08:00' _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 4pk0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":205}' # _entry.id 4PK0 # _exptl.entry_id 4PK0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 10 _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 90 _cell.entry_id 4PK0 _cell.length_a 55.923 _cell.length_b 63.233 _cell.length_c 138.615 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4PK0 _symmetry.cell_setting . _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 2 2 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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 # _struct_asym.details ? _struct_asym.entity_id 10 _struct_asym.id J _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 GHP 1 B GHP 1 1_555 A N 3MY 2 B 3MY 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale2 A C3 GHP 1 B GHP 1 1_555 A OD1 3FG 3 B 3FG 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.387 ? covale ? covale3 A C 3MY 2 B 3MY 2 1_555 A N 3FG 3 B 3FG 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.342 ? covale ? covale4 A OBD 3MY 2 B 3MY 2 1_555 A C3 GHP 4 B GHP 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.398 ? covale ? covale5 A C 3FG 3 B 3FG 3 1_555 A N GHP 4 B GHP 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale6 A C GHP 4 B GHP 4 1_555 A N GHP 5 B GHP 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale7 A C5 GHP 4 B GHP 4 1_555 A OCZ OMY 6 B OMY 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.409 ? covale ? covale8 A O4 GHP 4 B GHP 4 1_555 C C1 GCS . B GCS 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale9 A C GHP 5 B GHP 5 1_555 A N OMY 6 B OMY 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale10 A C3 GHP 5 B GHP 5 1_555 A CG1 3FG 7 B 3FG 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.414 ? covale ? covale11 A C OMY 6 B OMY 6 1_555 A N 3FG 7 B 3FG 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale12 A ODE OMY 6 B OMY 6 1_555 D C1 NAG . B NAG 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale13 A OD1 3FG 7 B 3FG 7 1_555 E C1 MAN . B MAN 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale14 C N2 GCS . B GCS 101 1_555 F C T55 . A T55 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.315 ? covale ? covale15 B C LEU 164 A LEU 164 1_555 B N CCS 165 A CCS 165 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale16 B C CCS 165 A CCS 165 1_555 B N ALA 166 A ALA 166 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale17 B C ALA 166 A ALA 166 1_555 B N MHS 167 A MHS 167 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale18 B C MHS 167 A MHS 167 1_555 B N DPR 168 A DPR 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.366 ? covale ? covale19 B C DPR 168 A DPR 168 1_555 B N AIB 169 A AIB 169 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.343 ? covale ? covale20 B C AIB 169 A AIB 169 1_555 B N DAL 170 A DAL 170 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale21 B C DAL 170 A DAL 170 1_555 B N DAL 171 A DAL 171 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? # _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 284 n n C1 C2 GOL sing 285 n n C1 H11 GOL sing 286 n n C1 H12 GOL sing 287 n n O1 HO1 GOL sing 288 n n C2 O2 GOL sing 289 n n C2 C3 GOL sing 290 n n C2 H2 GOL sing 291 n n O2 HO2 GOL sing 292 n n C3 O3 GOL sing 293 n n C3 H31 GOL sing 294 n n C3 H32 GOL sing 295 n n O3 HO3 GOL sing 296 n n # _atom_sites.entry_id 4PK0 _atom_sites.fract_transf_matrix[1][1] 0.017882 _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] 0.015815 _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] 0.007214 _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 C 3 GCS B 1 101 8 GCS GCS . D 4 NAG B 1 102 10 NAG NAG . E 5 MAN B 1 103 11 MAN MAN . F 6 T55 A 1 201 9 T55 T55 . G 7 CL A 1 202 1 CL CL . H 8 NA A 1 203 2 NA NA . I 9 PO4 A 1 204 3 PO4 PO4 . J 10 GOL A 1 205 4 GOL GOL . K 11 HOH B 1 201 16 HOH HOH . K 11 HOH B 2 202 66 HOH HOH . K 11 HOH B 3 203 82 HOH HOH . K 11 HOH B 4 204 15 HOH HOH . K 11 HOH B 5 205 36 HOH HOH . K 11 HOH B 6 206 59 HOH HOH . K 11 HOH B 7 207 69 HOH HOH . K 11 HOH B 8 208 70 HOH HOH . K 11 HOH B 9 209 75 HOH HOH . K 11 HOH B 10 210 76 HOH HOH . K 11 HOH B 11 211 80 HOH HOH . K 11 HOH B 12 212 87 HOH HOH . L 11 HOH A 1 301 40 HOH HOH . L 11 HOH A 2 302 6 HOH HOH . L 11 HOH A 3 303 42 HOH HOH . L 11 HOH A 4 304 30 HOH HOH . L 11 HOH A 5 305 2 HOH HOH . L 11 HOH A 6 306 43 HOH HOH . L 11 HOH A 7 307 8 HOH HOH . L 11 HOH A 8 308 22 HOH HOH . L 11 HOH A 9 309 12 HOH HOH . L 11 HOH A 10 310 13 HOH HOH . L 11 HOH A 11 311 5 HOH HOH . L 11 HOH A 12 312 89 HOH HOH . L 11 HOH A 13 313 67 HOH HOH . L 11 HOH A 14 314 48 HOH HOH . L 11 HOH A 15 315 7 HOH HOH . L 11 HOH A 16 316 55 HOH HOH . L 11 HOH A 17 317 90 HOH HOH . L 11 HOH A 18 318 79 HOH HOH . L 11 HOH A 19 319 20 HOH HOH . L 11 HOH A 20 320 3 HOH HOH . L 11 HOH A 21 321 14 HOH HOH . L 11 HOH A 22 322 54 HOH HOH . L 11 HOH A 23 323 35 HOH HOH . L 11 HOH A 24 324 26 HOH HOH . L 11 HOH A 25 325 53 HOH HOH . L 11 HOH A 26 326 32 HOH HOH . L 11 HOH A 27 327 74 HOH HOH . L 11 HOH A 28 328 28 HOH HOH . L 11 HOH A 29 329 91 HOH HOH . L 11 HOH A 30 330 21 HOH HOH . L 11 HOH A 31 331 96 HOH HOH . L 11 HOH A 32 332 98 HOH HOH . L 11 HOH A 33 333 97 HOH HOH . L 11 HOH A 34 334 68 HOH HOH . L 11 HOH A 35 335 1 HOH HOH . L 11 HOH A 36 336 4 HOH HOH . L 11 HOH A 37 337 9 HOH HOH . L 11 HOH A 38 338 10 HOH HOH . L 11 HOH A 39 339 11 HOH HOH . L 11 HOH A 40 340 17 HOH HOH . L 11 HOH A 41 341 18 HOH HOH . L 11 HOH A 42 342 19 HOH HOH . L 11 HOH A 43 343 23 HOH HOH . L 11 HOH A 44 344 24 HOH HOH . L 11 HOH A 45 345 25 HOH HOH . L 11 HOH A 46 346 27 HOH HOH . L 11 HOH A 47 347 29 HOH HOH . L 11 HOH A 48 348 31 HOH HOH . L 11 HOH A 49 349 33 HOH HOH . L 11 HOH A 50 350 34 HOH HOH . L 11 HOH A 51 351 37 HOH HOH . L 11 HOH A 52 352 38 HOH HOH . L 11 HOH A 53 353 39 HOH HOH . L 11 HOH A 54 354 41 HOH HOH . L 11 HOH A 55 355 44 HOH HOH . L 11 HOH A 56 356 45 HOH HOH . L 11 HOH A 57 357 46 HOH HOH . L 11 HOH A 58 358 47 HOH HOH . L 11 HOH A 59 359 49 HOH HOH . L 11 HOH A 60 360 50 HOH HOH . L 11 HOH A 61 361 51 HOH HOH . L 11 HOH A 62 362 52 HOH HOH . L 11 HOH A 63 363 56 HOH HOH . L 11 HOH A 64 364 57 HOH HOH . L 11 HOH A 65 365 58 HOH HOH . L 11 HOH A 66 366 60 HOH HOH . L 11 HOH A 67 367 61 HOH HOH . L 11 HOH A 68 368 62 HOH HOH . L 11 HOH A 69 369 63 HOH HOH . L 11 HOH A 70 370 64 HOH HOH . L 11 HOH A 71 371 65 HOH HOH . L 11 HOH A 72 372 71 HOH HOH . L 11 HOH A 73 373 72 HOH HOH . L 11 HOH A 74 374 73 HOH HOH . L 11 HOH A 75 375 77 HOH HOH . L 11 HOH A 76 376 78 HOH HOH . L 11 HOH A 77 377 81 HOH HOH . L 11 HOH A 78 378 83 HOH HOH . L 11 HOH A 79 379 84 HOH HOH . L 11 HOH A 80 380 85 HOH HOH . L 11 HOH A 81 381 86 HOH HOH . L 11 HOH A 82 382 88 HOH HOH . L 11 HOH A 83 383 92 HOH HOH . L 11 HOH A 84 384 93 HOH HOH . L 11 HOH A 85 385 94 HOH HOH . L 11 HOH A 86 386 95 HOH HOH . L 11 HOH A 87 387 99 HOH HOH . L 11 HOH A 88 388 100 HOH HOH . L 11 HOH A 89 389 101 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 . . . J 10 3.764 17.682 27.113 1 51.96 ? C1 GOL 205 A 1 HETATM 2 O O1 GOL . . . J 10 3.104 17.808 25.839 1 44.81 ? O1 GOL 205 A 1 HETATM 3 C C2 GOL . . . J 10 4.768 16.516 27.215 1 53.26 ? C2 GOL 205 A 1 HETATM 4 O O2 GOL . . . J 10 5.141 16.357 28.593 1 54.26 ? O2 GOL 205 A 1 HETATM 5 C C3 GOL . . . J 10 4.224 15.18 26.68 1 54.28 ? C3 GOL 205 A 1 HETATM 6 O O3 GOL . . . J 10 4.413 14.07 27.595 1 54.21 ? O3 GOL 205 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 227 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 6 #