data_5W3I # _model_server_result.job_id LlAWKd7AqRuJfJIpscp7zQ _model_server_result.datetime_utc '2024-11-24 20:43:34' _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 5w3i # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":303}' # _entry.id 5W3I # _exptl.entry_id 5W3I _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 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 120 _cell.entry_id 5W3I _cell.length_a 61.162 _cell.length_b 61.162 _cell.length_c 94.813 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5W3I _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 # _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 3 _struct_asym.id D _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 metalc ? metalc1 A NE2 HIS 41 A HIS 41 1_555 B MN MN . A MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.315 ? metalc ? metalc2 A OE2 GLU 61 A GLU 80 1_555 C MN MN . A MN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.121 ? metalc ? metalc3 A OD1 ASP 89 A ASP 108 1_555 B MN MN . A MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.16 ? metalc ? metalc4 A OD2 ASP 89 A ASP 108 1_555 C MN MN . A MN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.092 ? metalc ? metalc5 A OE1 GLU 100 A GLU 119 1_555 B MN MN . A MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? metalc ? metalc6 A O ILE 101 A ILE 120 1_555 B MN MN . A MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.195 ? metalc ? metalc7 B MN MN . A MN 301 1_555 E O02 GY5 . A GY5 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.148 ? metalc ? metalc8 B MN MN . A MN 301 1_555 E O01 GY5 . A GY5 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.159 ? metalc ? metalc9 C MN MN . A MN 302 1_555 E O01 GY5 . A GY5 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? metalc ? metalc10 C MN MN . A MN 302 1_555 E O03 GY5 . A GY5 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? metalc ? metalc11 C MN MN . A MN 302 1_555 F O HOH . A HOH 411 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.182 ? metalc ? metalc12 C MN MN . A MN 302 1_555 F O HOH . A HOH 428 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.335 ? # _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 5W3I _atom_sites.fract_transf_matrix[1][1] 0.01635 _atom_sites.fract_transf_matrix[1][2] 0.00944 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018879 _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] 0.010547 _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 MN A 1 301 201 MN MN . C 2 MN A 1 302 202 MN MN . D 3 GOL A 1 303 1 GOL GOL . E 4 GY5 A 1 304 1 GY5 GY5 . F 5 HOH A 1 401 3 HOH HOH . F 5 HOH A 2 402 177 HOH HOH . F 5 HOH A 3 403 171 HOH HOH . F 5 HOH A 4 404 29 HOH HOH . F 5 HOH A 5 405 110 HOH HOH . F 5 HOH A 6 406 34 HOH HOH . F 5 HOH A 7 407 13 HOH HOH . F 5 HOH A 8 408 39 HOH HOH . F 5 HOH A 9 409 4 HOH HOH . F 5 HOH A 10 410 176 HOH HOH . F 5 HOH A 11 411 5 HOH HOH . F 5 HOH A 12 412 37 HOH HOH . F 5 HOH A 13 413 21 HOH HOH . F 5 HOH A 14 414 123 HOH HOH . F 5 HOH A 15 415 64 HOH HOH . F 5 HOH A 16 416 168 HOH HOH . F 5 HOH A 17 417 19 HOH HOH . F 5 HOH A 18 418 65 HOH HOH . F 5 HOH A 19 419 57 HOH HOH . F 5 HOH A 20 420 6 HOH HOH . F 5 HOH A 21 421 8 HOH HOH . F 5 HOH A 22 422 41 HOH HOH . F 5 HOH A 23 423 11 HOH HOH . F 5 HOH A 24 424 18 HOH HOH . F 5 HOH A 25 425 66 HOH HOH . F 5 HOH A 26 426 10 HOH HOH . F 5 HOH A 27 427 169 HOH HOH . F 5 HOH A 28 428 9 HOH HOH . F 5 HOH A 29 429 15 HOH HOH . F 5 HOH A 30 430 174 HOH HOH . F 5 HOH A 31 431 1 HOH HOH . F 5 HOH A 32 432 23 HOH HOH . F 5 HOH A 33 433 62 HOH HOH . F 5 HOH A 34 434 38 HOH HOH . F 5 HOH A 35 435 181 HOH HOH . F 5 HOH A 36 436 175 HOH HOH . F 5 HOH A 37 437 61 HOH HOH . F 5 HOH A 38 438 97 HOH HOH . F 5 HOH A 39 439 22 HOH HOH . F 5 HOH A 40 440 167 HOH HOH . F 5 HOH A 41 441 173 HOH HOH . F 5 HOH A 42 442 84 HOH HOH . F 5 HOH A 43 443 51 HOH HOH . F 5 HOH A 44 444 16 HOH HOH . F 5 HOH A 45 445 170 HOH HOH . F 5 HOH A 46 446 26 HOH HOH . F 5 HOH A 47 447 27 HOH HOH . F 5 HOH A 48 448 25 HOH HOH . F 5 HOH A 49 449 35 HOH HOH . F 5 HOH A 50 450 172 HOH HOH . F 5 HOH A 51 451 20 HOH HOH . F 5 HOH A 52 452 45 HOH HOH . F 5 HOH A 53 453 72 HOH HOH . F 5 HOH A 54 454 178 HOH HOH . F 5 HOH A 55 455 2 HOH HOH . F 5 HOH A 56 456 125 HOH HOH . F 5 HOH A 57 457 166 HOH HOH . F 5 HOH A 58 458 12 HOH HOH . F 5 HOH A 59 459 14 HOH HOH . F 5 HOH A 60 460 179 HOH HOH . F 5 HOH A 61 461 17 HOH HOH . F 5 HOH A 62 462 99 HOH HOH . F 5 HOH A 63 463 180 HOH HOH . F 5 HOH A 64 464 148 HOH HOH . F 5 HOH A 65 465 56 HOH HOH . F 5 HOH A 66 466 52 HOH HOH . F 5 HOH A 67 467 42 HOH HOH . F 5 HOH A 68 468 48 HOH HOH . F 5 HOH A 69 469 50 HOH HOH . F 5 HOH A 70 470 33 HOH HOH . F 5 HOH A 71 471 28 HOH HOH . F 5 HOH A 72 472 96 HOH HOH . F 5 HOH A 73 473 49 HOH HOH . F 5 HOH A 74 474 157 HOH HOH . F 5 HOH A 75 475 164 HOH HOH . F 5 HOH A 76 476 156 HOH HOH . F 5 HOH A 77 477 165 HOH HOH . F 5 HOH A 78 478 75 HOH HOH . F 5 HOH A 79 479 154 HOH HOH . F 5 HOH A 80 480 152 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 22.471 -3.631 -4.596 1 25.39 ? C1 GOL 303 A 1 HETATM 2 O O1 GOL . . . D 3 21.291 -3.554 -3.83 1 22.94 ? O1 GOL 303 A 1 HETATM 3 C C2 GOL . . . D 3 22.381 -2.651 -5.757 1 25.17 ? C2 GOL 303 A 1 HETATM 4 O O2 GOL . . . D 3 23.567 -2.749 -6.514 1 23.43 ? O2 GOL 303 A 1 HETATM 5 C C3 GOL . . . D 3 22.169 -1.233 -5.219 1 26.72 ? C3 GOL 303 A 1 HETATM 6 O O3 GOL . . . D 3 23.223 -0.839 -4.361 1 25.32 ? O3 GOL 303 A 1 HETATM 7 H H11 GOL . . . D 3 22.599 -4.645 -4.976 1 30.49 ? H11 GOL 303 A 1 HETATM 8 H H12 GOL . . . D 3 23.333 -3.389 -3.973 1 30.49 ? H12 GOL 303 A 1 HETATM 9 H HO1 GOL . . . D 3 21.317 -4.229 -3.12 1 27.55 ? HO1 GOL 303 A 1 HETATM 10 H H2 GOL . . . D 3 21.525 -2.921 -6.375 1 30.22 ? H2 GOL 303 A 1 HETATM 11 H HO2 GOL . . . D 3 23.525 -2.125 -7.269 1 28.13 ? HO2 GOL 303 A 1 HETATM 12 H H31 GOL . . . D 3 21.226 -1.19 -4.675 1 32.07 ? H31 GOL 303 A 1 HETATM 13 H H32 GOL . . . D 3 22.104 -0.535 -6.054 1 32.07 ? H32 GOL 303 A 1 HETATM 14 H HO3 GOL . . . D 3 22.851 -0.422 -3.556 1 30.39 ? 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 3 _model_server_stats.query_time_ms 289 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 14 #