data_6DGN # _model_server_result.job_id xfDIsUuh6pxIYQVPruhZaQ _model_server_result.datetime_utc '2024-11-16 16:36:59' _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 6dgn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":303}' # _entry.id 6DGN # _exptl.entry_id 6DGN _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 4 _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 6DGN _cell.length_a 144.939 _cell.length_b 144.939 _cell.length_c 116.91 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6DGN _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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 1,2,3 # 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' 2_555 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 0 0 # 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 ? 3 G 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 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 6DGN _atom_sites.fract_transf_matrix[1][1] 0.006899 _atom_sites.fract_transf_matrix[1][2] 0.003983 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007967 _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] 0.008554 _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 GOL A 1 301 1 GOL GOL . D 3 GOL A 1 302 2 GOL GOL . E 3 GOL A 1 303 3 GOL GOL . F 4 PO4 A 1 304 4 PO4 PO4 . G 3 GOL A 1 305 5 GOL GOL . H 5 HOH A 1 401 73 HOH HOH . H 5 HOH A 2 402 90 HOH HOH . H 5 HOH A 3 403 121 HOH HOH . H 5 HOH A 4 404 147 HOH HOH . H 5 HOH A 5 405 119 HOH HOH . H 5 HOH A 6 406 47 HOH HOH . H 5 HOH A 7 407 53 HOH HOH . H 5 HOH A 8 408 109 HOH HOH . H 5 HOH A 9 409 12 HOH HOH . H 5 HOH A 10 410 16 HOH HOH . H 5 HOH A 11 411 92 HOH HOH . H 5 HOH A 12 412 37 HOH HOH . H 5 HOH A 13 413 78 HOH HOH . H 5 HOH A 14 414 83 HOH HOH . H 5 HOH A 15 415 134 HOH HOH . H 5 HOH A 16 416 20 HOH HOH . H 5 HOH A 17 417 137 HOH HOH . H 5 HOH A 18 418 87 HOH HOH . H 5 HOH A 19 419 136 HOH HOH . H 5 HOH A 20 420 21 HOH HOH . H 5 HOH A 21 421 5 HOH HOH . H 5 HOH A 22 422 6 HOH HOH . H 5 HOH A 23 423 10 HOH HOH . H 5 HOH A 24 424 88 HOH HOH . H 5 HOH A 25 425 85 HOH HOH . H 5 HOH A 26 426 61 HOH HOH . H 5 HOH A 27 427 25 HOH HOH . H 5 HOH A 28 428 30 HOH HOH . H 5 HOH A 29 429 13 HOH HOH . H 5 HOH A 30 430 139 HOH HOH . H 5 HOH A 31 431 48 HOH HOH . H 5 HOH A 32 432 43 HOH HOH . H 5 HOH A 33 433 45 HOH HOH . H 5 HOH A 34 434 60 HOH HOH . H 5 HOH A 35 435 41 HOH HOH . H 5 HOH A 36 436 130 HOH HOH . H 5 HOH A 37 437 79 HOH HOH . H 5 HOH A 38 438 111 HOH HOH . H 5 HOH A 39 439 14 HOH HOH . H 5 HOH A 40 440 1 HOH HOH . H 5 HOH A 41 441 74 HOH HOH . H 5 HOH A 42 442 22 HOH HOH . H 5 HOH A 43 443 3 HOH HOH . H 5 HOH A 44 444 91 HOH HOH . H 5 HOH A 45 445 46 HOH HOH . H 5 HOH A 46 446 135 HOH HOH . H 5 HOH A 47 447 29 HOH HOH . H 5 HOH A 48 448 24 HOH HOH . H 5 HOH A 49 449 23 HOH HOH . H 5 HOH A 50 450 35 HOH HOH . H 5 HOH A 51 451 4 HOH HOH . H 5 HOH A 52 452 80 HOH HOH . H 5 HOH A 53 453 108 HOH HOH . H 5 HOH A 54 454 28 HOH HOH . H 5 HOH A 55 455 31 HOH HOH . H 5 HOH A 56 456 7 HOH HOH . H 5 HOH A 57 457 17 HOH HOH . H 5 HOH A 58 458 15 HOH HOH . H 5 HOH A 59 459 126 HOH HOH . H 5 HOH A 60 460 2 HOH HOH . H 5 HOH A 61 461 33 HOH HOH . H 5 HOH A 62 462 36 HOH HOH . H 5 HOH A 63 463 120 HOH HOH . H 5 HOH A 64 464 26 HOH HOH . H 5 HOH A 65 465 32 HOH HOH . H 5 HOH A 66 466 11 HOH HOH . H 5 HOH A 67 467 77 HOH HOH . H 5 HOH A 68 468 19 HOH HOH . H 5 HOH A 69 469 93 HOH HOH . H 5 HOH A 70 470 8 HOH HOH . H 5 HOH A 71 471 59 HOH HOH . H 5 HOH A 72 472 89 HOH HOH . H 5 HOH A 73 473 116 HOH HOH . H 5 HOH A 74 474 38 HOH HOH . H 5 HOH A 75 475 34 HOH HOH . H 5 HOH A 76 476 40 HOH HOH . H 5 HOH A 77 477 107 HOH HOH . H 5 HOH A 78 478 124 HOH HOH . H 5 HOH A 79 479 49 HOH HOH . H 5 HOH A 80 480 50 HOH HOH . H 5 HOH A 81 481 99 HOH HOH . H 5 HOH A 82 482 146 HOH HOH . H 5 HOH A 83 483 114 HOH HOH . H 5 HOH A 84 484 100 HOH HOH . H 5 HOH A 85 485 123 HOH HOH . H 5 HOH A 86 486 98 HOH HOH . H 5 HOH A 87 487 44 HOH HOH . H 5 HOH A 88 488 65 HOH HOH . H 5 HOH A 89 489 104 HOH HOH . H 5 HOH A 90 490 84 HOH HOH . H 5 HOH A 91 491 75 HOH HOH . H 5 HOH A 92 492 9 HOH HOH . H 5 HOH A 93 493 141 HOH HOH . H 5 HOH A 94 494 129 HOH HOH . H 5 HOH A 95 495 42 HOH HOH . H 5 HOH A 96 496 18 HOH HOH . H 5 HOH A 97 497 131 HOH HOH . H 5 HOH A 98 498 64 HOH HOH . H 5 HOH A 99 499 57 HOH HOH . H 5 HOH A 100 500 101 HOH HOH . H 5 HOH A 101 501 81 HOH HOH . H 5 HOH A 102 502 95 HOH HOH . H 5 HOH A 103 503 86 HOH HOH . H 5 HOH A 104 504 27 HOH HOH . H 5 HOH A 105 505 39 HOH HOH . H 5 HOH A 106 506 144 HOH HOH . H 5 HOH A 107 507 94 HOH HOH . H 5 HOH A 108 508 102 HOH HOH . H 5 HOH A 109 509 76 HOH HOH . H 5 HOH A 110 510 71 HOH HOH . H 5 HOH A 111 511 113 HOH HOH . H 5 HOH A 112 512 117 HOH HOH . H 5 HOH A 113 513 52 HOH HOH . H 5 HOH A 114 514 72 HOH HOH . H 5 HOH A 115 515 125 HOH HOH . H 5 HOH A 116 516 103 HOH HOH . H 5 HOH A 117 517 66 HOH HOH . H 5 HOH A 118 518 133 HOH HOH . H 5 HOH A 119 519 51 HOH HOH . H 5 HOH A 120 520 142 HOH HOH . H 5 HOH A 121 521 118 HOH HOH . I 5 HOH B 1 101 68 HOH HOH . I 5 HOH B 2 102 128 HOH HOH . I 5 HOH B 3 103 143 HOH HOH . I 5 HOH B 4 104 56 HOH HOH . I 5 HOH B 5 105 62 HOH HOH . I 5 HOH B 6 106 127 HOH HOH . I 5 HOH B 7 107 140 HOH HOH . I 5 HOH B 8 108 97 HOH HOH . I 5 HOH B 9 109 67 HOH HOH . I 5 HOH B 10 110 132 HOH HOH . I 5 HOH B 11 111 112 HOH HOH . I 5 HOH B 12 112 105 HOH HOH . I 5 HOH B 13 113 63 HOH HOH . I 5 HOH B 14 114 58 HOH HOH . I 5 HOH B 15 115 70 HOH HOH . I 5 HOH B 16 116 115 HOH HOH . I 5 HOH B 17 117 138 HOH HOH . I 5 HOH B 18 118 82 HOH HOH . I 5 HOH B 19 119 69 HOH HOH . I 5 HOH B 20 120 106 HOH HOH . I 5 HOH B 21 121 110 HOH HOH . I 5 HOH B 22 122 54 HOH HOH . I 5 HOH B 23 123 122 HOH HOH . I 5 HOH B 24 124 145 HOH HOH . I 5 HOH B 25 125 96 HOH HOH . I 5 HOH B 26 126 55 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 . . . E 3 9.749 18.022 10.788 1 52.87 ? C1 GOL 303 A 1 HETATM 2 O O1 GOL . . . E 3 9.777 19.283 11.393 1 48.05 ? O1 GOL 303 A 1 HETATM 3 C C2 GOL . . . E 3 11.053 17.299 11.187 1 58.02 ? C2 GOL 303 A 1 HETATM 4 O O2 GOL . . . E 3 11.693 17.931 12.241 1 58.58 ? O2 GOL 303 A 1 HETATM 5 C C3 GOL . . . E 3 10.623 15.858 11.545 1 62.45 ? C3 GOL 303 A 1 HETATM 6 O O3 GOL . . . E 3 10 15.331 10.413 1 65.43 ? O3 GOL 303 A 1 HETATM 7 H H11 GOL . . . E 3 8.985 17.49 11.061 1 63.47 ? H11 GOL 303 A 1 HETATM 8 H H12 GOL . . . E 3 9.691 18.091 9.822 1 63.47 ? H12 GOL 303 A 1 HETATM 9 H HO1 GOL . . . E 3 9.617 19.159 12.219 1 57.68 ? HO1 GOL 303 A 1 HETATM 10 H H2 GOL . . . E 3 11.685 17.3 10.451 1 69.64 ? H2 GOL 303 A 1 HETATM 11 H HO2 GOL . . . E 3 11.231 17.801 12.943 1 70.31 ? HO2 GOL 303 A 1 HETATM 12 H H31 GOL . . . E 3 11.399 15.354 11.838 1 74.96 ? H31 GOL 303 A 1 HETATM 13 H H32 GOL . . . E 3 10.027 15.878 12.31 1 74.96 ? H32 GOL 303 A 1 HETATM 14 H HO3 GOL . . . E 3 9.687 14.574 10.636 1 78.54 ? HO3 GOL 303 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 304 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 14 #