data_1UBX # _model_server_result.job_id PprCet663GOD_Jo1DbWzKg _model_server_result.datetime_utc '2024-10-20 22:19:19' _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 1ubx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":401}' # _entry.id 1UBX # _exptl.entry_id 1UBX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 382.326 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'FARNESYL DIPHOSPHATE' _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 1UBX _cell.length_a 88.7 _cell.length_b 88.7 _cell.length_c 276.3 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1UBX _symmetry.cell_setting ? _symmetry.Int_Tables_number 98 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 41 2 2' # _pdbx_struct_assembly.method_details PISA,PQS _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 10_565 -x,-y+1,z -1 0 0 0 -1 0 0 0 1 0 88.7 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _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 OD2 ASP 117 A ASP 117 1_555 B MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.668 ? metalc ? metalc2 A OD2 ASP 121 A ASP 121 1_555 B MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.017 ? # _chem_comp.formula 'C15 H28 O7 P2' _chem_comp.formula_weight 382.326 _chem_comp.id FPP _chem_comp.mon_nstd_flag . _chem_comp.name 'FARNESYL DIPHOSPHATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 FPP sing 83 n n C1 C2 FPP sing 84 n n C1 H11 FPP sing 85 n n C1 H12A FPP sing 86 n n O1 PA FPP sing 87 n n C2 C3 FPP doub 88 e n C2 H2 FPP sing 89 n n C3 C4 FPP sing 90 n n C3 C5 FPP sing 91 n n C4 H41 FPP sing 92 n n C4 H42 FPP sing 93 n n C4 H43 FPP sing 94 n n C5 C6 FPP sing 95 n n C5 H51 FPP sing 96 n n C5 H52 FPP sing 97 n n C6 C7 FPP sing 98 n n C6 H61 FPP sing 99 n n C6 H62 FPP sing 100 n n C7 C8 FPP doub 101 e n C7 H7 FPP sing 102 n n C8 C10 FPP sing 103 n n C8 C9 FPP sing 104 n n C10 H101 FPP sing 105 n n C10 H102 FPP sing 106 n n C10 H103 FPP sing 107 n n C9 C11 FPP sing 108 n n C9 H91 FPP sing 109 n n C9 H92 FPP sing 110 n n C11 C12 FPP sing 111 n n C11 H111 FPP sing 112 n n C11 H112 FPP sing 113 n n C12 C13 FPP doub 114 n n C12 H12 FPP sing 115 n n C13 C14 FPP sing 116 n n C13 C15 FPP sing 117 n n C14 H141 FPP sing 118 n n C14 H142 FPP sing 119 n n C14 H143 FPP sing 120 n n C15 H151 FPP sing 121 n n C15 H152 FPP sing 122 n n C15 H153 FPP sing 123 n n PA O1A FPP doub 124 n n PA O2A FPP sing 125 n n PA O3A FPP sing 126 n n O2A HOA2 FPP sing 127 n n O3A PB FPP sing 128 n n PB O1B FPP doub 129 n n PB O2B FPP sing 130 n n PB O3B FPP sing 131 n n O2B HOB2 FPP sing 132 n n O3B HOB3 FPP sing 133 n n # _atom_sites.entry_id 1UBX _atom_sites.fract_transf_matrix[1][1] 0.011274 _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] 0.011274 _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] 0.003619 _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 1 402 402 MG MG . C 3 FPP A 1 401 401 FPP FPP . D 4 HOH A 1 403 403 HOH HOH . D 4 HOH A 2 404 404 HOH HOH . D 4 HOH A 3 405 405 HOH HOH . D 4 HOH A 4 406 406 HOH HOH . D 4 HOH A 5 407 407 HOH HOH . D 4 HOH A 6 408 408 HOH HOH . D 4 HOH A 7 409 409 HOH HOH . D 4 HOH A 8 410 410 HOH HOH . D 4 HOH A 9 411 411 HOH HOH . D 4 HOH A 10 412 412 HOH HOH . D 4 HOH A 11 413 413 HOH HOH . D 4 HOH A 12 414 414 HOH HOH . D 4 HOH A 13 415 415 HOH HOH . D 4 HOH A 14 417 417 HOH HOH . D 4 HOH A 15 418 418 HOH HOH . D 4 HOH A 16 419 419 HOH HOH . D 4 HOH A 17 420 420 HOH HOH . D 4 HOH A 18 421 421 HOH HOH . D 4 HOH A 19 422 422 HOH HOH . D 4 HOH A 20 423 423 HOH HOH . D 4 HOH A 21 424 424 HOH HOH . D 4 HOH A 22 425 425 HOH HOH . D 4 HOH A 23 426 426 HOH HOH . D 4 HOH A 24 427 427 HOH HOH . D 4 HOH A 25 428 428 HOH HOH . D 4 HOH A 26 429 429 HOH HOH . D 4 HOH A 27 430 430 HOH HOH . D 4 HOH A 28 431 431 HOH HOH . D 4 HOH A 29 432 432 HOH HOH . D 4 HOH A 30 433 433 HOH HOH . D 4 HOH A 31 434 434 HOH HOH . D 4 HOH A 32 435 435 HOH HOH . D 4 HOH A 33 436 436 HOH HOH . D 4 HOH A 34 437 437 HOH HOH . D 4 HOH A 35 438 438 HOH HOH . D 4 HOH A 36 439 439 HOH HOH . D 4 HOH A 37 440 440 HOH HOH . D 4 HOH A 38 441 441 HOH HOH . D 4 HOH A 39 442 442 HOH HOH . D 4 HOH A 40 443 443 HOH HOH . D 4 HOH A 41 444 444 HOH HOH . D 4 HOH A 42 445 445 HOH HOH . D 4 HOH A 43 446 446 HOH HOH . D 4 HOH A 44 447 447 HOH HOH . D 4 HOH A 45 448 448 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 FPP . . . C 3 5.581 31.442 103.149 1 53.39 ? C1 FPP 401 A 1 HETATM 2 O O1 FPP . . . C 3 4.986 30.218 103.633 1 64.59 ? O1 FPP 401 A 1 HETATM 3 C C2 FPP . . . C 3 4.64 32.257 102.284 1 47.49 ? C2 FPP 401 A 1 HETATM 4 C C3 FPP . . . C 3 4.626 32.275 100.934 1 39.64 ? C3 FPP 401 A 1 HETATM 5 C C4 FPP . . . C 3 5.624 31.436 100.112 1 44.6 ? C4 FPP 401 A 1 HETATM 6 C C5 FPP . . . C 3 3.617 33.149 100.24 1 29.2 ? C5 FPP 401 A 1 HETATM 7 C C6 FPP . . . C 3 2.829 34.048 101.223 1 44.81 ? C6 FPP 401 A 1 HETATM 8 C C7 FPP . . . C 3 1.733 34.942 100.608 1 54.72 ? C7 FPP 401 A 1 HETATM 9 C C8 FPP . . . C 3 1.309 36.188 100.98 1 64.31 ? C8 FPP 401 A 1 HETATM 10 C C10 FPP . . . C 3 1.949 36.939 102.174 1 66.27 ? C10 FPP 401 A 1 HETATM 11 C C9 FPP . . . C 3 0.164 36.842 100.183 1 61.27 ? C9 FPP 401 A 1 HETATM 12 C C11 FPP . . . C 3 0.62 37.987 99.229 1 59.9 ? C11 FPP 401 A 1 HETATM 13 C C12 FPP . . . C 3 1.086 37.566 97.829 1 62.16 ? C12 FPP 401 A 1 HETATM 14 C C13 FPP . . . C 3 1.952 38.212 96.977 1 65.27 ? C13 FPP 401 A 1 HETATM 15 C C14 FPP . . . C 3 2.303 37.755 95.577 1 68.95 ? C14 FPP 401 A 1 HETATM 16 C C15 FPP . . . C 3 2.625 39.531 97.298 1 62.65 ? C15 FPP 401 A 1 HETATM 17 P PA FPP . . . C 3 4.992 29.8 105.205 1 75.54 ? PA FPP 401 A 1 HETATM 18 O O1A FPP . . . C 3 3.699 30.301 105.934 1 78.65 ? O1A FPP 401 A 1 HETATM 19 O O2A FPP . . . C 3 5.191 28.276 105.08 1 72.05 ? O2A FPP 401 A 1 HETATM 20 O O3A FPP . . . C 3 6.016 30.483 106.125 1 74.73 ? O3A FPP 401 A 1 HETATM 21 P PB FPP . . . C 3 7.501 30.068 105.995 1 77.51 ? PB FPP 401 A 1 HETATM 22 O O1B FPP . . . C 3 7.749 28.566 106.116 1 81.6 ? O1B FPP 401 A 1 HETATM 23 O O2B FPP . . . C 3 8.159 30.709 107.195 1 87.46 ? O2B FPP 401 A 1 HETATM 24 O O3B FPP . . . C 3 8.283 30.399 104.728 1 74.03 ? O3B FPP 401 A 1 # _model_server_stats.io_time_ms 25 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 325 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 24 #